1 Novel Expression Signatures Identified by Transcriptional Analysis

Home , ACTR2, ADAM2, ALS2CR2, ALS2CR8, ARFIP1, Arrestin beta 2

ARD Online First, published on October 8, 2009 as 10.1136/ard.2009.108043 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Novel expression signatures identified by transcriptional analysis of separated leukocyte subsets in SLE and vasculitis 1Paul A Lyons, 1Eoin F McKinney, 1Tim F Rayner, 1Alexander Hatton, 1Hayley B Woffendin, 1Maria Koukoulaki, 2Thomas C Freeman, 1David RW Jayne, 1Afzal N Chaudhry, and 1Kenneth GC Smith.

1Cambridge Institute for Medical Research and Department of Medicine, Addenbrooke’s Hospital, Hills Road, Cambridge, CB2 0XY, UK 2Roslin Institute, University of Edinburgh, Roslin, Midlothian, EH25 9PS, UK

Correspondence should be addressed to Dr Paul Lyons or Prof Kenneth Smith, Department of Medicine, Cambridge Institute for Medical Research, Addenbrooke’s Hospital, Hills Road, Cambridge, CB2 0XY, UK. Telephone: +44 1223 762642, Fax: +44 1223 762640, E-mail: [email protected] or [email protected]

Key words: Gene expression, autoimmune disease, SLE, vasculitis Word count: 2,906 The Corresponding Author has the right to grant on behalf of all authors and does grant on behalf of all authors, an exclusive licence (or non-exclusive for government employees) on a worldwide basis to the BMJ Publishing Group Ltd and its Licensees to permit this article (if accepted) to be published in Annals of the Rheumatic Diseases and any other BMJPGL products to exploit all subsidiary rights, as set out in their licence (http://ard.bmj.com/ifora/licence.pdf). http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

Copyright Article author (or their employer) 2009. Produced by BMJ Publishing Group Ltd (& EULAR) under licence. Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

ABSTRACT Objective: To optimize a strategy for identifying gene expression signatures differentiating SLE and anti-neutrophil cytoplasmic antibody-associated vasculitis that provide insight into the pathogenesis and identify biomarkers. Methods: Forty four vasculitis patients, 13 SLE patients and 25 age and sex-matched controls were enrolled. CD4 and CD8 T cells, B cells, monocytes and neutrophils were isolated from each patient and, together with unseparated peripheral blood mononuclear cells (PBMC), were hybridised to spotted oligonucleotide microarrays. Results: Using expression data obtained from purified cells we identified a substantial number of differentially expressed genes that were not detectable in the analysis of PBMC. Analysis of purified T cells identified an SLE-associated, CD4 T cell signature consistent with type 1 interferon signalling driving the generation and survival of tissue homing T cells and thereby contributing to disease pathogenesis. Moreover, hierarchical clustering using expression data from purified monocytes provided significantly improved discrimination between the patient groups than that obtained using PBMC data, presumably because the differentially expressed genes reflect genuine differences in processes underlying disease pathogenesis. Conclusion: The analysis of leucocyte subsets enabled the identification of gene signatures of both pathogenic relevance and with better disease discrimination than those identified in PBMCs. Thus, this approach provides substantial advantages in the search for diagnostic and prognostic biomarkers in autoimmune disease. http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

2 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

INTRODUCTION The identification of gene expression signatures differentiating patients with systemic lupus erythematosus (SLE) and anti-neutrophil cytoplasmic antibody (ANCA)-associated small vessel vasculitis (AAV) may well provide clinically relevant biomarkers as well as insights into disease pathogenesis. Over the last decade the use of microarray-based expression profiling as a tool for the identification of both diagnostic and prognostic biomarkers has grown immensely. This has been most apparent in oncology, where array-based gene signatures have been used to reveal novel clinically relevant patient subgroups,[1, 2] predict treatment response,[3] identify patients at risk of metastasis,[4] and provide insight into the underlying molecular pathology.[5] Array-based diagnostic tests are starting to enter clinical oncology practice as a direct consequence of this work.[6] In autoimmune disease, unlike oncology, the choice of material to profile is not straightforward. Most studies published so far have used heterogeneous populations of blood cells, either total leukocytes or Ficoll-purified peripheral blood mononuclear cells (PBMC). As a consequence many of the signatures that have been reported may be attributable to differences in the relative abundance of individual leukocyte populations, which has been suggested [7] but not yet directly addressed. One strategy to circumvent this issue and identify cell-intrinsic expression signatures would be to profile purified populations of cells. While a few studies have profiled single populations of cells,[8-10] no studies have looked across all major leukocyte types simultaneously, or directly compared arrays of separated cells with those of PBMC. As a consequence many subtle, cell-type specific changes may be missed [11] and signatures that are found may be attributable to differences in the relative abundance of individual leukocyte populations. We have therefore developed a cell separation protocol that allows the isolation of CD4 and CD8 T cells, CD19 B cells, CD14 monocytes and CD16 http://ard.bmj.com/ neutrophils from individual patients.[12] Although this protocol utilizes two sequential rounds of positive selection using magnetic beads, it produces cell samples in which gene expression levels are essentially identical to those of untouched cells.[12] While several studies have applied expression profiling to the study of SLE,[13-17] only one study has examined AAV.[18] This study profiled unseparated leukocytes and on October 2, 2021 by guest. Protected copyright. showed some discrimination between patients with AAV and SLE, but it did not address the issue of whether the gene signatures observed could be explained by differences in relative size of leukocyte subsets between their patient cohorts. In this study we confirm that controls and patients with AAV and SLE cannot be accurately discriminated at a transcriptional level using unseparated PBMC, but demonstrate for the first time that arrays of purified leukocyte subsets achieve superior differentiation of disease and control populations and allow identification of novel disease-related expression signatures. The analysis of purified leukocyte subsets demonstrated that the large majority of disease specific expression differences found were not seen in the PBMC analysis. These cell intrinsic differences are likely to provide more insight into disease pathology and offer a greater chance of detecting clinically useful biomarkers.

3 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

PATIENTS AND METHODS Full details of patient cohorts and experimental procedures are provided online (See supplementary file). Patient and control cohorts. Thirteen patients with active SLE and 44 patients with active AAV attending the lupus and vasculitis clinic at Addenbrooke’s Hospital, together with 25 age and sex-matched controls, were enrolled into the study. Cell separation, RNA extraction and microarray hybridization. PBMC, CD4 and CD8 T cell, CD19 B cell, CD14 monocyte and CD16 neutrophil samples were isolated as previously described.[12] Following extraction, RNA was labeled and hybridized to microarrays as previously described.[19] Microarray data analysis. Raw image data was imported into R for normalisation and assessment of differential expression using the Limma package in bioconductor.[20] http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

4 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

RESULTS Differences observed in the transcriptomes of unseparated leukocytes from normal controls and patients with SLE or AAV largely reflect changes in their cellular composition. To determine the extent of similarity between SLE and AAV at a transcriptional level we profiled unseparated PBMC RNA from 28 patients with AAV, 12 with SLE and 21 normal controls (arrays from 4 AAV, 3 SLE, and 4 control samples failed QC and were not included in subsequent analyses). Data for 15,255 of the probes on the array was present in all 61 samples and was subjected to ANOVA with correction for multiple testing [21] to identify differentially expressed genes among the three groups. This yielded 3,549 statistically significant probes when the FDR was set at 5% (Supplementary Table 3). Unsupervised hierarchical clustering using this data broadly separated the samples into 3 groups; however they bore little resemblance to the original diagnostic classes (Figure 1A). Group 1 contained 17 of 21 control samples, however 45% of group 1 samples were from patients with AAV. Groups 2 and 3 were comprised predominantly of patient samples (26 of 30), with SLE and AAV being equally distributed between them. Post-hoc analysis of the differentially expressed probes identified the genes that best differentiated SLE patients from controls (n = 89, Supplementary Table 4), AAV patients from controls (n = 61, Supplementary Table 5), and SLE and AAV patients (n = 41, Supplementary Table 6). The transcripts differentiating SLE from control encode type 1 interferon-inducible proteins, immunoglobulin, or proteins expressed in immature granulocytes (Figure 1B and C), consistent with previous reports.[13, 14] The 61 transcripts differentiating AAV from control mainly encoded proteins expressed in immature granulocytes (Figure 1D, see also [18]). The type 1 interferon signature was completely absent in the AAV patients (Figure 1E). Consistent with this, analysis of the 41 probes discriminating SLE and AAV patients revealed that they were primarily transcripts up-regulated in SLE which encode immunoglobulin or type 1 interferon http://ard.bmj.com/ inducible proteins. Thus the granulopoiesis signature is common to both diseases, the type 1 interferon and plasmablast signatures are restricted to SLE. The granulopoiesis signature has previously been associated with contamination of the PBMC fraction by immature granulocytes.[13] This was confirmed by flow cytometry

(Supplementary Figure 1A and B), and there was a strong correlation between the on October 2, 2021 by guest. Protected copyright. expression of genes from the granulopoiesis signature and immature granulocyte number (Supplementary Figure 1C). Interestingly, while the interferon and granulopoiesis signatures are found in almost all SLE patients, the plasmablast signature is absent in approximately one third. Patients with the plasmablast signature had significantly elevated serum IgG (Figure 1F), and a trend towards higher ANA and dsDNA autoantibody levels (Supplementary Figure 2A). They had significantly more active disease at enrolment (Figure 1G), but no difference in flare-free survival following induction therapy (Supplementary Figure 2B), suggesting the plasmablast signature is associated with disease activity rather than long-term prognosis. The probes representing the interferon, plasmablast and granulopoiesis signatures represent only a small fraction of the differentially expressed genes (vertical blue bar,

5 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Figure 1A). The majority of the remaining genes could be broken down into two broad groups; those either up- or down-regulated in controls compared to patients irrespective of diagnosis (Figure 1A, vertical orange or yellow bar, respectively). While these genes contained no obvious functional signatures, closer examination revealed that those upregulated in controls tended to be expressed more highly in cells of the lymphoid lineage (Supplementary Figure 3A), and those down-regulated were expressed more highly in the myeloid lineage (Supplementary Figure 3B). Analysis of PBMC composition in AAV and SLE patients and controls revealed a significant relative T cell lymphopenia affecting both the CD4 and CD8 populations in AAV patients, but just the CD4 population in SLE patients, together with a significant relative monocytosis in both groups compared to controls (Figure 1H). These differences in composition are likely to explain the majority of the expression differences observed above. The ANOVA results also pointed to a CD8 T cell signature differentiating AAV patients and controls (vertical purple bar, Figure 1A), due to a number of genes primarily expressed in CD8 T cells being down-regulated in AAV patients (Supplementary Table 7). This most likely reflects the specific relative CD8 T cell lymphopenia seen in AAV patients (Figure 1H-I). Microarray analysis of purified leukocyte subsets from AAV and SLE patients identifies cell-intrinsic expression differences. To look for cell-specific expression changes that might provide clinically useful biomarkers we carried out a microarray analysis on purified CD4 and CD8 T cells, B cells, monocytes and neutrophils isolated at the same time as the PBMC from SLE or AAV patients described above. Imposition of a 1.5 fold change cut-off identified 229 probes from the PBMC data that showed significant differential expression between SLE patients and controls (Figure 2A). Of these, 112 belonged to the interferon, granulopoiesis or plasmablast signatures with the remaining 117 falling into the unassigned category. Analysis of the purified http://ard.bmj.com/ leukocyte subsets identified many more differentially expressed genes, with a remarkably small overlap with those found in PBMC (6.5% in neutrophils to 39% in monocytes; Figure 2A and specific examples in Supplementary Figure 4). Of the 1,607 cell-specific genes differentiating disease from control seen across the 5 cell types, 86% were missed on PBMC analysis. The plasmablast signature was not seen in the B cell samples, nor the

granulopoiesis signature in the neutrophils, further supporting the conclusion that these on October 2, 2021 by guest. Protected copyright. arise from differences in PBMC composition between SLE patients and controls. The only expression signature seen consistently across all cell subsets was the interferon signature (Figure 2A and Supplementary Figure 4). In a similar analysis of the AAV samples, 843 probes were found to be differentially expressed in PBMC samples between patients and controls (Figure 2B), most falling into the “unassigned” category. As in the SLE patients, there was little overlap between differentially expressed genes identified in the purified cell subsets and PBMC (specific examples in Supplementary Figure 4); from 8% in B cells to 43% in CD4 T cells (Figure 2B). We performed quantitative PCR which confirmed the significant correlation between expression measured by microarray or qPCR (Supplementary Figure 5).

6 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Purified CD4 T cell analysis reveals an SLE-specific activation signature. Among the 211 genes that show significant differential expression in CD4 T cells between SLE patients and controls (Supplementary Table 8), the biggest cluster represents interferon- inducible transcripts (Figure 2A). In agreement with other studies [13, 14] the upregulation of interferon inducible genes was not seen in all patients, and was independent of treatment at enrolment (Supplementary Figure 6). To look for co-ordinated dysregulation of other pathways in the CD4 expressed genes differentially expressed in SLE patients we searched the KEGG (www.genome.ad.jp), BioCarta (www.biocarta.com), and GenMAPP (www.genmapp.org) databases using the Pathway Miner tool.[22] This analysis revealed a network of differentially expressed genes broadly related to T cell activation (Figure 3A). An identical analysis of genes differentially expressed in PBMC samples from SLE patients failed to reveal these expression differences (Supplementary Figure 7 and data not shown), as did a specific search for them using GSEA (Figure 3B). Interestingly, the expression of many genes in the network was strongly correlated with STAT1 expression (Figure 3C), suggesting their expression may be regulated by signalling downstream of the type 1 interferon receptor. In keeping with this, analysis of a 2 kb segment of DNA immediately upstream of the start site of each of the 28 genes in the signature revealed the presence of consensus interferon response factor (IRF) 3 and/or 7 binding sites [23] in the majority of cases (Supplementary Table 9). GSEA did not identify this signature in CD4 T cells from AAV patients (peak enrichment score = 0.35, p = 0.81), indicating it may be SLE-specific. This finding is in agreement with the observation that type 1 interferon signalling keeps activated murine T cells alive, independent of a measurable effect on BCL2 or BCL2L1 (Bcl-X) levels.[24] Consistent with this, we observed no difference in the expression level of these genes between SLE patients and controls (Figure 3D), however, expression http://ard.bmj.com/ of the pro-apoptotic molecule BNIP3L is reduced and that of the anti-apoptotic molecule CFLAR elevated in SLE patients (Figure 3D). Thus, cell-specific array analysis has identified a novel IFN-associated, CD4 T cell signature, which immediately suggests a mechanism for driving SLE pathogenesis. Gene expression in monocytes differentiates patients with AAV and SLE from each on October 2, 2021 by guest. Protected copyright. other and from controls more robustly than PBMC data. Gene expression data from unseparated PBMC samples is unable to efficiently discriminate SLE and AAV patients from each other or from controls (Figure 1A and Supplementary Figure 8). To determine if expression data from purified cells results in improved clustering, we analysed monocyte-derived microarray data from 13 SLE patients, 44 AAV patients and 25 normal controls (2 SLE samples failed QC). Data from 20,495 probes was subjected to ANOVA with correction for multiple testing to detect differentially expressed probes among the three groups. Post-hoc analysis identified 15 probes that best differentiated AAV patients from controls, 38 probes that differentiated SLE patients from controls, and 41 probes that separated AAV and SLE patients. Hierarchical clustering of the 82 monocyte samples with the non-redundant list of probes generated from this analysis (Supplementary Table 10) clearly separated the samples into three groups (Figure 4). Of the 14 samples in Group 1, 12 are SLE patients, in Group 2, 20 of the 21 samples are controls, and in Group 3, 42 of the 47 samples are AAV patients (Figure 4). Thus, in

7 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from comparison to the clustering obtained using PBMC data (Figure 1A and Supplementary Figure 8); the monocyte data gave a much cleaner separation between diagnostic groups. The most prominent feature of the ANOVA-derived gene list is a cluster of 42 interferon inducible genes (vertical blue bar, Figure 4 and Supplementary Table 10), high expression of which differentiates the SLE patients in Group1 from the rest. The remaining 16 probes predominantly represent genes upregulated in both disease groups compared to control (Supplementary Table 10), and are enriched for genes encoding components of the acute phase response, including haptoglobin and orosomucoid (Supplementary Table 10). http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

8 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

DISCUSSION While the analysis of PBMC array data may identify expression differences of pathological importance, for example the interferon signature in SLE, it is clear that many of the differences between disease and control are due to variation in the proportion of cell subsets and are thus not seen when purified cell subsets are arrayed. Perhaps the best examples of such signatures are the plasmablast and granulocyte signatures seen in SLE patients; both reflect plasmablasts or immature granulocytes present in the PBMC. Most differentially expressed genes found in purified subsets were not found in PBMC. This was true for genes differentially expressed in rarer cell types, for example B cells, but also for those expressed in both CD4 and CD8 cells, which together make up the biggest proportion of PBMC. Surprisingly, PBMC analysis even failed to detect expression differences unique to genes expressed in only a single cell type. However, once a gene signature has been identified in purified cells it may then be feasible in follow up studies to test for the signature in unseparated cells using qPCR of selected genes less influenced by population variation or by bioinformatics normalisation for cell proportions. Analysis of purified T cells revealed an SLE-associated T cell signature not seen in PBMC analyses,[13, 14] which may play a role in pathogenesis. T cells infiltrate inflamed organs and provide help for autoreactive B cells in SLE (reviewed in [25]), and a number of T cell defects have been reported in SLE patients (reviewed [26, 27]). The majority of the genes making up the T cell signature have promoters that contain consensus IRF3 and/or IRF7 binding sites and their expression levels correlate strongly with that of STAT1, suggesting that the signature might be driven by type 1 interferon signalling. One component of this signature is increased expression of CXCR6, the receptor for CXCL16,[28] which is expressed on a proportion of memory T cells and CD16+ NK cells http://ard.bmj.com/ and is upregulated on activation.[29] CXCR6 defines a subset of memory/effector T cells with tissue-homing potential [30], and consistent with this CXCR6+ T cells are enriched in inflamed tissues from a number of inflammatory conditions, including rheumatoid arthritis,[30] Graves’ disease,[31] and sarcoidosis,[32] and treatment with an anti- CXCL16 monoclonal antibody reduces the severity of collagen-induced arthritis in mice.[33] Thus, this first association of CXCR6 on CD4 T cells with SLE might be on October 2, 2021 by guest. Protected copyright. associated with tissue inflammation. Type 1 interferon signalling promotes activated T cell survival.[24] The decreased expression of the pro-apoptotic molecule BNIP3L in SLE patients is particularly interesting as it is a functional homologue of BNIP3, which has been shown to play a role in activation induced T cell death.[34] Similarly, CFLAR, also upregulated by type 1 interferon,[35] protects T cells from TCR-mediated apoptosis.[36] This is an example of a disease-related signature providing insight into pathogenesis that is only seen in purified cells. Fundamental to the generation of expression-based diagnostic biomarkers is accurate clustering of patients by diagnosis. Expression data from unseparated cells is very poor at differentiating SLE and AAV. However, data from purified cells results in significantly improved discrimination, presumably because the differentially expressed

9 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

genes reflect genuine differences in processes underlying disease pathogenesis rather than simply differences in relative cell proportion. It has long been hoped that microarrays would yield diagnostic tests in autoimmunity; our data suggests that analysis of purified cell populations is a superior way to achieve this. While array analysis of PBMC provides some useful information, use of purified cell subsets identifies many more differentially expressed disease specific genes. Such analysis promises to provide substantial advantages in the search for diagnostic and prognostic biomarkers in autoimmune disease. http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

10 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

ACKNOWLEDGMENTS We are grateful to the NIHR Cambridge Biomedical Research Centre, the Wellcome Trust, Kidney Research UK, the Medical Research Council, and the Evelyn Trust for financial support. The Cambridge Institute for Medical Research is in receipt of a Wellcome Trust Strategic Award (079895). We would like to thank the Wellcome Trust Clinical Research Facility at Addenbrooke’s Hospital, and all the patients and controls who have contributed to this study. KGCS is a Lister Prize Fellow.

AUTHORS CONTRIBUTION PAL, AH, HBW, TFR, and MK carried out the experimental work. PAL, EFM, TFR, and KGCS analysed the data. TCF developed the microarray platform. ANC, MK, EFM, KGCS, and DRWJ were responsible for patient recruitment and sample and clinical data collection PAL and KGCS conceived the study and wrote the manuscript. All authors read and commented on the final manuscript. http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

11 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

FIGURE LEGENDS Figure 1. Differences in cellular composition largely drive gene expression signatures seen in comparisons of PBMC samples. (A) Hierarchical clustering of PBMC samples from AAV and SLE patients and controls broadly separates the samples into three groups. The numbers below the heatmap show the distribution of AAV, SLE and control samples between the three groups. Vertical bars identify the following gene signatures; interferon, plasmablast and granulopoiesis (blue), CD8 T cell (purple), lymphoid (orange), and myeloid (yellow). (B-E) Gene set enrichment analysis was performed to look for enrichment of the interferon and granulopoiesis signatures described by Bennett et al [13]. (B) Interferon inducible genes are significantly enriched in SLE patients , (C and D) Granulopoiesis associated genes are significantly enriched in both SLE (C) and AAV (D) patients, and (E) interferon inducible genes are not enriched in AAV patients. (F) Serum IgG but not IgM levels correlate with the presence of the plasmablast signature. PB sig +ve and –ve indicates patients with or without the plasmablast signature, respectively. (G) The plasmablast signature is associated with increased disease activity at enrolment. Horizontal bars denote the mean and statistical significance was determined using a t test. (H) AAV and SLE patients have reduced CD4 T cell and increased CD14 monocyte levels, and, in addition, AAV patients have significantly reduced CD8 T cell levels compared to controls. Horizontal bars denote the mean, statistical significance was determined using ANOVA followed by post-hoc testing, * p < 0.05, ** p < 0.01, *** p < 0.001. (I) CD8A mRNA levels correlate with the relative abundance of CD8 T cells in the PBMC samples arrayed. Figure 2. Expression profiling purified cells identifies large numbers of novel expression differences. (A and B) Differential gene expression was measured in purified cell subsets from both SLE (A) and AAV (B) patients. Pie charts represent individual cell types and their size is proportional to the number of differentially expressed genes observed in each. Differentially expressed genes were defined as expression differences greater than http://ard.bmj.com/ 1.5 fold found to be statistically significant following correction for multiple testing by setting the false discovery rate to 5%. Figure 3. A gene signature consistent with T cell activation is found in CD4 samples from SLE, but not AAV, patients. (A) Analysis of the differentially expressed genes in

CD4 samples from SLE, but not AAV, patients (Supplementary Table 8) using Pathway on October 2, 2021 by guest. Protected copyright. Miner (www.biorag.org) revealed a gene association network consistent with T cell activation. Nodes represent differentially expressed genes, orange and green nodes indicate upregulated and downregulated genes, respectively, in SLE patients compared to controls. Edges indicate annotated associations between genes, with the thickness of the edge indicating the number of annotated associations. (B) Gene set enrichment analysis found no evidence for this network in PBMC samples from SLE patients. (C) Microarray-based expression levels of LAT and STAT1 are highly correlated. (D) BNIP3L and CFLAR, but not BCL2 or BCL2L1, are differentially expressed in CD4 samples from SLE patients compared to controls. Horizontal bars denote means, statistical significance was determined using a t test. Figure 4. Monocyte gene expression data clearly differentiates patients with SLE and AAV from each other and from normal controls. Hierarchical clustering of 13 SLE patients, 44 AAV patients and 25 normal controls using data from genes expressed in

12 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

CD14 monocytes separates the samples into the three diagnostic groups (compare to Figure 1A). Hierarchical clustering was performed using the Pearson correlation coefficient as distance metric and average-linkage clustering. The vertical blue bar denotes interferon inducible genes. http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

13 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

REFERENCES 1. Golub TR, Slonim DK, Tamayo P, et al. Molecular classification of cancer: class discovery and class prediction by gene expression monitoring. Science 1999;286:531-7. 2. Alizadeh AA, Eisen MB, Davis RE, et al. Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. Nature 2000;403:503-11. 3. van't Veer LJ, Dai H, van de Vijver MJ, et al. Gene expression profiling predicts clinical outcome of breast cancer. Nature 2002;415:530-6. 4. Wang Y, Klijn JG, Zhang Y, et al. Gene-expression profiles to predict distant metastasis of lymph-node-negative primary breast cancer. Lancet 2005;365:671-9. 5. Lossos IS. Molecular pathogenesis of diffuse large B-cell lymphoma. J Clin Oncol 2005;23:6351-7. 6. van't Veer LJ, Bernards R. Enabling personalized cancer medicine through analysis of gene-expression patterns. Nature 2008;452:564-70. 7. Häupl T, Østensen M, Grützkau A, et al. Interaction between rheumatoid arthritis and pregnancy: correlation of molecular data with clinical disease activity measures. Rheumatology (Oxford) 2008;47 Suppl 3:iii19--iii22. 8. Satoh J, Nakanishi M, Koike F, et al. Microarray analysis identifies an aberrant expression of apoptosis and DNA damage-regulatory genes in multiple sclerosis. Neurobiol Dis 2005;18:537-50. 9. Biesen R, Demir C, Barkhudarova F, et al. Sialic acid-binding Ig-like lectin 1 expression in inflammatory and resident monocytes is a potential biomarker for monitoring disease activity and success of therapy in systemic lupus erythematosus. Arthritis Rheum 2008;58:1136-45. 10. Corvol JC, Pelletier D, Henry RG, et al. Abrogation of T cell quiescence characterizes patients at high risk for multiple sclerosis after the initial neurological

event. Proc Natl Acad Sci U S A 2008;105:11839-44. http://ard.bmj.com/ 11. Bryant PA, Smyth GK, Robins-Browne R, et al. Detection of gene expression in an individual cell type within a cell mixture using microarray analysis. PLoS ONE 2009;4:e4427. 12. Lyons PA, Koukoulaki M, Hatton A, et al. Microarray analysis of human leucocyte subsets: the advantages of positive selection and rapid purification. BMC Genomics 2007;8:64. on October 2, 2021 by guest. Protected copyright. 13. Bennett L, Palucka AK, Arce E, et al. Interferon and granulopoiesis signatures in systemic lupus erythematosus blood. J Exp Med 2003;197:711-23. 14. Baechler EC, Batliwalla FM, Karypis G, et al. Interferon-inducible gene expression signature in peripheral blood cells of patients with severe lupus. Proc Natl Acad Sci U S A 2003;100:2610-5. 15. Crow MK, Wohlgemuth J. Microarray analysis of gene expression in lupus. Arthritis Res Ther 2003;5:279-87. 16. Han GM, Chen SL, Shen N, et al. Analysis of gene expression profiles in human systemic lupus erythematosus using oligonucleotide microarray. Genes Immun 2003;4:177-86. 17. Rus V, Chen H, Zernetkina V, et al. Gene expression profiling in peripheral blood mononuclear cells from lupus patients with active and inactive disease. Clin Immunol 2004;112:231-4.

14 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

18. Alcorta DA, Barnes DA, Dooley MA, et al. Leukocyte gene expression signatures in antineutrophil cytoplasmic autoantibody and lupus glomerulonephritis. Kidney Int 2007;72:853-64. 19. Willcocks LC, Lyons PA, Clatworthy MR, et al. Copy number of FCGR3B, which is associated with systemic lupus erythematosus, correlates with protein expression and immune complex uptake. J Exp Med 2008;205:1573-82. 20. Smyth GK. Limma: linear models for microarray data. In: Gentleman R, Carey V, Dudoit S, Irizarry R, Huber W, editors. Bioinformatics and Computational Biology Solutions using R and Bioconductor. New York: Springer; 2005. p. 397-420. 21. Benjamini Y, Hochberg Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. Journal of the Royal Statistical Society B 1995;57:289-300. 22. Pandey R, Guru RK, Mount DW. Pathway Miner: extracting gene association networks from molecular pathways for predicting the biological significance of gene expression microarray data. Bioinformatics 2004;20:2156-8. 23. Lin R, Genin P, Mamane Y, et al. Selective DNA binding and association with the CREB binding protein coactivator contribute to differential activation of alpha/beta interferon genes by interferon regulatory factors 3 and 7. Mol Cell Biol 2000;20:6342-53. 24. Marrack P, Kappler J, Mitchell T. Type I interferons keep activated T cells alive. J Exp Med 1999;189:521-30. 25. Hoffman RW. T cells in the pathogenesis of systemic lupus erythematosus. Clin Immunol 2004;113:4-13. 26. Crispin JC, Kyttaris VC, Juang YT, et al. How signaling and gene transcription aberrations dictate the systemic lupus erythematosus T cell phenotype. Trends Immunol 2008;29:110-5. 27. Fritsch RD, Shen X, Illei GG, et al. Abnormal differentiation of memory T cells in systemic lupus erythematosus. Arthritis Rheum 2006;54:2184-97. http://ard.bmj.com/ 28. Matloubian M, David A, Engel S, et al. A transmembrane CXC chemokine is a ligand for HIV-coreceptor Bonzo. Nat Immunol 2000;1:298-304. 29. Unutmaz D, Xiang W, Sunshine MJ, et al. The primate lentiviral receptor Bonzo/STRL33 is coordinately regulated with CCR5 and its expression pattern is

conserved between human and mouse. J Immunol 2000;165:3284-92. on October 2, 2021 by guest. Protected copyright. 30. Kim CH, Kunkel EJ, Boisvert J, et al. Bonzo/CXCR6 expression defines type 1- polarized T-cell subsets with extralymphoid tissue homing potential. J Clin Invest 2001;107:595-601. 31. Aust G, Kamprad M, Lamesch P, et al. CXCR6 within T-helper (Th) and T-cytotoxic (Tc) type 1 lymphocytes in Graves' disease (GD). Eur J Endocrinol 2005;152:635- 43. 32. Agostini C, Cabrelle A, Calabrese F, et al. Role for CXCR6 and its ligand CXCL16 in the pathogenesis of T-cell alveolitis in sarcoidosis. Am J Respir Crit Care Med 2005;172:1290-8. 33. Nanki T, Shimaoka T, Hayashida K, et al. Pathogenic role of the CXCL16-CXCR6 pathway in rheumatoid arthritis. Arthritis Rheum 2005;52:3004-14.

15 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

34. Wan J, Martinvalet D, Ji X, et al. The Bcl-2 family pro-apoptotic molecule, BNIP3 regulates activation-induced cell death of effector cytotoxic T lymphocytes. Immunology 2003;110:10-7. 35. Kanetaka Y, Hayashida M, Hoshika A, et al. Interferon-alpha induces transient upregulation of c-FLIP through NF-kappaB activation. Exp Cell Res 2008;314:246- 54. 36. Zhang N, Hopkins K, He YW. c-FLIP protects mature T lymphocytes from TCR- mediated killing. J Immunol 2008;181:5368-73. http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

16 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

PATIENTS AND METHODS

Patient and control cohorts. Thirteen patients with active SLE and 44 patients with

active AAV attending the lupus and vasculitis clinic at Addenbrooke’s Hospital, together

with 25 age and sex-matched controls, were enrolled into the study. The SLE cohort comprised 13 SLE patients, 2 of whom were re-entered on subsequent flare making 15 enrolment events in total. All SLE patients met the American Rheumatological

Association definition of SLE (1) and had active disease on enrolment as assessed by the

British Isles Lupus Activity Grade (BILAG, (2)). The 44 patients with a clinical diagnosis of AAV (either WG or MPA as defined in (3)) had active disease determined by the Birmingham vasculitis activity score (BVAS, (4)). The majority of patients enrolled into this study (31/57) were new diagnoses who were on no medication. The remaining patients were enrolled during a disease flare while on maintenance therapy. Of these, to reduce any effects of medication on gene expression, only those receiving minimal immunosuppression (defined as < 10 mg Prednisolone, in addition 5 patients http://ard.bmj.com/ were receiving Azathioprine, 5 Mycophenolate Mofetil and 1 Hydroxychloroquine) were entered into the study. Patient and control demographics together with detailed clinical

information are provided in Supplementary Tables 1 and 2. Ethical approval for the on October 2, 2021 by guest. Protected copyright. study was obtained from the Cambridge Local Research Ethics Committee.

Cell separation, RNA extraction and microarray hybridization. In addition to a

PBMC sample, CD4 and CD8 T cells, CD19 B cells, CD14 monocytes and CD16

neutrophils were isolated by positive selection using magnetic beads from the same

patients at the same time as previously described (5). Following isolation, total RNA was

extracted using an RNeasy Mini Kit (Qiagen) according to the manufacturer’s

17 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

instructions. RNA quality was verified by capillary electrophoresis on an Agilent

BioAnalyser 2100 and its yield was determined using a nanodrop spectrophotometer.

Aliquots of total RNA (250 ng) were converted into double stranded cDNA, labelled with

either Cy3- or Cy5-dCTP (GE Healthcare), and hybridised in duplicate, using a dye-swap strategy, against a common reference RNA derived from pooled PBMC samples on

spotted oligonucleotide microarrays containing probes for 25,342 genes and control

features as previously described (6). Following hybridisation arrays were washed at

room temperature in 1x SSC/0.2% SDS for 5 min, 1x SSC for 5 min, and 0.1x SSC for 5

min, and then dried by centrifugation at 500 g for 2 min. Arrays were scanned at 10

micron resolution using an Agilent G2565B scanner.

Microarray data analysis. Raw image data were extracted using Koadarray v2.6

software (Koada Technology), probes were called present if they had a spot confidence

value > 0.3 in at least one channel. Extracted data were imported into R where log

transformation and background subtraction were performed followed by within-array http://ard.bmj.com/ print-tip Loess normalisation and between-array aquantile and scale normalisation in the

Limma package (7), part of the bioconductor project (www.bioconductor.org).

Normalised data were also imported into Genespring v7.2 (Agilent) for analysis. Only on October 2, 2021 by guest. Protected copyright. data demonstrating a strong negative correlation between dye swap replicates (<-0.5) and

low levels of missing data (<20%) were used in subsequent analyses. In addition, for each

array the differential expression of appropriate lineage specific control probes, such as

CD4, CD8, or CD14, was confirmed prior to it being included in the analysis. Differential

expression between defined phenotypes was assessed using either one-way analysis of

variance (ANOVA) in GeneSpring, or the eBayes function in Limma, with the false

18 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

discovery rate (FDR) controlled at 5% in both cases. The eBayes function moderates the

standard errors of the log-fold changes across several genes providing a more robust

estimate of the error, which improves detection of differentially expression in genes

expressed at low levels. Genes showing minimal variation between defined phenotypes

were excluded from analysis by imposing a fold change cut-off set at 1.5 fold.

Hierarchical clustering using a centred correlation distance metric and average linkage

clustering was performed using Cluster with visualisation in Treeview (8). Enrichment of gene signatures within different microarray datasets was determined using Gene Set

Enrichment Analysis (GSEA) as described (9). Briefly, gene expression data were ranked on the basis of degree of differential expression between disease and control cohorts. It was then determined whether genes at the top or bottom of the ranked list (ie those most differentially expressed) were over-represented in a known curated signature.

Pathway analysis was performed using the Pathway Miner tool at www.biorag.org (10).

Promoter analysis was performed using the FIMO tool (11) from the MEME suite http://ard.bmj.com/ (http://meme.nbcr.net/meme4/intro.html), using the consensus promoter scoring matrices

given in Lin et al (12).

Microarray data has been deposited in Array Express under the accession number E- on October 2, 2021 by guest. Protected copyright.

MTAB-145.

Flow cytometry. Cell numbers and purities pre- and post-separation were measured by

flow cytometry using a FACSCalibur (BD Biosciences). FITC-labelled anti-CD4, anti-

CD15 and anti-CD20, PE-labelled anti-CD3, anti-CD14, anti-CD19 and anti-CD16, and

APC-labelled anti-CD8 monoclonal antibodies were purchased from BD Biosciences.

19 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Statistical analysis. Correlations between gene expression levels and cell number were determined using Prism software (GraphPad).

Quantitative RT-PCR. mRNA levels of IL7R, CD69, CD40L and CD25 were determined using Taqman Gene Expression Assays (Applied Biosystems) on an ABI

Prism 7900HT instrument according to the manufacturer’s instructions. Transcript abundance was determined by comparison to a standard curve.

References

1. Tan EM, Cohen AS, Fries JF, Masi AT, McShane DJ, Rothfield NF, et al. The

1982 revised criteria for the classification of systemic lupus erythematosus. Arthritis

Rheum 1982;25:1271-7.

2. Isenberg DA, Rahman A, Allen E, Farewell V, Akil M, Bruce IN, et al. BILAG

2004. Development and initial validation of an updated version of the British Isles Lupus

Assessment Group's disease activity index for patients with systemic lupus erythematosus. Rheumatology (Oxford) 2005;44:902-6. http://ard.bmj.com/ 3. Lane SE, Watts RA, Shepstone L, Scott DG. Primary systemic vasculitis: clinical features and mortality. Qjm 2005;98:97-111.

4. Stone JH, Hoffman GS, Merkel PA, Min YI, Uhlfelder ML, Hellmann DB, et al. on October 2, 2021 by guest. Protected copyright.

A disease-specific activity index for Wegener's granulomatosis: modification of the

Birmingham Vasculitis Activity Score. International Network for the Study of the

Systemic Vasculitides (INSSYS). Arthritis Rheum 2001;44:912-20.

5. Lyons PA, Koukoulaki M, Hatton A, Doggett K, Woffendin HB, Chaudhry AN, et al. Microarray analysis of human leucocyte subsets: the advantages of positive selection and rapid purification. BMC Genomics 2007;8:64.

20 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

6. Willcocks LC, Lyons PA, Clatworthy MR, Robinson JI, Yang W, Newland SA, et al. Copy number of FCGR3B, which is associated with systemic lupus erythematosus, correlates with protein expression and immune complex uptake. J Exp Med

2008;205:1573-82.

7. Smyth GK. Limma: linear models for microarray data. In: Gentleman R, Carey V,

Dudoit S, Irizarry R, Huber W, editors. Bioinformatics and Computational Biology

Solutions using R and Bioconductor. New York: Springer; 2005. p. 397-420.

8. Eisen MB, Spellman PT, Brown PO, Botstein D. Cluster analysis and display of genome-wide expression patterns. Proc Natl Acad Sci U S A 1998;95:14863-8.

9. Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette MA, et al. Gene set enrichment analysis: a knowledge-based approach for interpreting genome- wide expression profiles. Proc Natl Acad Sci U S A 2005;102:15545-50.

10. Pandey R, Guru RK, Mount DW. Pathway Miner: extracting gene association networks from molecular pathways for predicting the biological significance of gene http://ard.bmj.com/ expression microarray data. Bioinformatics 2004;20:2156-8.

11. Bailey TL, Gribskov M. Combining evidence using p-values: application to

sequence homology searches. Bioinformatics 1998;14:48-54. on October 2, 2021 by guest. Protected copyright.

12. Lin R, Genin P, Mamane Y, Hiscott J. Selective DNA binding and association with the CREB binding protein coactivator contribute to differential activation of alpha/beta interferon genes by interferon regulatory factors 3 and 7. Mol Cell Biol

2000;20:6342-53.

21 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Supplementary Table 1: Cohort demographics Controls AAV SLE Number 25 44 13 Age (Range) 52 (20 - 76) 55 (20 - 82) 47 (25 - 53) Sex 13 M/12 F 17 M/27 F 13 F Ethnicity 25 Caucasian 43 Caucasian/1 Asian 12 Caucasian/1 Asian Disease activity NA 13.8 (2 - 37)a 19 (13 - 35)b aDisease activity in AAV patients was assessed using the Birmingham Vasculitis Activity Score (4). bDisease activity in SLE patients was assessed using the British Isles Lupus Activity Grade (2). NA, not applicable http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

22 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Supplementary Table 2: Clinical and laboratory data for AAV and SLE cohorts at enrolment. Normal range AAV (range) SLE (range) Total leukocyte count (x109/l) 4 - 11 12.4 (4.7 - 33.5) 7.3 (3.8 – 12.7) Lymphocyte count (x109/l) 1 - 4.5 1.5 (0.2 - 4.8) 1.4 (0.2 – 4.2) Neutrophil count (x109/l) 2 - 8 10.4 (3 - 30.2) 5.3 (2.3 – 9.3) CD3+ (% of PBMC) 73.6 (47 -90) 82.6 (61 – 91) CD4+ (% of PBMC) 44.9 (29 – 65) 44 (21 – 64) CD8+ (% of PBMC) 26.6 (7 – 43) 36.7 (18 – 58) Serum IgG (g/l) 6 - 13 12.5 (5.7 - 22.2) 10.6 (4.7 – 16.3) Serum IgM (g/l) 0.9 - 2.2 1.1 (0.4 - 3.2) 1.0 (0.3 – 3.5) Serum IgA (g/l) 0.8 - 3.7 2.5 (0.7 - 5.2) 2.6 (0.4 – 3.8) CRP (mg/l) 0 - 6 43 (1 – 250) 8 (1 – 30) ESR (mm/h) 5 - 15 104 (4 – 130) 21 (6 – 41) Serum creatinine (µmol/l) 35 - 125 179 (51 - 1275) 113.5 (43 – 354) ANCA status 15 MPO/15 PR3/3 Neg/1 Un Neg Diagnosis 16 MPA/28 WG NA ANA status Neg 11Y/2N dsDNA status Neg 8Y/5N ENA status Neg 8Y/5N Renal involvement 31Y/13N 7Y/6N ANA titre (iu/ml) 0 - 0.9 0.54 (0.2 – 1.6) 3.8 (0.3 – 7.8) MPO titrea (iu/ml) 0 - 6 74 (7 – 191) NA PR3 titrea (iu/ml) 0 - 6 94 (7 – 600) NA CRP, C-reactive protein, ESR, erythrocyte sedimentation rate, MPO, anti-myeloperoxidase http://ard.bmj.com/ antibodies, PR3, anti-proteinase 3 antibodies, MPA, microscopic polyangiitis, WG, Wegener’s granulomatosis, ANA, anti-nuclear antibodies, dsDNA, anti-double strand DNA antibodies, ENA, nuclear antibodies, Neg, negative, Un, unknown, NA, not applicable aIn MPO or PR3 +ve individuals, respectively. on October 2, 2021 by guest. Protected copyright.

23 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Supplementary Table 3: Differentially expressed probes from ANOVA of PBMC samples

Probe ID Gene Name GenBank Acc fdr p value Description 99424 SNRP70 NM_003089 5.22E-05 Small nuclear ribonucleoprotein 70kDa polypeptide (RNP antigen) 69678 FLJ35681 NM_175900 5.91E-05 Hypothetical protein FLJ35681 43936 FLJ21511 NM_025087 8.38E-05 Hypothetical protein FLJ21511 138469 PLSCR1 NM_021105 0.000103 Phospholipid scramblase 1 84715 ASL NM_000048 0.000103 Argininosuccinate lyase 53715 CAMTA1 XM_042323 0.000103 Calmodulin binding transcription activator 1 90822 CAV2 NM_001233 0.000216 Caveolin 2 91561 CHGB NM_001819 0.000216 Chromogranin B (secretogranin 1) 93085 CEACAM8 NM_001816 0.000216 Carcinoembryonic antigen- related cell adhesion molecule 8 99209 RNASE2 NM_002934 0.000216 "Ribonuclease, RNase A family, 2 (liver, eosinophil- derived neurotoxin)" 118486 XR_000171 0.000216 6231 CAMP NM_004345 0.000216 Cathelicidin antimicrobial peptide 94284 IFIT1 NM_001548 0.000216 "synonyms: G10P1, IFI56, IFI-56, IFNAI1, RNM561, GARG-16; isoform 2 is encoded by transcript variant 2; Interferon, alpha-inducible protein (MW 56kD); interferon-induced protein 56; http://ard.bmj.com/ go_component: cytoplasm [goid 0005737] [evidence NAS] [pmid 3753936]; go_function: molecular_function unknown

[goid 0005554] [evidence ND] on October 2, 2021 by guest. Protected copyright. [pmid 3753936]; go_process: immune response [goid 0006955] [evidence IEA]; Homo sapiens interferon- induced protein with tetratricopeptide repeats 1 (IFIT1), transcript variant 2, mRNA." 171173 RPS24 NM_001026 0.000216 Ribosomal protein S24 93235 DEFA4 NM_001925 0.000216 "Defensin, alpha 4, corticostatin" 174879 PDCD4 NM_014456 0.000216 Programmed cell death 4 (neoplastic transformation inhibitor) 167088 HP NM_005143 0.000221 Haptoglobin 141980 FCGR1A NM_000566 0.000221 "Fc fragment of IgG, high

24 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

affinity Ia, receptor for (CD64)" 94169 FPRL1 NM_001462 0.000221 Formyl peptide receptor-like 1 90560 RPS16 NM_001020 0.000221 Ribosomal protein S16 11652 AKR1D1 NM_005989 0.000221 "Aldo-keto reductase family 1, member D1 (delta 4-3- ketosteroid-5-beta- reductase)" 10276 NDUFS1 NM_005006 0.000221 "NADH dehydrogenase (ubiquinone) Fe-S protein 1, 75kDa (NADH-coenzyme Q reductase)" 97478 PSG7 NM_002783 0.000221 Pregnancy specific beta-1- glycoprotein 7 18816 CLIC4 NM_013943 0.000221 Chloride intracellular channel 4 20279 SNX10 NM_013322 0.000223 Sorting nexin 10 185216 C20orf185 NM_182658 0.000223 Chromosome 20 open reading frame 185 27967 USP18 NM_017414 0.000242 Ubiquitin specific protease 18 20560 SLC43A3 NM_014096 0.000242 "Solute carrier family 43, member 3" 110036 NPM1 NM_002520 0.000247 "Nucleophosmin (nucleolar phosphoprotein B23, numatrin)" 107477 XIST M97168 0.000266 Homo sapiens X (inactive)- specific transcript (XIST) complete exon. 159751 AK095250 0.000266 "CDNA FLJ37931 fis, clone CTONG2004397" 172152 ORM1 NM_000607 0.000266 Orosomucoid 1 90570 RPS29 NM_001032 0.0003 Ribosomal protein S29 91833 FPR1 NM_002029 0.000319 Formyl peptide receptor 1 http://ard.bmj.com/ 14470 NPIP NM_006985 0.000319 Nuclear pore complex interacting protein 71144 AK092633 0.000319 Hypothetical gene supported by AK092633 93339 ACSL1 NM_001995 0.000319 Acyl-CoA synthetase long-

chain family member 1 on October 2, 2021 by guest. Protected copyright. 67866 GFPT1 AF445027 0.000319 Glutamine-fructose-6- phosphate transaminase 1 17019 IMP-3 NM_006547 0.000319 IGF-II mRNA-binding protein 3 107814 FCAR NM_002000 0.000349 "Fc fragment of IgA, receptor for" 83596 C17orf27 XM_290768 0.000349 "synonym: KIAA1554; Homo sapiens chromosome 17 open reading frame 27 (C17orf27), mRNA." 163007 ADAM9 NM_003816 0.000349 A disintegrin and metalloproteinase domain 9 (meltrin gamma) 29968 LAX NM_017773 0.000349 Hypothetical protein FLJ20340 95900 PSG5 NM_002781 0.000349 Pregnancy specific beta-1-

25 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

glycoprotein 5 100978 IFIT1 AA353152 0.000349 Interferon-induced protein with tetratricopeptide repeats 1 90529 RPL31 NM_000993 0.000349 Ribosomal protein L31 172026 OAS1 NM_002534 0.000349 "2',5'-oligoadenylate synthetase 1, 40/46kDa" 32068 MLSTD1 NM_018099 0.000349 Male sterility domain containing 1 5838 C3AR1 NM_004054 0.000349 Complement component 3a receptor 1 106635 FCAR NM_133277 0.000349 "Fc fragment of IgA, receptor for" 59983 C7orf6 NM_152703 0.000349 Chromosome 7 open reading frame 6 90565 RPS25 NM_001028 0.000349 Ribosomal protein S25 55874 CLECSF8 NM_080387 0.000361 "C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 8" 19759 DUX5 NM_012149 0.000364 "go_component: nucleus [goid 0005634] [evidence IEA]; go_function: transcription factor activity [goid 0003700] [evidence IEA]; go_process: regulation of transcription, DNA- dependent [goid 0006355] [evidence IEA]; Homo sapiens double homeobox, 5 (DUX5), mRNA." 130331 RPS11 NM_001015 0.000367 Ribosomal protein S11 14976 OAS3 NM_006187 0.000367 "2'-5'-oligoadenylate http://ard.bmj.com/ synthetase 3, 100kDa" 15307 IFI44 NM_006417 0.000367 Interferon-induced protein 44 7809 BNIP2 NM_004330 0.000367 BCL2/adenovirus E1B 19kDa interacting protein 2 119607 FLJ11016 NM_018301 0.000367 Hypothetical protein

FLJ11016 on October 2, 2021 by guest. Protected copyright. 10380 PLA2G7 NM_005084 0.000367 "Phospholipase A2, group VII (platelet-activating factor acetylhydrolase, plasma)" 109684 EXO1 NM_003686 0.000367 Exonuclease 1 41785 FLJ23233 NM_024691 0.00037 Hypothetical protein FLJ23233 142959 DEFA1 NM_004084 0.00039 "Defensin, alpha 1, myeloid- related sequence" 71749 FLJ20035 AK001649 0.000403 Hypothetical protein FLJ20035 86396 MYO5A NM_000259 0.000415 "Myosin VA (heavy polypeptide 12, myoxin)" 67322 F5 AJ297254 0.000422 "Coagulation factor V (proaccelerin, labile factor)" 1748 ZNF492 XM_047550 0.000422 Zinc finger protein 492 88992 RPL19 NM_000981 0.000422 Ribosomal protein L19

26 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

23797 LAP3 NM_015907 0.000422 Leucine aminopeptidase 3 49867 ORF1-FL49 NM_032412 0.000422 Putative nuclear protein ORF1-FL49 138799 FLJ11155 NM_018342 0.000422 Hypothetical protein FLJ11155 145970 IFIT3 AF026943 0.00043 Interferon-induced protein with tetratricopeptide repeats 3 88094 TCN2 NM_000355 0.00043 Transcobalamin II; macrocytic anemia 161605 LOC220929 NM_182755 0.00043 Hypothetical protein LOC220929 15844 C1orf29 NM_006820 0.000438 Chromosome 1 open reading frame 29 127784 MGAT4A NM_012214 0.000446 "Mannosyl (alpha-1,3-)- glycoprotein beta-1,4-N- acetylglucosaminyltransferas e, isoenzyme A" 36692 RP42 NM_020640 0.000462 RP42 homolog 176643 RPL36 NM_033643 0.000464 Ribosomal protein L36 146286 HSBILGLYD 0.000464 6590 SNRPD2 NM_004597 0.000481 Small nuclear ribonucleoprotein D2 polypeptide 16.5kDa 120653 TFDP1 NM_007111 0.000482 Transcription factor Dp-1 154542 LOC285016 BC033490 0.000493 Hypothetical protein LOC285016 77482 HAPLN3 NM_178232 0.000513 Hyaluronan and proteoglycan link protein 3 14724 IRAK3 NM_007199 0.000513 Interleukin-1 receptor- associated kinase 3 31209 OAS1 NM_016816 0.000513 "2',5'-oligoadenylate synthetase 1, 40/46kDa" http://ard.bmj.com/ 34126 HSA272196 NM_018405 0.000514 "Hypothetical protein, clone 2746033" 105380 RPLP0 NM_001002 0.000516 "Ribosomal protein, large, P0" 142472 ACSL1 NM_021122 0.000516 "synonyms: ACS1, LACS, FACL1, FACL2, LACS1,

LACS2; long-chain acyl-CoA on October 2, 2021 by guest. Protected copyright. synthetase 2; fatty-acid- Coenzyme A ligase, long- chain 2; palmitoyl-CoA ligase 2; long-chain acyl-CoA synthetase 1; paltimoyl-CoA ligase 1; fatty-acid-Coenzyme A ligase, long-chain 1; lignoceroyl-CoA synthase; go_function: ligase activity [goid 0016874] [evidence IEA]; go_function: magnesium ion binding [goid 0000287] [evidence IEA]; go_function: long-chain-fatty-acid-CoA ligase activity [goid 0004467] [evidence TAS] [pmid

27 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

1531127]; go_process: metabolism [goid 0008152] [evidence IEA]; go_process: digestion [goid 0007586] [evidence TAS] [pmid 1531127]; go_process: fatty acid metabolism [goid 0006631] [evidence NR]; Homo sapiens acyl-CoA synthetase long-chain family member 1 (ACSL1), mRNA." 150987 GPR141 NM_181791 0.000516 G protein-coupled receptor 141 170710 AL832235 0.000516 MRNA; cDNA DKFZp686L1553 (from clone DKFZp686L1553) 60083 SUNC1 NM_152782 0.000516 Sad1 and UNC84 domain containing 1 94491 BPI NM_001725 0.000519 Bactericidal/permeability- increasing protein 8166 SFRS8 NM_004592 0.000527 "Splicing factor, arginine/serine-rich 8 (suppressor-of-white-apricot homolog, Drosophila)" 73164 NCOA7 NM_181782 0.000538 Nuclear receptor coactivator 7 18740 PSCD4 NM_013385 0.000574 "Pleckstrin homology, Sec7 and coiled-coil domains 4" 47607 EPSTI1 NM_033255 0.000626 Epithelial stromal interaction 1 (breast) 12678 S100A12 NM_005621 0.000637 S100 calcium binding protein A12 (calgranulin C) 92408 CEACAM6 NM_002483 0.000648 Carcinoembryonic antigen- related cell adhesion http://ard.bmj.com/ molecule 6 (non-specific cross reacting antigen) 106068 BIRC7 NM_022161 0.000648 Baculoviral IAP repeat- containing 7 (livin) 29800 AHI1 NM_017651 0.000665 Abelson helper integration

site on October 2, 2021 by guest. Protected copyright. 46 RPS29 NM_001032 0.000665 Ribosomal protein S29 98808 PGD NM_002631 0.000668 Phosphogluconate dehydrogenase 581 TXNRD2 AB051439 0.000677 Thioredoxin reductase 2 107219 TXK H12312 0.000681 TXK tyrosine kinase 16152 TNFAIP6 NM_007115 0.000684 "Tumor necrosis factor, alpha- induced protein 6" 162830 AK094804 0.000684 "CDNA FLJ37485 fis, clone BRAWH2014379" 12680 S100A12 NM_005621 0.000684 S100 calcium binding protein A12 (calgranulin C) 91610 COX7C NM_001867 0.000706 Cytochrome c oxidase subunit VIIc 176488 YAP NM_018253 0.000706 YY1 associated protein 151889 AL832168 0.000745 MRNA; cDNA DKFZp686P24158 (from

28 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

clone DKFZp686P24158) 187003 NF2 NM_000268 0.000745 Neurofibromin 2 (bilateral acoustic neuroma) 82946 ZNF33A NM_006974 0.000751 Zinc finger protein 33a (KOX 31) 117253 ACTR8 NM_022899 0.000751 ARP8 actin-related protein 8 homolog (yeast) 118241 IFIT3 NM_001549 0.000753 Interferon-induced protein with tetratricopeptide repeats 3 90568 RPS28 NM_001031 0.000753 Ribosomal protein S28 42039 RPP21 NM_024839 0.000753 Ribonuclease P 21kDa subunit 101585 COLQ NM_005677 0.000769 Collagen-like tail subunit (single strand of homotrimer) of asymmetric acetylcholinesterase 169194 GNLY NM_006433 0.000769 Granulysin 99320 SGNE1 NM_003020 0.000784 "Secretory granule, neuroendocrine protein 1 (7B2 protein)" 158435 LOC92558 U88834 0.000843 Hypothetical protein LOC92558 50982 GBP4 NM_052941 0.000843 Guanylate binding protein 4 68854 FLJ31033 XM_037817 0.000843 Hypothetical protein FLJ31033 180612 XM_351958 0.000863 33475 RETN NM_020415 0.000876 Resistin 90872 CES1 NM_001266 0.000876 Carboxylesterase 1 (monocyte/macrophage serine esterase 1) 43072 BAL NM_031458 0.000876 B aggressive lymphoma gene 90561 RPS20 NM_001023 0.00088 Ribosomal protein S20 http://ard.bmj.com/ 165111 TRPM2 NM_003307 0.000881 "synonyms: KNP3, EREG1, TRPC7, LTRPC2; long isoform is encoded by transcript variant L; transient receptor potential channel 7;

estrogen responsive element on October 2, 2021 by guest. Protected copyright. associated gene 1; long transient receptor potential channel 2; go_component: integral to plasma membrane [goid 0005887] [evidence TAS] [pmid 9806837]; go_function: calcium channel activity [goid 0005262] [evidence TAS] [pmid 9806837]; go_process: cation transport [goid 0006812] [evidence IEA]; go_process: calcium ion transport [goid 0006816] [evidence TAS] [pmid 9806837]; Homo sapiens transient receptor

29 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

potential cation channel, subfamily M, member 2 (TRPM2), transcript variant L, mRNA." 136299 PADI4 NM_012387 0.000881 "Peptidyl arginine deiminase, type IV" 48085 MOGAT1 NM_058165 0.000881 Monoacylglycerol O- acyltransferase 1 37546 SAMSN1 NM_022136 0.000904 "SAM domain, SH3 domain and nuclear localisation signals, 1" 13248 TRIM22 NM_006074 0.000904 Tripartite motif-containing 22 88982 RPL11 NM_000975 0.000912 Ribosomal protein L11 116787 OAS2 NM_002535 0.00092 "2'-5'-oligoadenylate synthetase 2, 69/71kDa" 168385 ICA1 NM_004968 0.000925 "Islet cell autoantigen 1, 69kDa" 68570 CCPG1 AK022459 0.000925 "Phosphatidylinositol glycan, class B" 94351 ALCAM NM_001627 0.000925 Activated leukocyte cell adhesion molecule 20131 TM4-B NM_012466 0.000927 Tetraspanin TM4-B 106361 NM_173709 0.000927 40 RPL21 NM_000982 0.000942 Ribosomal protein L21 4266 NFKB1 NM_003998 0.000954 Nuclear factor of kappa light polypeptide gene enhancer in B-cells 1 (p105) 26369 GOLGIN-67 NM_015003 0.000954 Golgin-67 88194 HSD17B4 NM_000414 0.000954 Hydroxysteroid (17-beta) dehydrogenase 4 21380 GCA NM_012198 0.000954 "Grancalcin, EF-hand calcium binding protein" 9277 PMS2L9 NM_005395 0.000983 Postmeiotic segregation http://ard.bmj.com/ increased 2-like 9 186036 C9orf85 NM_182505 0.000983 Chromosome 9 open reading frame 85 93796 MAD NM_002357 0.00103 MAX dimerization protein 1 95709 SERPINB8 NM_002640 0.00104 "Serine (or cysteine) proteinase inhibitor, clade B on October 2, 2021 by guest. Protected copyright. (ovalbumin), member 8" 1007 COAS2 NM_178230 0.00109 Cyclophilin-LC 7699 SLC9A3R1 NM_004252 0.00109 "Solute carrier family 9 (sodium/hydrogen exchanger), isoform 3 regulator 1" 12577 IFI27 NM_005532 0.00109 "Interferon, alpha-inducible protein 27" 93525 HMGB2 NM_002129 0.00111 High-mobility group box 2 36527 ENTPD7 NM_020354 0.00111 Ectonucleoside triphosphate diphosphohydrolase 7 113371 CLK1 NM_004071 0.00111 CDC-like kinase 1 109509 NM_173708 0.00111 151949 MGC13057 AK025093 0.00112 Hypothetical protein MGC13057 122865 MGC10986 NM_030576 0.00112 Hypothetical protein

30 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

MGC10986 26582 LY96 NM_015364 0.00115 Lymphocyte antigen 96 87403 RPL32 NM_000994 0.00115 Ribosomal protein L32 57972 DKFZp761E198 NM_138368 0.00115 Hypothetical protein DKFZp761E198 87393 RPL21 NM_000982 0.00115 Ribosomal protein L21 91168 GCNT1 NM_001490 0.00115 "Glucosaminyl (N-acetyl) transferase 1, core 2 (beta- 1,6-N- acetylglucosaminyltransferas e)" 9107 GGT1 NM_005265 0.00116 Gamma-glutamyltransferase 1 46110 PSG2 NM_031246 0.00116 Pregnancy specific beta-1- glycoprotein 2 19870 TFEC NM_012252 0.00116 Transcription factor EC 42685 NPL NM_030769 0.00117 N-acetylneuraminate pyruvate lyase (dihydrodipicolinate synthase) 79708 LOC113386 BC011670 0.00117 Similar to envelope protein 12620 LDHA NM_005566 0.00118 Lactate dehydrogenase A 96066 RCN2 NM_002902 0.00118 "Reticulocalbin 2, EF-hand calcium binding domain" 11641 S100P NM_005980 0.00118 S100 calcium binding protein P 36560 C12orf4 NM_020374 0.00118 Chromosome 12 open reading frame 4 19375 PIB5PA NM_014422 0.00118 "Phosphatidylinositol (4,5) bisphosphate 5-phosphatase, A" 41865 ALS2CR8 NM_024744 0.00122 "Amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 8" http://ard.bmj.com/ 66045 C14orf20 NM_174944 0.00125 Chromosome 14 open reading frame 20 25757 PRKAG2 NM_016203 0.00125 "Protein kinase, AMP- activated, gamma 2 non- catalytic subunit"

8263 LIN7A NM_004664 0.00126 Lin-7 homolog A (C. elegans) on October 2, 2021 by guest. Protected copyright. 42804 LBH NM_030915 0.00128 Likely ortholog of mouse limb- bud and heart gene 93475 GUCA1B NM_002098 0.0013 Guanylate cyclase activator 1B (retina) 169581 RPL41 NM_021104 0.0013 Ribosomal protein L41 34670 RP4-622L5 NM_019118 0.00133 Hypothetical protein RP4- 622L5 17990 HSPCB NM_007355 0.00141 "Heat shock 90kDa protein 1, beta" 97809 SIAH1 NM_003031 0.00143 Seven in absentia homolog 1 (Drosophila) 34451 PCDHB11 NM_018931 0.00143 Protocadherin beta 11 183687 XM_166923 0.00144 105669 STAT1 NM_007315 0.00144 "Signal transducer and activator of transcription 1, 91kDa"

31 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

79294 FLJ21127 BC030993 0.00145 Hypothetical protein FLJ21127 39688 C7orf24 NM_024051 0.00146 Chromosome 7 open reading frame 24 97700 RNASE4 NM_002937 0.00146 "Angiogenin, ribonuclease, RNase A family, 5" 136331 SLC2A14 NM_153449 0.00148 "Solute carrier family 2 (facilitated glucose transporter), member 14" 78917 RP9 BC025928 0.00148 Retinitis pigmentosa 9 (autosomal dominant) 95874 PRKR NM_002759 0.00148 "Protein kinase, interferon- inducible double stranded RNA dependent" 15496 CACNG3 NM_006539 0.00148 "Calcium channel, voltage- dependent, gamma subunit 3" 129194 LOC89894 NM_138341 0.0015 Hypothetical protein BC000282 45983 C9orf74 NM_030914 0.0015 Chromosome 9 open reading frame 74 48345 PCDHGC3 NM_032402 0.00151 "Protocadherin gamma subfamily C, 3" 92430 CCR1 NM_001295 0.00151 Chemokine (C-C motif) receptor 1 137694 HTLF NM_002158 0.00152 Human T-cell leukemia virus enhancer factor 24435 RNF144 NM_014746 0.00152 Ring finger protein 144 82990 LHFPL2 NM_005779 0.00153 Lipoma HMGIC fusion partner-like 2 4511 UBE2L6 NM_004223 0.00153 Ubiquitin-conjugating enzyme E2L 6 87436 RPS17 NM_001021 0.00153 Ribosomal protein S17 56956 NEXN NM_144573 0.00153 Nexilin (F actin binding http://ard.bmj.com/ protein) 34143 SLC22A15 NM_018420 0.00153 "Solute carrier family 22 (organic cation transporter), member 15" 61865 FLJ38725 NM_153218 0.00153 Hypothetical protein

FLJ38725 on October 2, 2021 by guest. Protected copyright. 184363 na XM_294960 0.00153 Hypothetical LOC339453 12362 MYB NM_005375 0.00159 V-myb myeloblastosis viral oncogene homolog (avian) 15382 C10orf69 NM_006459 0.00161 Chromosome 10 open reading frame 69 26037 KIAA0101 NM_014736 0.00161 KIAA0101 186448 XM_353303 0.00161 93924 MX1 NM_002462 0.00161 "Myxovirus (influenza virus) resistance 1, interferon- inducible protein p78 (mouse)" 34058 CXorf15 NM_018360 0.00163 Chromosome X open reading frame 15 12617 LCN2 NM_005564 0.00163 Lipocalin 2 (oncogene 24p3) 44256 SERPINB1 NM_030666 0.00163 "Serine (or cysteine) proteinase inhibitor, clade B

32 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

(ovalbumin), member 1" 31075 NINJ2 NM_016533 0.00163 Ninjurin 2 32934 NM_018985 0.00163 106354 NM_173705 0.00163 94576 ENTPD1 NM_001776 0.00163 Ectonucleoside triphosphate diphosphohydrolase 1 85042 PTPNS1L2 NM_178460 0.00163 "Protein tyrosine phosphatase, non-receptor type substrate 1-like 2" 93962 NDUFA4 NM_002489 0.00163 "NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 4, 9kDa" 144528 HNRPA1 NM_002136 0.00163 Heterogeneous nuclear ribonucleoprotein A1 75668 AL365412 0.00163 Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 1759349. 86102 BCHE NM_000055 0.00165 Butyrylcholinesterase 56026 PTPNS1 NM_080792 0.00167 "Protein tyrosine phosphatase, non-receptor type substrate 1" 78832 LOC90624 BC022429 0.00169 Hypothetical protein LOC90624 8912 OSR1 NM_005109 0.00169 Oxidative-stress responsive 1 146154 XM_350872 0.0017 123663 KIAA1212 NM_018084 0.0017 KIAA1212 81509 BC017937 0.0017 Similar to Group X secretory phospholipase A2 precursor (Phosphatidylcholine 2- acylhydrolase GX) (GX sPLA2) (sPLA2-X) 22300 DDX58 NM_014314 0.0017 DEAD (Asp-Glu-Ala-Asp) box polypeptide 58 http://ard.bmj.com/ 110120 HSRG1 NM_014940 0.00173 HSV-1 stimulation-related gene 1 15062 PRKCH NM_006255 0.00173 "Protein kinase C, eta" 99034 PSMC2 NM_002803 0.00173 "Proteasome (prosome, macropain) 26S subunit,

ATPase, 2" on October 2, 2021 by guest. Protected copyright. 100817 PGD AA598759 0.00173 Phosphogluconate dehydrogenase 16544 PAX4 NM_006193 0.00173 Paired box gene 4 32939 RIN2 NM_018993 0.00173 Ras and Rab interactor 2 100673 MALAT1 H88540 0.00173 Metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA) 110063 SPTLC2 NM_004863 0.00174 "Serine palmitoyltransferase, long chain base subunit 2" 38024 FLJ12439 NM_023077 0.00174 Hypothetical protein FLJ12439 18020 ARSD NM_009589 0.00174 Arylsulfatase D 96142 S100A5 NM_002962 0.00174 S100 calcium binding protein A5 93660 KLRB1 NM_002258 0.00175 "Killer cell lectin-like receptor subfamily B, member 1"

33 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

88228 NCF2 NM_000433 0.00176 "Neutrophil cytosolic factor 2 (65kDa, chronic granulomatous disease, autosomal 2)" 33003 WDR44 NM_019045 0.0018 WD repeat domain 44 89540 MEFV NM_000243 0.0018 Mediterranean fever 142506 GNAQ NM_002072 0.00182 "Guanine nucleotide binding protein (G protein), q polypeptide" 145992 AF098968 0.00182 LOC440334 106349 NM_173702 0.00182 19575 ATF6 NM_007348 0.00182 Activating transcription factor 6 106690 BTF3 NM_001207 0.00184 Basic transcription factor 3 89097 TCN1 NM_001062 0.00184 "Transcobalamin I (vitamin B12 binding protein, R binder family)" 149509 AK022308 0.00185 "CDNA FLJ12246 fis, clone MAMMA1001343" 5491 OASL NM_003733 0.00185 2'-5'-oligoadenylate synthetase-like 154845 LOC339742 BC045732 0.00186 Hypothetical protein LOC339742 1872 CPEB4 NM_030627 0.00186 Cytoplasmic polyadenylation element binding protein 4 153864 AK092468 0.00186 "CDNA FLJ35149 fis, clone PLACE6010485" 114574 VNN3 NM_078625 0.00188 Vanin 3 26811 DKFZP434J154 NM_015610 0.00188 WIPI49-like protein 2 54932 KCTD12 NM_138444 0.00188 Potassium channel tetramerisation domain containing 12 168192 TOMM7 AJ011007 0.00188 Translocase of outer http://ard.bmj.com/ mitochondrial membrane 7 homolog (yeast) 46758 WBSCR18 NM_032317 0.00189 Williams Beuren syndrome chromosome region 18 25020 HDAC7A NM_015401 0.00189 Histone deacetylase 7A

66999 CYorf16 NR_001553 0.00191 Homo sapiens chromosome on October 2, 2021 by guest. Protected copyright. Y open reading frame 16 (CYorf16) on chromosome Y. 152099 GAS5 BC038733 0.00193 Growth arrest-specific 5 92594 EP300 NM_001429 0.00196 E1A binding protein p300 142293 RPS8 AB062401 0.00196 Ribosomal protein S8 93067 CDW52 NM_001803 0.00196 CDW52 antigen (CAMPATH- 1 antigen) 178159 APAF1 NM_001160 0.00203 Apoptotic protease activating factor 90532 RPL37 NM_000997 0.00206 Ribosomal protein L37 75536 KIAA0701 XM_045423 0.00208 KIAA0701 protein 16960 ATP5L NM_006476 0.00208 "ATP synthase, H+ transporting, mitochondrial F0 complex, subunit g" 16914 CDC42EP3 NM_006449 0.00211 CDC42 effector protein (Rho GTPase binding) 3

34 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

157784 LOC284757 AK092805 0.00211 Hypothetical protein LOC284757 93152 SLC31A2 NM_001860 0.00211 "Solute carrier family 31 (copper transporters), member 2" 56531 SP1 NM_138473 0.00213 Sp1 transcription factor 147000 HSA431616 0.00214 185856 na XM_295178 0.00216 Hypothetical LOC340171 64244 YDD19 U82319 0.00216 YDD19 protein 25910 ZNF432 NM_014650 0.00219 Zinc finger protein 432 88198 IFNGR1 NM_000416 0.0022 Interferon gamma receptor 1 34215 C10orf110 NM_018470 0.0022 Chromosome 10 open reading frame 110 146597 HMG4L NM_178467 0.0022 "synonym: dJ18C9.3; go_component: nucleus [goid 0005634] [evidence IEA]; go_component: chromatin [goid 0000785] [evidence IEA]; go_function: DNA binding [goid 0003677] [evidence IEA]; go_process: regulation of transcription, DNA-dependent [goid 0006355] [evidence IEA]; Homo sapiens high-mobility group (nonhistone chromosomal) protein 4-like (HMG4L), mRNA." 92291 MDK NM_002391 0.0022 Midkine (neurite growth- promoting factor 2) 5050 IL1R2 NM_004633 0.0022 "Interleukin 1 receptor, type II" 39867 PLA2G4A NM_024420 0.0022 "Phospholipase A2, group http://ard.bmj.com/ IVA (cytosolic, calcium- dependent)" 183710 XM_351292 0.00222 7679 CD163 NM_004244 0.00222 CD163 antigen 61087 FLJ39370 NM_152400 0.00224 Hypothetical protein

FLJ39370 on October 2, 2021 by guest. Protected copyright. 16854 PROCR NM_006404 0.00226 "Protein C receptor, endothelial (EPCR)" 128726 CENTA1 NM_006869 0.00231 "Centaurin, alpha 1" 61143 CWF19L2 NM_152434 0.00237 "CWF19-like 2, cell cycle control (S. pombe)" 103581 NTF5 NM_006179 0.00239 Neurotrophin 5 (neurotrophin 4/5) 63537 ZNF549 NM_153263 0.00239 Zinc finger protein 549 73966 C14orf120 AL050003 0.0024 Chromosome 14 open reading frame 120 32653 LRP1B NM_018557 0.00243 Low density lipoprotein- related protein 1B (deleted in tumors) 103092 NM_173704 0.00246 35742 BM039 NM_018455 0.00246 Uncharacterized bone marrow protein BM039

35 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

146139 CECR8 AY026053 0.00246 "Cat eye syndrome chromosome region, candidate 8" 47894 LENG8 NM_052925 0.00248 Leukocyte receptor cluster (LRC) member 8 28525 FLJ20668 NM_017923 0.00249 Hypothetical protein FLJ20668 135319 SLC43A3 NM_017611 0.00251 "Solute carrier family 43, member 3" 87629 AZGP1 NM_001185 0.00251 "Alpha-2-glycoprotein 1, zinc" 25951 XM_351114 0.00252 154249 BM468019 0.00252 "Homo sapiens, Similar to hypothetical protein MGC10526, clone IMAGE:4133906, mRNA" 36558 GPR84 NM_020370 0.00252 G protein-coupled receptor 84 125012 FLJ11029 NM_018304 0.00252 Hypothetical protein FLJ11029 79995 XM_059368 0.00257 9924 IDH1 NM_005896 0.00257 "Isocitrate dehydrogenase 1 (NADP+), soluble" 122541 STX6 NM_005819 0.00257 Syntaxin 6 83699 MGC30208 NM_173804 0.00257 Hypothetical protein MGC30208 29056 WDR41 NM_018268 0.00258 WD repeat domain 41 75585 ODZ2 XM_047995 0.00258 "Odz, odd Oz/ten-m homolog 2 (Drosophila)" 95028 GPX4 NM_002085 0.00258 Glutathione peroxidase 4 (phospholipid hydroperoxidase) 33551 CSRP2BP NM_020536 0.00258 CSRP2 binding protein 168591 GMEB1 NM_006582 0.00267 Glucocorticoid modulatory element binding protein 1 http://ard.bmj.com/ 114940 AHSA1 NM_012111 0.00271 "AHA1, activator of heat shock 90kDa protein ATPase homolog 1 (yeast)" 23677 CL640 NM_015697 0.00271 Hypothetical protein CL640 12933 CD96 NM_005816 0.00271 CD96 antigen 142505 GH1 NM_000515 0.00275 Growth hormone 1 on October 2, 2021 by guest. Protected copyright. 4301 BNIP3 NM_004052 0.00276 "synonym: NIP3; go_component: mitochondrion [goid 0005739] [evidence IEA]; go_component: integral to membrane [goid 0016021] [evidence IEA]; go_function: protein binding [goid 0005515] [evidence NAS]; go_process: apoptosis [goid 0006915] [evidence IEA]; go_process: anti-apoptosis [goid 0006916] [evidence TAS] [pmid 7954800]; Homo sapiens BCL2/adenovirus E1B 19kDa interacting protein

36 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

3 (BNIP3), nuclear gene encoding mitochondrial protein, mRNA." 13841 XPNPEP1 NM_006523 0.00277 "synonyms: SAMP, XPNPEP, XPNPEPL, XPNPEPL1; X- prolyl aminopeptidase (aminopeptidase P)-like; go_function: hydrolase activity [goid 0016787] [evidence IEA]; go_function: metalloexopeptidase activity [goid 0008235] [evidence IEA]; go_function: X-Pro aminopeptidase activity [goid 0008451] [evidence IEA]; go_process: proteolysis and peptidolysis [goid 0006508] [evidence IEA]; Homo sapiens X-prolyl aminopeptidase (aminopeptidase P) 1, soluble (XPNPEP1), mRNA." 176353 APOL1 NM_003661 0.00278 "Apolipoprotein L, 1" 109002 CARD9 NM_052813 0.00278 "Caspase recruitment domain family, member 9" 91368 ARHGAP4 NM_001666 0.00279 Rho GTPase activating protein 4 29530 OAS2 NM_016817 0.0028 "2'-5'-oligoadenylate synthetase 2, 69/71kDa" 44257 SEC13L1 NM_030673 0.0028 SEC13-like 1 (S. cerevisiae) 176222 PMS2L5 NM_174930 0.00282 Postmeiotic segregation increased 2-like 5

178516 WDFY3 NM_178585 0.00283 WD repeat and FYVE domain http://ard.bmj.com/ containing 3 10608 F2RL1 NM_005242 0.00283 Coagulation factor II (thrombin) receptor-like 1 49782 C10orf58 NM_032333 0.00283 Chromosome 10 open reading frame 58

148125 HINT1 NM_005340 0.00286 Histidine triad nucleotide on October 2, 2021 by guest. Protected copyright. binding protein 1 69063 CAPN3 AK074037 0.00286 "Calpain 3, (p94)" 89046 RPS23 NM_001025 0.00286 Ribosomal protein S23 45495 ZNF606 NM_025027 0.00286 Zinc finger protein 606 85842 BIRC5 L26245 0.00286 Baculoviral IAP repeat- containing 5 (survivin) 89465 HK2 NM_000189 0.00288 Hexokinase 2 87423 RPS6 NM_001010 0.0029 Ribosomal protein S6 95009 GNB1 NM_002074 0.00292 "Guanine nucleotide binding protein (G protein), beta polypeptide 1" 100107 ENC1 NM_003633 0.00301 Ectodermal-neural cortex (with BTB-like domain) 32256 C14orf115 NM_018228 0.00302 Chromosome 14 open reading frame 115 59447 ZNF440 NM_152357 0.00305 Zinc finger protein 440

37 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

27866 DKFZp434L142 NM_016613 0.00306 Hypothetical protein DKFZp434L142 45748 BTBD1 NM_025238 0.00306 BTB (POZ) domain containing 1 172706 HSPA8 NM_006597 0.00306 Heat shock 70kDa protein 8 84031 MGC46336 BC036762 0.00306 Hypothetical protein MGC46336 92261 MARCKS NM_002356 0.00306 Myristoylated alanine-rich protein kinase C substrate 24487 CUL7 NM_014780 0.00307 Cullin 7 81884 VKORC1L1 NM_173517 0.0031 "Vitamin K epoxide reductase complex, subunit 1-like 1" 22775 ECE2 NM_014693 0.00316 Endothelin converting enzyme 2 18579 OCIL NM_013269 0.00319 Lectin-like NK cell receptor 18045 FRAT2 NM_012083 0.00319 Frequently rearranged in advanced T-cell lymphomas 2 145631 RPL27A NM_000990 0.00319 Hypothetical protein MGC10850 69415 FLJ20421 AK090988 0.00319 Hypothetical protein FLJ20421 115921 AASS NM_005763 0.00319 Aminoadipate-semialdehyde synthase 8934 TNRC11 NM_005120 0.0032 "Trinucleotide repeat containing 11 (THR- associated protein, 230kDa subunit)" 106164 NUP155 NM_004298 0.00322 Nucleoporin 155kDa 6805 CCPG1 NM_004748 0.00322 "Phosphatidylinositol glycan, class B" 89612 PCCA NM_000282 0.00323 "Propionyl Coenzyme A carboxylase, alpha polypeptide" http://ard.bmj.com/ 144172 TMSB4X BC001631 0.00326 "Thymosin, beta 4, X-linked" 110178 GNB4 NM_021629 0.00326 "Guanine nucleotide binding protein (G protein), beta polypeptide 4" 64681 SLC24A4 NM_153646 0.00327 "Solute carrier family 24

(sodium/potassium/calcium on October 2, 2021 by guest. Protected copyright. exchanger), member 4" 123359 LOC143903 NM_178834 0.00327 Layilin 150166 BC045718 0.00333 LOC440460 80360 ATXN7L3 BC024695 0.00333 Ataxin 7-like 3 87437 RPS21 NM_001024 0.00333 Ribosomal protein S21 161071 BACH2 AL833645 0.00333 "BTB and CNC homology 1, basic leucine zipper transcription factor 2" 5684 MCM3AP NM_003906 0.00333 MCM3 minichromosome maintenance deficient 3 (S. cerevisiae) associated protein 107808 EEF1D NM_001960 0.00333 Eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein) 37182 SCPEP1 NM_021626 0.00333 Serine carboxypeptidase 1

38 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

21840 TMOD4 NM_013353 0.00333 Tropomodulin 4 (muscle) 29774 FLJ20035 NM_017631 0.00333 Hypothetical protein FLJ20035 8052 HRB NM_004504 0.00333 HIV-1 Rev binding protein 139267 RPS14 NM_005617 0.00333 Ribosomal protein S14 58626 MGC27019 NM_144705 0.00333 Hypothetical protein MGC27019 62780 C19orf18 NM_152474 0.00335 Chromosome 19 open reading frame 18 8423 B4GALT5 NM_004776 0.00335 "UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 5" 147483 RPS18 AY090769 0.00341 Ribosomal protein S18 99476 SRP54 NM_003136 0.00342 Signal recognition particle 54kDa 57328 MGC16703 NM_145042 0.00344 Alpha tubulin-like 19060 STXBP6 NM_014178 0.00344 Syntaxin binding protein 6 (amisyn) 156193 RNU22 AK095849 0.00344 "RNA, U22 small nucleolar" 5711 KYNU NM_003937 0.00344 Kynureninase (L-kynurenine hydrolase) 77255 SLITRK4 NM_173078 0.00344 "SLIT and NTRK-like family, member 4" 101627 SNX11 NM_013323 0.00344 Sorting nexin 11 85472 MMD2 BC037881 0.00344 Monocyte to macrophage differentiation-associated 2 5945 GBP2 NM_004120 0.00344 "Guanylate binding protein 2, interferon-inducible" 38502 TNFAIP9 NM_024636 0.00349 "Tumor necrosis factor, alpha- induced protein 9" 39374 C6orf106 NM_022758 0.00349 Chromosome 6 open reading frame 106 http://ard.bmj.com/ 160263 AL833465 0.00349 MRNA; cDNA DKFZp686C0817 (from clone DKFZp686C0817) 14278 CCNI NM_006835 0.00349 Cyclin I 77987 MGC9913 BC008651 0.00349 Hypothetical protein MGC9913 101732 M17S2 NM_005899 0.00349 "Membrane component, on October 2, 2021 by guest. Protected copyright. chromosome 17, surface marker 2 (ovarian carcinoma antigen CA125)" 133970 IFIT5 NM_012420 0.00349 Interferon-induced protein with tetratricopeptide repeats 5 159549 LOC283352 AK097496 0.00349 Hypothetical protein LOC283352 90324 GSTA3 NM_000847 0.00351 Glutathione S-transferase A3 147439 IQGAP1 AF401205 0.00351 IQ motif containing GTPase activating protein 1 124514 GNPDA1 NM_005471 0.00352 Glucosamine-6-phosphate deaminase 1 161639 LOC255458 AK095170 0.00355 Hypothetical protein LOC255458 134945 DREV1 NM_016025 0.00355 DORA reverse strand protein

39 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

1 158965 AK057151 0.00355 "CDNA FLJ32589 fis, clone SPLEN2000443" 6943 SPTLC2 NM_004863 0.00359 "Serine palmitoyltransferase, long chain base subunit 2" 37816 ZC3HDC1 NM_022750 0.00359 Zinc finger CCCH type domain containing 1 175723 RASSF1 NM_007182 0.00363 Ras association (RalGDS/AF- 6) domain family 1 140218 KIAA0690 NM_015179 0.00364 KIAA0690 43459 ASB7 NM_024708 0.00364 Ankyrin repeat and SOCS box-containing 7 86910 GSR NM_000637 0.00364 Glutathione reductase 99554 SYK NM_003177 0.00364 Spleen tyrosine kinase 5091 VNN1 NM_004666 0.00364 Vanin 1 54943 C6orf68 NM_138459 0.00367 Chromosome 6 open reading frame 68 43945 NM_025088 0.00367 11912 PIK3CD NM_005026 0.00367 "Phosphoinositide-3-kinase, catalytic, delta polypeptide" 101227 PFDN5 NM_002624 0.00367 Prefoldin 5 18486 TNPO3 NM_012470 0.00367 Transportin 3 122830 TM6SF1 NM_023003 0.00367 Transmembrane 6 superfamily member 1 86813 IL1RN NM_000577 0.00367 Interleukin 1 receptor antagonist 113802 GTSE1 NM_016426 0.00369 G-2 and S-phase expressed 1 32078 LRRC5 NM_018103 0.00371 Leucine rich repeat containing 5 27027 HSPC016 NM_015933 0.00371 Hypothetical protein HSPC016

133928 UNG2 NM_021147 0.00373 Uracil-DNA glycosylase 2 http://ard.bmj.com/ 88738 DRD4 NM_000797 0.00373 Dopamine receptor D4 7220 CREG NM_003851 0.00373 Cellular repressor of E1A- stimulated genes 171224 RPS27 NM_001030 0.00376 Ribosomal protein S27 (metallopanstimulin 1) 92845 AMPH NM_001635 0.00379 Amphiphysin (Stiff-Man syndrome with breast cancer on October 2, 2021 by guest. Protected copyright. 128kDa autoantigen) 87550 ADCY7 NM_001114 0.00382 Adenylate cyclase 7 20250 TRA2A NM_013293 0.00383 Transformer-2 alpha 90533 RPL39 NM_001000 0.00383 Ribosomal protein L39 105690 TRIM34 NM_021616 0.00383 Tripartite motif-containing 6 and tripartite motif-containing 34 96708 USP4 NM_003363 0.00384 Ubiquitin specific protease 4 (proto-oncogene) 179013 CCPG1 NM_020739 0.00388 "Phosphatidylinositol glycan, class B" 182883 XM_352257 0.00392 44907 GAJ NM_032117 0.00392 GAJ protein 56900 LIPH NM_139248 0.00392 "Lipase, member H" 2987 KLHL8 NM_020803 0.00394 Kelch-like 8 (Drosophila)

40 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

42735 DKFZP564K0822 NM_030796 0.00395 Hypothetical protein DKFZp564K0822 33965 FLJ11017 NM_018302 0.00395 Hypothetical protein FLJ11017 19359 TAF5L NM_014409 0.00396 "TAF5-like RNA polymerase II, p300/CBP-associated factor (PCAF)-associated factor, 65kDa" 57643 GPR82 NM_080817 0.00397 G protein-coupled receptor 82 30423 FLJ10375 NM_018075 0.00398 Hypothetical protein FLJ10375 144808 TRIM33 NM_015906 0.00398 Tripartite motif-containing 33 34785 HLA-DQA2 NM_020056 0.00398 "Major histocompatibility complex, class II, DQ alpha 2" 177248 UBE2C NM_181799 0.00403 Ubiquitin-conjugating enzyme E2C 60469 ENAH XM_351323 0.00405 "synonyms: mena, NDPP1, FLJ10773; go_process: development [goid 0007275] [evidence IEA]; go_process: neurogenesis [goid 0007399] [evidence IEA]; Homo sapiens enabled homolog (Drosophila) (ENAH), mRNA." 41 RPL27 NM_000988 0.00405 Ribosomal protein L27 156411 BX537743 0.0041 MRNA; cDNA DKFZp686E2388 (from clone DKFZp686E2388) 16463 CSF2RA NM_006140 0.0041 "Colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)" 40414 TRIB2 NM_021643 0.00411 Tribbles homolog 2 (Drosophila) http://ard.bmj.com/ 8650 C21orf2 NM_004928 0.00411 Chromosome 21 open reading frame 2 124654 UNC5A BC009333 0.00411 Unc-5 homolog A (C. elegans) 180974 UNQ3033 XM_211457 0.00411 "Homo sapiens LAIR hlog

(UNQ3033), mRNA." on October 2, 2021 by guest. Protected copyright. 143477 NRG1 NM_004495 0.00411 Neuregulin 1 5538 EDG6 NM_003775 0.00412 "Endothelial differentiation, G- protein-coupled receptor 6" 49917 ZC3HDC8 NM_032494 0.00412 Zinc finger CCCH type domain containing 8 59957 C1GALT2 NM_152692 0.00413 "Core 1 UDP-galactose:N- acetylgalactosamine-alpha-R beta 1,3- galactosyltransferase 2" 50016 DSCR8 NM_032589 0.00416 Down syndrome critical region gene 8 34545 FLJ20273 NM_019027 0.00416 RNA-binding protein 20847 IGSF4 NM_014333 0.00416 "Immunoglobulin superfamily, member 4" 90657 ACACB NM_001093 0.00416 Acetyl-Coenzyme A carboxylase beta

41 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

38667 CARD12 NM_021209 0.00416 "Caspase recruitment domain family, member 12" 104180 IFNGR1 AA361448 0.00419 Interferon gamma receptor 1 59914 FLJ40873 NM_152665 0.00419 Hypothetical protein FLJ40873 11570 MAT2A NM_005911 0.00419 "Methionine adenosyltransferase II, alpha" 32402 FLJ11151 NM_018340 0.00419 Hypothetical protein FLJ11151 14295 DIPA NM_006848 0.00419 Hepatitis delta antigen- interacting protein A 30632 DNAJC11 NM_018198 0.00419 "DnaJ (Hsp40) homolog, subfamily C, member 11" 90770 ASGR2 NM_001181 0.00419 Asialoglycoprotein receptor 2 162434 BC041400 0.00419 "Homo sapiens, clone IMAGE:5277945, mRNA" 146761 PLGL AF237700 0.00419 Plasminogen-like 24396 GPRASP1 NM_014710 0.00419 G protein-coupled receptor associated sorting protein 1 98099 TLR2 NM_003264 0.00423 Toll-like receptor 2 39809 FA2H NM_024306 0.00423 Fatty acid 2-hydroxylase 171562 WRNIP1 NM_020135 0.00424 Werner helicase interacting protein 1 21591 PRKCABP NM_012407 0.00424 "Protein kinase C, alpha binding protein" 8801 POLRMT NM_005035 0.00424 Polymerase (RNA) mitochondrial (DNA directed) 54774 BBAP NM_138287 0.00424 Rhysin 2 13291 CROP NM_006107 0.00425 Acid-inducible phosphoprotein 165422 KLF12 NM_007249 0.00425 Kruppel-like factor 12 9439 HNRPH1 NM_005520 0.00427 Heterogeneous nuclear http://ard.bmj.com/ ribonucleoprotein H1 (H) 99252 S100A8 NM_002964 0.00427 S100 calcium binding protein A8 (calgranulin A) 30738 FAM8A1 NM_016255 0.00427 "Family with sequence similarity 8, member A1" 157646 LOC196337 AK091817 0.00427 Hypothetical protein LOC196337 on October 2, 2021 by guest. Protected copyright. 183082 XM_350828 0.00428 90177 CD3E NM_000733 0.00428 "CD3E antigen, epsilon polypeptide (TiT3 complex)" 80101 FAM36A BC018519 0.00428 "Family with sequence similarity 36, member A" 166794 CASP1 NM_033295 0.00429 "Caspase 1, apoptosis-related cysteine protease (interleukin 1, beta, convertase)" 10824 PTPN14 NM_005401 0.00429 "Protein tyrosine phosphatase, non-receptor type 14" 34547 FLJ20273 NM_019027 0.0043 RNA-binding protein 9942 MAN1A1 NM_005907 0.0043 "Mannosidase, alpha, class 1A, member 1" 21622 SDFR1 NM_012428 0.00434 Stromal cell derived factor

42 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

receptor 1 158054 STK35 AK024394 0.00438 Serine/threonine kinase 35 162861 LOC157562 AL050061 0.00438 Hypothetical protein LOC157562 93696 KRTHB6 NM_002284 0.00438 "Keratin, hair, basic, 6 (monilethrix)" 33514 ARP3BETA NM_020445 0.00438 Actin-related protein 3-beta 94108 EEF1A1 NM_001402 0.00438 Eukaryotic translation elongation factor 1 alpha 1 80932 LOC201895 NM_174921 0.00438 Hypothetical protein LOC201895 34938 CDC42SE1 NM_020239 0.00438 CDC42 small effector 1 44 RPL9 NM_000661 0.00438 Ribosomal protein L9 92265 MAD2L1 NM_002358 0.00438 MAD2 mitotic arrest deficient- like 1 (yeast) 182947 XM_352433 0.00438 144818 TRIM5 NM_033034 0.00438 Tripartite motif-containing 5 140059 NM_031407 0.00438 18291 CENTB2 NM_012287 0.00438 "Centaurin, beta 2" 151134 DST BC020911 0.00438 Dystonin 98224 UBE2H NM_003344 0.00438 "Ubiquitin-conjugating enzyme E2H (UBC8 homolog, yeast)" 163253 MAP3K7IP2 NM_015093 0.00438 Mitogen-activated protein kinase kinase kinase 7 interacting protein 2 8074 NM_004522 0.00441 84793 DPYD NM_000110 0.00441 Dihydropyrimidine dehydrogenase 179867 PPFIA1 NM_177423 0.00442 "Protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), http://ard.bmj.com/ interacting protein (liprin), alpha 1" 154883 BC040618 0.00443 "Homo sapiens, clone IMAGE:5725893, mRNA" 97960 SSA1 NM_003141 0.00445 "Sjogren syndrome antigen A1 (52kDa, ribonucleoprotein autoantigen SS-A/Ro)" on October 2, 2021 by guest. Protected copyright. 98618 CSDA NM_003651 0.00445 Cold shock domain protein A 57597 NEU4 NM_080741 0.00445 Sialidase 4 151832 AF074981 0.00445 Homo sapiens full length insert cDNA YH59G06. 23845 ASCC1 NM_015947 0.00445 Activating signal cointegrator 1 complex subunit 1 10912 GPR51 NM_005458 0.00445 G protein-coupled receptor 51 89363 CHD4 NM_001273 0.00446 Chromodomain helicase DNA binding protein 4 27392 TRIP4 NM_016213 0.00446 Thyroid hormone receptor interactor 4 21555 OR2F1 NM_012369 0.0045 "synonyms: OLF3, OR2F3, OR2F4, OR2F5, OR2F3P, OR14-60, OR7-139, OR7- 140; olfactory receptor, family 2, subfamily F, member 5;

43 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

olfactory receptor, family 2, subfamily F, member 4; olfactory receptor, family 2, subfamily F, member 3; go_component: integral to plasma membrane [goid 0005887] [evidence NR]; go_function: receptor activity [goid 0004872] [evidence NR]; go_function: olfactory receptor activity [goid 0004984] [evidence IEA]; go_process: perception of smell [goid 0007608] [evidence IEA]; go_process: signal transduction [goid 0007165] [evidence NR] [pmid 9500546]; go_process: G-protein coupled receptor protein signaling pathway [goid 0007186] [evidence IEA]; Homo sapiens olfactory receptor, family 2, subfamily F, member 1 (OR2F1), mRNA." 148226 AK021714 0.00452 "CDNA FLJ11652 fis, clone HEMBA1004461" 8534 PIGB NM_004855 0.00452 "Phosphatidylinositol glycan, class B" 97213 PRDX1 NM_002574 0.00452 Peroxiredoxin 1 146961 HS586621 0.00452 132684 FUT4 NM_002033 0.00452 "Fucosyltransferase 4 (alpha

(1,3) fucosyltransferase, http://ard.bmj.com/ myeloid-specific)" 97716 RPS2 NM_002952 0.00452 Ribosomal protein S2 94971 GBP1 NM_002053 0.00452 "Guanylate binding protein 1, interferon-inducible, 67kDa" 495 KIAA1530 XM_042661 0.00452 KIAA1530 protein

49646 MLSTD2 NM_032228 0.00452 Male sterility domain on October 2, 2021 by guest. Protected copyright. containing 2 95331 LSP1 NM_002339 0.00452 Lymphocyte-specific protein 1 95552 NOV NM_002514 0.00452 Nephroblastoma overexpressed gene 75182 TEF AK097637 0.00452 Thyrotrophic embryonic factor 14827 TLR6 NM_006068 0.00452 Toll-like receptor 6 145220 EGLN2 NM_017555 0.00456 Egl nine homolog 2 (C. elegans) 125626 PRKY NM_002760 0.00458 "Protein kinase, Y-linked" 84751 CDKN1C NM_000076 0.00458 "Cyclin-dependent kinase inhibitor 1C (p57, Kip2)" 37520 KIF13A NM_022113 0.00458 Kinesin family member 13A 15617 CYSLTR1 NM_006639 0.00458 Cysteinyl leukotriene receptor 1 39127 IFIH1 NM_022168 0.00458 Interferon induced with helicase C domain 1

44 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

22279 TDRD7 NM_014290 0.00458 Tudor domain containing 7 44218 DICER1 NM_030621 0.00461 "Dicer1, Dcr-1 homolog (Drosophila)" 95201 IVD NM_002225 0.00461 Isovaleryl Coenzyme A dehydrogenase 94586 CD69 NM_001781 0.00461 "CD69 antigen (p60, early T- cell activation antigen)" 32031 FANCL NM_018062 0.00463 "Fanconi anemia, complementation group L" 110358 ERO1L NM_014584 0.00463 ERO1-like (S. cerevisiae) 136226 APH-1A NM_016022 0.00463 Likely ortholog of C. elegans anterior pharynx defective 1A 43862 NM_025024 0.00463 98106 TLR5 NM_003268 0.00463 Toll-like receptor 5 126471 CNTN3 XM_039627 0.00463 Contactin 3 (plasmacytoma associated) 75096 LOC349114 XM_351700 0.00465 "Homo sapiens hypothetical protein LOC349114 (LOC349114), mRNA." 25247 DKFZP564C186 NM_015658 0.00467 DKFZP564C186 protein 89199 ANXA4 NM_001153 0.00477 Annexin A4 46691 RANBP2L1 NM_032260 0.00479 RAN binding protein 2-like 1 35685 CHST11 NM_018413 0.00482 Carbohydrate (chondroitin 4) sulfotransferase 11 44948 MYCBPAP NM_032133 0.00483 MYCBP associated protein 19461 ZNF330 NM_014487 0.00485 Zinc finger protein 330 44599 C20orf55 NM_031424 0.00485 Chromosome 20 open reading frame 55 137293 ALS2CR2 NM_018571 0.00488 "Amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 2" 47500 PNPT1 NM_033109 0.00488 Polyribonucleotide http://ard.bmj.com/ nucleotidyltransferase 1 5085 VNN2 NM_004665 0.00489 Vanin 2 60951 SLC36A4 NM_152313 0.00493 "Solute carrier family 36 (proton/amino acid symporter), member 4" 93966 NDUFB3 NM_002491 0.00493 "NADH dehydrogenase (ubiquinone) 1 beta on October 2, 2021 by guest. Protected copyright. subcomplex, 3, 12kDa" 31808 C20orf11 NM_017896 0.00493 Chromosome 20 open reading frame 11 60727 ZNF23 NM_145911 0.00493 Zinc finger protein 19 (KOX 12) 70483 HSHIN1 AK056597 0.00494 HIV-1 induced protein HIN-1 12379 NFIL3 NM_005384 0.00494 "Nuclear factor, interleukin 3 regulated" 185128 XM_352329 0.00494 33227 DHX33 NM_020162 0.00496 DEAH (Asp-Glu-Ala-His) box polypeptide 33 106202 SCAMP1 NM_004866 0.00496 Secretory carrier membrane protein 1 40777 EPB41L4A NM_022140 0.00496 Erythrocyte membrane protein band 4.1 like 4A

45 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

27294 RAB10 NM_016131 0.00498 "RAB10, member RAS oncogene family" 32820 MNAB NM_018835 0.00498 Membrane associated DNA binding protein 47546 DKFZP572C163 NM_033160 0.005 DKFZP572C163 protein 12822 ARL4A NM_005738 0.00503 ADP-ribosylation factor-like 4A 21792 GPR171 NM_013308 0.00503 G protein-coupled receptor 171 36568 C6orf210 NM_020381 0.00503 Chromosome 6 open reading frame 210 71186 SLC9A9 NM_173653 0.00503 "Solute carrier family 9 (sodium/hydrogen exchanger), isoform 9" 4986 SCO1 NM_004589 0.00506 SCO cytochrome oxidase deficient homolog 1 (yeast) 155097 ASB7; FLJ22551 AK094123 0.00506 "Homo sapiens cDNA FLJ36804 fis, clone ADRGL2009273." 88817 GSTA2 NM_000846 0.00506 Glutathione S-transferase A2 100945 T71209 0.00507 "yd34g05.s1 Soares fetal liver spleen 1NFLS Homo sapiens cDNA clone IMAGE:110168 3' similar to gb:M13520 BETA-HEXOSAMINIDASE ALPHA CHAIN (HUMAN);, mRNA sequence." 211 KIAA0877 AB020684 0.00507 KIAA0877 protein 22567 TOR1B NM_014506 0.00507 "Torsin family 1, member B (torsin B)" 12003 SLC27A4 NM_005094 0.00508 "Solute carrier family 27 (fatty acid transporter), member 4" 170491 TLR4 NM_003266 0.00508 Toll-like receptor 4 http://ard.bmj.com/ 23060 CHSY1 NM_014918 0.00508 Carbohydrate (chondroitin) synthase 1 23853 CGI-26 NM_015954 0.00508 CGI-26 protein 93288 EEF2 NM_001961 0.00508 Eukaryotic translation elongation factor 2

37790 NUCKS NM_022731 0.00508 Nuclear ubiquitous casein on October 2, 2021 by guest. Protected copyright. kinase and cyclin-dependent kinase substrate 16419 SIAT10 NM_006100 0.00508 "Sialyltransferase 10 (alpha- 2,3-sialyltransferase VI)" 98628 BLZF1 NM_003666 0.00508 Basic leucine zipper nuclear factor 1 (JEM-1) 100712 AA481425 0.00512 "zv06f09.s1 Soares_NhHMPu_S1 Homo sapiens cDNA clone IMAGE:752873 3' similar to contains MER5.b3 MER5 repetitive element ;, mRNA sequence." 95175 ITGAL NM_002209 0.00512 "Integrin, alpha L (antigen CD11A (p180), lymphocyte function-associated antigen 1;

46 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

alpha polypeptide)" 114944 SPTLC2 NM_004863 0.00512 "Serine palmitoyltransferase, long chain base subunit 2" 154762 SNTB2 AK022467 0.00512 "Syntrophin, beta 2 (dystrophin-associated protein A1, 59kDa, basic component 2)" 5303 NMT2 NM_004808 0.00512 N-myristoyltransferase 2 99583 TCF7 NM_003202 0.00512 "Transcription factor 7 (T-cell specific, HMG-box)" 91399 ATP6V1A NM_001690 0.00512 "ATPase, H+ transporting, lysosomal 70kDa, V1 subunit A" 82952 PMS2L4 D38500 0.00514 Similar to PMS2 postmeiotic segregation increased 2 (S. cerevisiae) 160960 BX537871 0.00518 MRNA; cDNA DKFZp313N0236 (from clone DKFZp313N0236) 96870 PDHX NM_003477 0.00519 "Pyruvate dehydrogenase complex, component X" 5503 NUMB NM_003744 0.00519 Numb homolog (Drosophila) 57127 LOC148523 NM_144697 0.00519 Hypothetical protein BC017397 2397 KIAA1107 AF017090 0.00521 KIAA1107 protein 93473 GSPT1 NM_002094 0.00521 G1 to S phase transition 1 94761 CTNNB1 NM_001904 0.00521 "Catenin (cadherin-associated protein), beta 1, 88kDa" 119433 PTPNS1L3 XM_209363 0.00521 "Protein tyrosine phosphatase, non-receptor type substrate 1-like 3" 95685 PFKP NM_002627 0.00521 "Phosphofructokinase, platelet" http://ard.bmj.com/ 93168 CPM NM_001874 0.00524 Carboxypeptidase M 119449 HNRPR NM_005826 0.00539 Heterogeneous nuclear ribonucleoprotein R 186247 XM_291892 0.00541 5253 PPARBP NM_004774 0.00548 PPAR binding protein

127814 GALNT7 NM_017423 0.00549 UDP-N-acetyl-alpha-D- on October 2, 2021 by guest. Protected copyright. galactosamine:polypeptide N- acetylgalactosaminyltransfera se 7 (GalNAc-T7) 87417 RPS4X NM_001007 0.00552 "Ribosomal protein S4, X- linked" 43 RPL6 NM_000970 0.00553 Ribosomal protein L6 80015 RAB7B BC017092 0.00553 "RAB7B, member RAS oncogene family" 13053 SMAD1 NM_005900 0.00553 "SMAD, mothers against DPP homolog 1 (Drosophila)" 33753 CPNE5 NM_020939 0.00553 Copine V 129328 RB1 NM_000321 0.00553 Retinoblastoma 1 (including osteosarcoma) 43309 B3GNT5 NM_032047 0.00553 "UDP-GlcNAc:betaGal beta- 1,3-N- acetylglucosaminyltransferas

47 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

e 5" 96761 CYLN2 NM_003388 0.00554 Cytoplasmic linker 2 19434 DHDH NM_014475 0.00557 Dihydrodiol dehydrogenase (dimeric) 18516 CD24 NM_013230 0.00557 CD24 antigen (small cell lung carcinoma cluster 4 antigen) 78788 PPFIBP2 XM_084578 0.00557 "PTPRF interacting protein, binding protein 2 (liprin beta 2)" 132461 FAM13C1 U79304 0.00557 "Family with sequence similarity 13, member C1" 35973 MCFP NM_018843 0.00559 Mitochondrial carrier family protein 181896 na XM_292779 0.00559 Hypothetical LOC342918 64304 XM_353694 0.00559 12294 GRPR NM_005314 0.00564 Gastrin-releasing peptide receptor 94877 FAU NM_001997 0.00564 Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived); ribosomal protein S30 58603 DKFZp686H1423 NM_144696 0.00564 Hypothetical protein FLJ32940 135851 RHPN1 NM_052924 0.00564 "Rhophilin, Rho GTPase binding protein 1" 107791 BCL6 NM_001706 0.00564 B-cell CLL/lymphoma 6 (zinc finger protein 51) 100586 LFNG U94354 0.00573 Lunatic fringe homolog (Drosophila) 16336 Z39IG NM_007268 0.00574 Ig superfamily protein 157194 TCF7L2 AK090998 0.00574 "Transcription factor 7-like 2 (T-cell specific, HMG-box)" http://ard.bmj.com/ 13498 PRKCD NM_006254 0.00574 "Protein kinase C, delta" 8867 PGLYRP1 NM_005091 0.00574 Peptidoglycan recognition protein 1 92746 IFIT2 NM_001547 0.00574 Interferon-induced protein with tetratricopeptide repeats

2 on October 2, 2021 by guest. Protected copyright. 98532 CUL4A NM_003589 0.00574 Cullin 4A 95562 NRD1 NM_002525 0.00574 Nardilysin (N-arginine dibasic convertase) 7315 CDK5R2 NM_003936 0.00579 "Cyclin-dependent kinase 5, regulatory subunit 2 (p39)" 107568 CDKN2A NM_000077 0.00579 "Cyclin-dependent kinase inhibitor 2A (melanoma, p16, inhibits CDK4)" 39287 RPS18 NM_022551 0.00589 Ribosomal protein S18 97359 PPM1B NM_002706 0.00589 "Protein phosphatase 1B (formerly 2C), magnesium- dependent, beta isoform" 36668 PBXIP1 NM_020524 0.0059 Pre-B-cell leukemia transcription factor interacting protein 1 105362 CABP1 NM_004276 0.00594 Calcium binding protein 1

48 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

(calbrain) 126034 PRAME NM_006115 0.00595 Preferentially expressed antigen in melanoma 89686 RHAG NM_000324 0.00599 Rhesus blood group- associated glycoprotein 46201 UCK1 NM_031432 0.00599 Uridine-cytidine kinase 1 138994 TIGD6 NM_030953 0.00599 Tigger transposable element derived 6 29026 FLJ10858 NM_018248 0.00599 DNA glycosylase hFPG2 61564 FLJ36874 NM_152716 0.00599 Hypothetical protein FLJ36874 133850 CGI-109 NM_181836 0.00599 CGI-109 protein 54429 EDARADD NM_080738 0.00599 EDAR-associated death domain 12268 GPR25 NM_005298 0.00599 G protein-coupled receptor 25 1662 182-FIP NM_020772 0.00604 82-kD FMRP Interacting Protein 95791 POU5F1 NM_002701 0.00604 "POU domain, class 5, transcription factor 1" 72429 PCSK9 NM_174936 0.00604 Proprotein convertase subtilisin/kexin type 9 11590 MFAP3 NM_005927 0.00607 Microfibrillar-associated protein 3 132617 MUC5B XM_039877 0.00607 "Mucin 5, subtype B, tracheobronchial" 49466 LRG1 NM_052972 0.00607 Leucine-rich alpha-2- glycoprotein 1 169603 C6orf29 NM_025257 0.00611 Chromosome 6 open reading frame 29 60297 hIAN7 NM_153236 0.00614 Immune associated nucleotide 29502 NEUGRIN NM_016645 0.00617 Mesenchymal stem cell http://ard.bmj.com/ protein DSC92 81571 XM_290792 0.0062 110028 AHR NM_001621 0.00621 Aryl hydrocarbon receptor 173314 GABPB2 NM_002041 0.00622 "GA binding protein transcription factor, beta subunit 2, 47kDa" 7235 SAP30 NM_003864 0.00626 "Sin3-associated polypeptide, on October 2, 2021 by guest. Protected copyright. 30kDa" 6827 STK17A NM_004760 0.00629 Serine/threonine kinase 17a (apoptosis-inducing) 78161 AP3S2 BC010615 0.00629 "Adaptor-related protein complex 3, sigma 2 subunit" 137500 NM_014917 0.00629 13123 MTHFD1 NM_005956 0.00629 "Methylenetetrahydrofolate dehydrogenase (NADP+ dependent), methenyltetrahydrofolate cyclohydrolase, formyltetrahydrofolate synthetase" 54890 C6orf117 NM_138409 0.00629 Chromosome 6 open reading frame 117 37886 P2RY12 NM_022788 0.0063 "Purinergic receptor P2Y, G-

49 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

protein coupled, 12" 58498 FLJ32784 NM_144623 0.0063 Hypothetical protein FLJ32784 26394 ALS2CR3 NM_015049 0.00636 "Amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 3" 26302 LPHN1 NM_014921 0.00636 Latrophilin 1 95371 MBP NM_002385 0.00636 Myelin basic protein 89007 RPL29 NM_000992 0.00637 Ribosomal protein L29 68810 MAP4 AK054696 0.00638 Microtubule-associated protein 4 25776 DBR1 NM_016216 0.0064 Debranching enzyme homolog 1 (S. cerevisiae) 79909 ABCC5 BC015334 0.00643 "ATP-binding cassette, subfamily C (CFTR/MRP), member 5" 7869 CSPG2 NM_004385 0.00646 Chondroitin sulfate proteoglycan 2 (versican) 106367 NM_173712 0.00646 145587 RGS1 NM_002922 0.0065 Regulator of G-protein signalling 1 4105 PCAF NM_003884 0.00651 P300/CBP-associated factor 116606 HTATIP2 NM_006410 0.00653 "HIV-1 Tat interactive protein 2, 30kDa" 152314 BF667436 0.00653 "602120788F1 NIH_MGC_56 Homo sapiens cDNA clone IMAGE:4278021 5', mRNA sequence." 99040 PSMC5 NM_002805 0.00654 "Proteasome (prosome, macropain) 26S subunit, ATPase, 5" 148313 FLJ10979 AK056832 0.00654 Hypothetical protein FLJ10979 http://ard.bmj.com/ 6705 EIF1AY NM_004681 0.00656 "Eukaryotic translation initiation factor 1A, Y-linked" 83444 TNFSF5 NM_000074 0.00658 "Tumor necrosis factor (ligand) superfamily, member 5 (hyper-IgM syndrome)"

8308 PRKRIR NM_004705 0.0066 "Protein-kinase, interferon- on October 2, 2021 by guest. Protected copyright. inducible double stranded RNA dependent inhibitor, repressor of (P58 repressor)" 86973 ALDH1B1 NM_000692 0.00661 "Aldehyde dehydrogenase 1 family, member B1" 109521 NM_173714 0.00661 38423 C6orf211 NM_024573 0.00661 Chromosome 6 open reading frame 211 129248 SUOX NM_000456 0.00661 Sulfite oxidase 124887 NM_014671 0.00663 7647 NK4 NM_004221 0.00663 Natural killer cell transcript 4 71179 KIAA1833 AK092861 0.00663 Hypothetical protein KIAA1833 65460 PLK4 Z25433 0.00663 Polo-like kinase 4 (Drosophila) 33216 C1GALT1 NM_020156 0.00663 "Core 1 UDP-galactose:N-

50 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

acetylgalactosamine-alpha-R beta 1,3- galactosyltransferase" 143865 FLJ10747 XM_351243 0.0067 "Homo sapiens hypothetical protein FLJ10747 (FLJ10747), mRNA." 145700 XM_208629 0.00672 184906 na XM_295058 0.00672 Hypothetical LOC339760 6490 BIRC1 NM_004536 0.00672 Baculoviral IAP repeat- containing 1 46004 ITM2C NM_030926 0.00672 Integral membrane protein 2C 146344 HSM800677 0.00672 57894 IL1RAP NM_134470 0.00672 Interleukin 1 receptor accessory protein 15196 HMGN4 NM_006353 0.00672 High mobility group nucleosomal binding domain 4 89184 AEBP1 NM_001129 0.00672 AE binding protein 1 17273 CD6 NM_006725 0.00673 CD6 antigen 75692 CPSF2 NM_017437 0.00673 "Cleavage and polyadenylation specific factor 2, 100kDa" 180603 XM_350850 0.00674 94639 AKR1C4 NM_001818 0.00677 "Aldo-keto reductase family 1, member C4 (chlordecone reductase; 3-alpha hydroxysteroid dehydrogenase, type I; dihydrodiol dehydrogenase 4)" 8875 CBFA2T2 NM_005093 0.00678 "Core-binding factor, runt domain, alpha subunit 2; translocated to, 2" http://ard.bmj.com/ 14792 COPE NM_007263 0.00679 "Coatomer protein complex, subunit epsilon" 22885 SPOCK2 NM_014767 0.00679 "Sparc/osteonectin, cwcv and kazal-like domains proteoglycan (testican) 2"

37846 CERK NM_022766 0.0068 Ceramide kinase on October 2, 2021 by guest. Protected copyright. 179416 TAGAP NM_054114 0.00683 T-cell activation GTPase activating protein 33037 FLJ10884 NM_019079 0.00685 Hypothetical protein FLJ10884 6256 CDC25B NM_004358 0.00687 Cell division cycle 25B 6084 TRIP15 NM_004236 0.00689 Thyroid receptor interacting protein 15 55388 FLJ31795 NM_144609 0.00689 Hypothetical protein FLJ31795 67916 KIRREL3 NM_032531 0.00689 Kin of IRRE like 3 (Drosophila) 65340 Z23090 0.00692 H.sapiens mRNA for 28 kDa heat shock protein. 22252 HCST NM_014266 0.00694 Hematopoietic cell signal transducer 95008 GNB1 NM_002074 0.00694 "Guanine nucleotide binding

51 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

protein (G protein), beta polypeptide 1" 14981 PAX1 NM_006192 0.00694 Paired box gene 1 161236 DUSP3 AK055834 0.00694 Dual specificity phosphatase 3 (vaccinia virus phosphatase VH1-related) 4171 SCAP2 NM_003930 0.00695 Src family associated phosphoprotein 2 2501 MAP3K1 XM_042066 0.00698 Mitogen-activated protein kinase kinase kinase 1 2968 DKFZP434B0335 NM_015395 0.00698 DKFZP434B0335 protein 106141 CCR2 NM_000647 0.007 Chemokine (C-C motif) receptor 2 9318 TP53BP2 NM_005426 0.007 "Tumor protein p53 binding protein, 2" 94688 COX4I1 NM_001861 0.007 Cytochrome c oxidase subunit IV isoform 1 55511 MGC23280 NM_144683 0.00702 Hypothetical protein MGC23280 122024 CLECSF12 NM_022570 0.00702 "C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 12" 97397 PRG1 NM_002727 0.00702 "Proteoglycan 1, secretory granule" 83857 LOC148203 BC034499 0.00702 "Similar to zinc finger protein 91 (HPF7, HTF10)" 33665 RBAF600 NM_020765 0.00702 Retinoblastoma-associated factor 600 52800 G22P1 AF130053 0.00702 Thyroid autoantigen 70kDa (Ku antigen) 7665 NM_004238 0.00702 149174 BC039676 0.00702 Hypothetical gene supported http://ard.bmj.com/ by BC039676 137234 SKD3 NM_030813 0.00702 Suppressor of potassium transport defect 3 23337 DOCK9 NM_015296 0.00702 Dedicator of cytokinesis 9 65396 DRPLA Z22814 0.00703 Dentatorubral-pallidoluysian

atrophy (atrophin-1) on October 2, 2021 by guest. Protected copyright. 92776 IL18 NM_001562 0.00707 Interleukin 18 (interferon- gamma-inducing factor) 81397 LENG9 BC015921 0.00709 Leukocyte receptor cluster (LRC) member 9 47180 NM_032761 0.00709 88281 BARD1 NM_000465 0.00711 BRCA1 associated RING domain 1 20890 CLECSF9 NM_014358 0.00711 "C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 9" 93246 DPP4 NM_001935 0.00711 "Dipeptidylpeptidase 4 (CD26, adenosine deaminase complexing protein 2)" 77045 STARD9 XM_031744 0.00711 START domain containing 9 92618 FABP7 NM_001446 0.00713 "Fatty acid binding protein 7,

52 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

brain" 39199 FLJ22313 NM_022373 0.00713 Hypothetical protein FLJ22313 24494 MELK NM_014791 0.00714 Maternal embryonic leucine zipper kinase 57807 C6orf33 NM_133367 0.00714 Chromosome 6 open reading frame 33 13180 CD164 NM_006016 0.00714 "CD164 antigen, sialomucin" 91507 CD33 NM_001772 0.00714 CD33 antigen (gp67) 60390 FLJ90024 NM_153342 0.00714 Fasting-inducible integral membrane protein TM6P1 152136 SSBP2 AF147344 0.00717 Single-stranded DNA binding protein 2 90146 BLVRA NM_000712 0.00717 Biliverdin reductase A 63325 MGC3794 NM_152902 0.00721 Putative MAPK activating protein 3926 EIF3S4 NM_003755 0.00721 "Eukaryotic translation initiation factor 3, subunit 4 delta, 44kDa" 28271 LRRFIP2 NM_017724 0.00723 Leucine rich repeat (in FLII) interacting protein 2 26013 SLK NM_014720 0.00723 STE20-like kinase (yeast) 138182 FLJ39502 NM_173648 0.00723 Hypothetical protein FLJ39502 92559 EDG1 NM_001400 0.00728 "Endothelial differentiation, sphingolipid G-protein- coupled receptor, 1" 122207 C9orf76 NM_024945 0.00729 Chromosome 9 open reading frame 76 154138 BC049825 0.0073 "Transcribed locus, weakly similar to XP_309723.1 Anopheles gambiae str. PEST http://ard.bmj.com/ ENSANGG00000002212 gene" 95073 HLA-DOA NM_002119 0.00731 "Major histocompatibility complex, class II, DO alpha" 40664 MRPL17 NM_022061 0.00731 Mitochondrial ribosomal

protein L17 on October 2, 2021 by guest. Protected copyright. 101126 BCL2 NM_000633 0.00731 B-cell CLL/lymphoma 2 29278 TMEM9 NM_016456 0.00731 Transmembrane protein 9 74441 DKFZp434H2111 XM_058513 0.00731 Hypothetical protein DKFZp434H2111 97074 IFITM1 NM_003641 0.00732 Interferon induced transmembrane protein 1 (9- 27) 29216 TRIM NM_016388 0.00735 T-cell receptor interacting molecule 58200 LOC120224 NM_138788 0.00735 Hypothetical protein BC016153 43671 FLJ21687 NM_024859 0.00735 "PDZ domain containing, X chromosome" 2914 KIAA1240 AB033066 0.00735 KIAA1240 protein 139491 PLEKHF2 NM_024613 0.00735 "Pleckstrin homology domain containing, family F (with

53 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

FYVE domain) member 2" 1290 SALL2 AB002358 0.00735 Sal-like 2 (Drosophila) 78816 TRD@ BC022317 0.00735 T cell receptor delta locus 107066 U90305 0.00735 "Human iroquois-class homeodomain protein IRX-3 mRNA, partial cds." 88954 PRIM2A NM_000947 0.00735 "Primase, polypeptide 2A, 58kDa" 16876 SPTLC1 NM_006415 0.00736 "Serine palmitoyltransferase, long chain base subunit 1" 20220 RACGAP1 NM_013277 0.00742 Rac GTPase activating protein 1 28234 FLJ20160 NM_017694 0.00742 FLJ20160 protein 100889 TPT1 AA716547 0.00749 "Tumor protein, translationally-controlled 1" 158545 MGC16275 BC007982 0.00749 Hypothetical protein MGC16275 21600 QPCT NM_012413 0.00749 Glutaminyl-peptide cyclotransferase (glutaminyl cyclase) 10228 JAK2 NM_004972 0.00756 Janus kinase 2 (a protein tyrosine kinase) 97671 RFX1 NM_002918 0.00756 "Regulatory factor X, 1 (influences HLA class II expression)" 124522 RNF10 NM_014868 0.00757 Ring finger protein 10 155844 GSN AL832614 0.00757 "Gelsolin (amyloidosis, Finnish type)" 4717 DNM1 NM_004408 0.00757 Dynamin 1 45025 LMAN1L NM_024695 0.00757 "synonyms: ERGL, CPLX3, CPXIII, FLJ13993, ERGIC- 53L; complexin III; ERGIC-53- like protein; go_component: http://ard.bmj.com/ integral to membrane [goid 0016021] [evidence IEA]; go_function: sugar binding [goid 0005529] [evidence IEA]; Homo sapiens lectin,

mannose-binding, 1 like on October 2, 2021 by guest. Protected copyright. (LMAN1L), mRNA." 15223 CAP2 NM_006366 0.00758 "CAP, adenylate cyclase- associated protein, 2 (yeast)" 72673 BA108L7.2 AK091504 0.0076 Similar to rat tricarboxylate carrier-like protein 50009 CARD6 NM_032587 0.0076 "Caspase recruitment domain family, member 6" 104757 ECM1 NM_004425 0.0076 Extracellular matrix protein 1 55288 YME1L1 NM_139313 0.0076 YME1-like 1 (S. cerevisiae) 164675 PTPN22 NM_015967 0.0076 "Protein tyrosine phosphatase, non-receptor type 22 (lymphoid)" 157080 AK097068 0.00761 Hypothetical LOC389188 124386 RHOT1 NM_018307 0.00761 "Ras homolog gene family, member T1" 50986 NOSTRIN NM_052946 0.00761 Nitric oxide synthase

54 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

trafficking 172611 ICMT NM_012405 0.00761 Isoprenylcysteine carboxyl methyltransferase 20152 WBP1 NM_012477 0.00761 WW domain binding protein 1 137411 NM_014654 0.00763 153590 AK096226 0.00763 "Homo sapiens cDNA FLJ38907 fis, clone NT2NE2005276." 57291 FLJ25416 NM_145018 0.00763 Hypothetical protein FLJ25416 73482 BAIAP2 AK096606 0.00763 BAI1-associated protein 2 26034 ZFYVE16 NM_014733 0.00763 "Zinc finger, FYVE domain containing 16" 15177 MCRS1 NM_006337 0.00764 Microspherule protein 1 14328 RAB31 NM_006868 0.00766 "RAB31, member RAS oncogene family" 147391 LGICZ NM_180990 0.00772 Ligand-gated ion channel subunit 42432 FLJ21439 NM_025137 0.00775 Hypothetical protein FLJ21439 144953 MRCL3 NM_006471 0.00778 Myosin regulatory light chain MRCL3 2225 GALNT13 XM_054951 0.00778 "synonyms: KIAA1918, GalNAc-T13; GalNAc transferase 13; go_component: Golgi apparatus [goid 0005794] [evidence IEA]; go_component: integral to membrane [goid 0016021] [evidence IEA]; go_function: sugar binding [goid 0005529] [evidence IEA]; go_function: http://ard.bmj.com/ manganese ion binding [goid 0030145] [evidence IEA]; go_function: transferase activity, transferring glycosyl groups [goid 0016757]

[evidence IEA]; Homo on October 2, 2021 by guest. Protected copyright. sapiens UDP-N-acetyl-alpha- D-galactosamine:polypeptide N- acetylgalactosaminyltransfera se 13 (GalNAc-T13) (GALNT13), mRNA." 20943 STAU2 NM_014393 0.00778 "Staufen, RNA binding protein, homolog 2 (Drosophila)" 101368 FGFR4 NM_002011 0.00778 Fibroblast growth factor receptor 4 96167 CCL2 NM_002982 0.00778 Chemokine (C-C motif) ligand 2 112241 SETDB2 NM_031915 0.00778 "SET domain, bifurcated 2" 3662 PTENP1 AF019083 0.00778 "Phosphatase and tensin homolog (mutated in multiple

55 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

advanced cancers 1), pseudogene 1" 24054 IRAK4 NM_016123 0.00778 Interleukin-1 receptor- associated kinase 4 34470 UTS2R NM_018949 0.00778 Urotensin 2 receptor 38133 C7orf25 NM_024054 0.00784 Chromosome 7 open reading frame 25 90173 CD3D NM_000732 0.00784 "CD3D antigen, delta polypeptide (TiT3 complex)" 38917 HAND2 NM_021973 0.00784 Heart and neural crest derivatives expressed 2 45 RPS23 NM_001025 0.00786 Ribosomal protein S23 6246 NM_004351 0.0079 114013 MAP2K5 NM_002757 0.00795 Mitogen-activated protein kinase kinase 5 152372 BC035772 0.00796 "MRNA partial cDNA sequence from cDNA selection, DCR1-8.0" 87637 TNFRSF17 NM_001192 0.00797 "Tumor necrosis factor receptor superfamily, member 17" 60735 ZNRF2 NM_147128 0.00797 Zinc and ring finger 2 104283 HGF NM_000601 0.00797 Hepatocyte growth factor (hepapoietin A; scatter factor) 77061 TSPYL1 AL136629 0.008 TSPY-like 1 30848 SRRM2 NM_016333 0.00803 Serine/arginine repetitive matrix 2 153210 FANCC AF086119 0.00803 "Fanconi anemia, complementation group C" 24566 NICE-4 NM_014847 0.00803 NICE-4 protein 93273 E2F3 NM_001949 0.00803 E2F transcription factor 3 81590 RAPGEF6 BC020539 0.00803 KIAA1961 protein http://ard.bmj.com/ 47288 FLJ14721 NM_032829 0.00803 Hypothetical protein FLJ14721 184023 CDK11 NM_015076 0.00803 Cyclin-dependent kinase (CDC2-like) 11 39995 OGFRL1 NM_024576 0.00803 Opioid growth factor receptor- like 1 55119 TGIF2LX NM_138960 0.00803 "TGFB-induced factor 2-like, on October 2, 2021 by guest. Protected copyright. X-linked" 96755 WASPIP NM_003387 0.00803 Wiskott-Aldrich syndrome protein interacting protein 33169 IFNK NM_020124 0.00805 "Interferon, kappa" 126263 FPGT NM_003838 0.00805 Fucose-1-phosphate guanylyltransferase 7537 GNG10 NM_004125 0.00805 "Guanine nucleotide binding protein (G protein), gamma 10" 58372 STXBP5 NM_139244 0.00805 Syntaxin binding protein 5 (tomosyn) 147919 MAPK14 NM_139013 0.00805 Mitogen-activated protein kinase 14 28843 POLR3E NM_018119 0.00806 Polymerase (RNA) III (DNA directed) polypeptide E (80kD)

56 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

53455 PAK2 AF092132 0.00806 P21 (CDKN1A)-activated kinase 2 101876 PPEF1 NM_006240 0.0081 "Protein phosphatase, EF hand calcium-binding domain 1" 103197 MT1F NM_005949 0.00813 Metallothionein 1F (functional) 87380 RPL6 NM_000970 0.00813 Ribosomal protein L6 20095 SPON2 NM_012445 0.00813 "Spondin 2, extracellular matrix protein" 32048 ZNF358 NM_018083 0.00815 Zinc finger protein 358 22476 ARFIP1 NM_014447 0.00815 ADP-ribosylation factor interacting protein 1 (arfaptin 1) 145975 AF038185 0.00815 Clone 23700 mRNA sequence 141550 MIDN XM_028067 0.00815 Midnolin 44670 MARVELD1 NM_031484 0.00815 MARVEL domain containing 1 152892 AK021556 0.00821 "CDNA FLJ11494 fis, clone HEMBA1001942" 2643 XM_351294 0.00822 32207 RCBTB1 NM_018191 0.00822 Regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 1 165665 GPSN2 NM_138501 0.00822 "Glycoprotein, synaptic 2" 77704 LOC144097 XM_290508 0.00822 "Homo sapiens hypothetical protein BC007540 (LOC144097), mRNA." 21018 SERP1 NM_014445 0.00822 Stress-associated endoplasmic reticulum protein 1 33280 PARP6 NM_020213 0.00822 "Poly (ADP-ribose) http://ard.bmj.com/ polymerase family, member 6" 147229 HSVH37 0.00823 90093 ADORA3 NM_000677 0.00827 Adenosine A3 receptor 10684 GPR20 NM_005293 0.00827 G protein-coupled receptor 20

177591 SIMP NM_178862 0.00827 Source of immunodominant on October 2, 2021 by guest. Protected copyright. MHC-associated peptides 15833 PSMF1 NM_006814 0.00827 "Proteasome (prosome, macropain) inhibitor subunit 1 (PI31)" 26968 GMNN NM_015895 0.00827 "Geminin, DNA replication inhibitor" 12532 RANBP9 NM_005493 0.00831 RAN binding protein 9 98370 ZNF207 NM_003457 0.00832 Zinc finger protein 207 101760 YME1L1 NM_014263 0.00834 YME1-like 1 (S. cerevisiae) 9618 EVI5; NB4S NM_005665 0.00835 "synonym: NB4S; neuroblastoma stage 4S gene; go_function: protein binding [goid 0005515] [evidence TAS] [pmid 9618176]; go_process: development [goid 0007275]

57 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

[evidence TAS] [pmid 9618176]; go_process: cell proliferation [goid 0008283] [evidence TAS] [pmid 9618176]; Homo sapiens ecotropic viral integration site 5 (EVI5), mRNA." 137388 TD-60 NM_018715 0.00836 RCC1-like 30764 KLF2 NM_016270 0.00836 Kruppel-like factor 2 (lung) 99227 RPL15 NM_002948 0.00838 Ribosomal protein L15 174897 B3GNT1 NM_006577 0.00838 "UDP-GlcNAc:betaGal beta- 1,3-N- acetylglucosaminyltransferas e 1" 15954 RIT1 NM_006912 0.00844 Ras-like without CAAX 1 35035 C12orf5 NM_020375 0.00855 Chromosome 12 open reading frame 5 92991 CAPN2 NM_001748 0.00855 "Calpain 2, (m/II) large subunit" 83548 LOC401097 BC031660 0.00855 Similar to LOC166075 129444 TXNDC NM_030755 0.00855 Thioredoxin domain containing 113217 ARX NM_139058 0.00859 Aristaless related homeobox 4119 SIAT9 NM_003896 0.00865 "Sialyltransferase 9 (CMP- NeuAc:lactosylceramide alpha-2,3-sialyltransferase; GM3 synthase)" 44096 EFHD1 NM_025202 0.00865 EF hand domain containing 1 29118 CAB39 NM_016289 0.00865 Calcium binding protein 39 86111 C2 NM_000063 0.00887 Complement component 2 20039 ANP32D NM_012404 0.00887 "Acidic (leucine-rich) nuclear phosphoprotein 32 family, member D" http://ard.bmj.com/ 131954 HDAC8 NM_018486 0.00887 Histone deacetylase 8 37669 TPK1 NM_022445 0.00887 Thiamin pyrophosphokinase 1 17471 CD86 NM_006889 0.00887 "CD86 antigen (CD28 antigen ligand 2, B7-2 antigen)" 86226 FAH NM_000137 0.00887 Fumarylacetoacetate

hydrolase on October 2, 2021 by guest. Protected copyright. (fumarylacetoacetase) 155271 C10orf39 AL832756 0.0089 Chromosome 10 open reading frame 39 4869 IL11RA NM_004512 0.00894 "Interleukin 11 receptor, alpha" 40642 FXYD7 NM_022006 0.00894 FXYD domain containing ion transport regulator 7 112990 DNM3 NM_015569 0.00903 Dynamin 3 55073 LOC130617 NM_138802 0.00906 Hypothetical protein BC018415 25702 COQ7 NM_016138 0.00914 "Coenzyme Q7 homolog, ubiquinone (yeast)" 1565 XM_038970 0.00915 5141 SLC16A6 NM_004694 0.00915 "Solute carrier family 16 (monocarboxylic acid transporters), member 6"

58 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

12326 HMGB3 NM_005342 0.00919 High-mobility group box 3 6 TIM AF247559 0.00923 "Triosephosphate isomerase, chloroplast, putative" 34742 PPP4R2 NM_019853 0.00923 "go_component: centrosome [goid 0005813] [evidence TAS] [pmid 10769191]; go_process: protein modification [goid 0006464] [evidence TAS] [pmid 10769191]; Homo sapiens protein phosphatase 4, regulatory subunit 2 (PPP4R2), mRNA." 103766 TRA@ X02592 0.00924 T cell receptor alpha locus 81523 BC018088 0.00927 "Homo sapiens, clone IMAGE:4798132, mRNA, partial cds" 79844 LOC114977 BC014148 0.0093 Hypothetical protein BC014148 67643 pp12719 AF318328 0.0093 Pp12719 102277 CDK4 NM_000075 0.0093 Cyclin-dependent kinase 4 154825 MGC13098 BC006435 0.0093 Hypothetical protein MGC13098 110025 PTAFR NM_000952 0.0093 Platelet-activating factor receptor 162416 MYO5A AK090859 0.00932 "Myosin VA (heavy polypeptide 12, myoxin)" 149566 LSECtin XM_290871 0.00932 "synonym: UNQ431; DTTR431; Homo sapiens liver and lymph node sinusoidal endothelial cell C- type lectin (LSECtin), mRNA." 87920 MICA NM_000247 0.00933 MHC class I polypeptide- http://ard.bmj.com/ related sequence A 22043 RGC32 NM_014059 0.00933 Response gene to complement 32 133951 TMEM23 NM_147156 0.00933 Transmembrane protein 23 57754 LRRC15 NM_130830 0.00933 Leucine rich repeat containing

15 on October 2, 2021 by guest. Protected copyright. 99551 XCL2 NM_003175 0.00934 Chemokine (C motif) ligand 2 73975 DLG1 AL050097 0.00938 DKFZP586B0319 protein 98083 TIAM1 NM_003253 0.00939 T-cell lymphoma invasion and metastasis 1 116091 RARRES2 NM_002889 0.00941 Retinoic acid receptor responder (tazarotene induced) 2 88770 GART NM_000819 0.00941 "Phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazol e synthetase" 58037 GPRASP2 NM_138437 0.00941 G protein-coupled receptor associated sorting protein 2 101746 TBX1 NM_005992 0.00941 T-box 1

59 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

75769 SCD4 AL831891 0.00942 Stearoyl-CoA desaturase 4 80936 SF4 BC008618 0.00949 Splicing factor 4 115253 TLR8 NM_016610 0.00952 Toll-like receptor 8 38220 MGC5306 NM_024116 0.00953 Hypothetical protein MGC5306 48100 FLJ20542 NM_032179 0.00957 Hypothetical protein FLJ20542 25073 RIS1 NM_015444 0.00957 Ras-induced senescence 1 7366 SH2D2A NM_003975 0.0096 SH2 domain protein 2A 87470 SSTR4 NM_001052 0.00961 Somatostatin receptor 4 367 MIB1 AB037744 0.00968 Mindbomb homolog 1 (Drosophila) 23331 RC3 NM_015263 0.00968 Rabconnectin-3 150548 LOC147646 BC043532 0.0097 Hypothetical protein LOC147646 24524 KAB NM_014812 0.0097 KARP-1-binding protein 60864 FLJ38628 NM_152267 0.00971 Hypothetical protein FLJ38628 12728 MKRN3 NM_005664 0.00974 "Makorin, ring finger protein, 3" 109350 WHSC1L1 NM_017778 0.00976 Wolf-Hirschhorn syndrome candidate 1-like 1 104372 ABR NM_001092 0.00978 Active BCR-related gene 57351 CDC42EP5 NM_145057 0.0098 CDC42 effector protein (Rho GTPase binding) 5 139958 TTC8 NM_144596 0.00981 Tetratricopeptide repeat domain 8 51879 CAB39 AF151824 0.00982 Calcium binding protein 39 154347 ARV1 AF147417 0.00982 Likely ortholog of yeast ARV1 59559 PIWIL4 NM_152431 0.00983 Piwi-like 4 (Drosophila) 19644 C1QR1 NM_012072 0.00984 "Complement component 1, q

subcomponent, receptor 1" http://ard.bmj.com/ 157339 XM_290800 0.00984 140103 MGC20262 NM_152421 0.00984 Hypothetical protein MGC20262 63071 XM_352924 0.00984 1418 EGFL5 AB011542 0.00988 "EGF-like-domain, multiple 5" 78029 RPL7 BC008850 0.00989 Ribosomal protein L7 184925 OR51V1 XM_210181 0.0099 "synonyms: OR11-36, on October 2, 2021 by guest. Protected copyright. OR51A12; olfactory receptor OR11-36; Homo sapiens olfactory receptor, family 51, subfamily V, member 1 (OR51V1), mRNA." 30379 FLJ10260 NM_018042 0.00991 Hypothetical protein FLJ10260 91862 GATA2 NM_002050 0.00991 "synonyms: NFE1B, MGC2306; GATA-binding protein 2; go_component: nucleus [goid 0005634] [evidence IEA]; go_component: nucleus [goid 0005634] [evidence TAS] [pmid 1370462]; go_function: transcription factor activity

60 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

[goid 0003700] [evidence IEA]; go_function: transcription factor activity [goid 0003700] [evidence TAS] [pmid 8078582]; go_process: cell growth and/or maintenance [goid 0008151] [evidence TAS] [pmid 8078582]; go_process: transcription from Pol II promoter [goid 0006366] [evidence TAS] [pmid 1370462]; go_process: regulation of transcription, DNA-dependent [goid 0006355] [evidence IEA]; Homo sapiens GATA binding protein 2 (GATA2), mRNA." 82751 KIAA1394 BC036557 0.00991 KIAA1394 protein 157197 AK097927 0.00991 Hypothetical gene supported by AK022396; AK097927 43110 SLC25A18 NM_031481 0.00995 "Solute carrier family 25 (mitochondrial carrier), member 18" 96227 SFTPD NM_003019 0.00999 "Surfactant, pulmonary- associated protein D" 134522 PRKCA NM_002737 0.01 "Protein kinase C, alpha" 99457 SPIB NM_003121 0.01 Spi-B transcription factor (Spi- 1/PU.1 related) 156526 AK056724 0.01 "CDNA FLJ32162 fis, clone PLACE6000325" 36148 MTRF1L NM_019041 0.01 Mitochondrial translational

release factor 1-like http://ard.bmj.com/ 104492 ADAM12 NM_003474 0.01 A disintegrin and metalloproteinase domain 12 (meltrin alpha) 10991 CFL1 NM_005507 0.01 Cofilin 1 (non-muscle) 158001 LOC126661 BC047421 0.01 Hypothetical protein

LOC126661 on October 2, 2021 by guest. Protected copyright. 6324 DUSP1 NM_004417 0.0101 Dual specificity phosphatase 1 2705 KIAA0674 AB014574 0.0101 KIAA0674 78490 KLHL18 BC015962 0.0101 Kelch-like 18 (Drosophila) 91590 COL9A3 NM_001853 0.0101 "Collagen, type IX, alpha 3" 57214 FLJ23790 NM_144963 0.0101 Hypothetical protein FLJ23790 23320 AGTPBP1 NM_015239 0.0101 ATP/GTP binding protein 1 10540 CDKN3 NM_005192 0.0101 Cyclin-dependent kinase inhibitor 3 (CDK2-associated dual specificity phosphatase) 61046 MGC17791 NM_152362 0.0101 Hypothetical protein MGC17791 138707 DAPP1 NM_014395 0.0102 Dual adaptor of phosphotyrosine and 3- phosphoinositides

61 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

153088 FARP1 AK025341 0.0102 "FERM, RhoGEF (ARHGEF) and pleckstrin domain protein 1 (chondrocyte-derived)" 33606 RAB22A NM_020673 0.0102 "RAB22A, member RAS oncogene family" 172647 SPTLC1 NM_178324 0.0102 "Serine palmitoyltransferase, long chain base subunit 1" 107331 PCAF N74637 0.0102 P300/CBP-associated factor 62723 RAD9B NM_152442 0.0102 RAD9 homolog B (S. cerevisiae) 35697 NM_018421 0.0102 34915 NM_020221 0.0102 2440 USP12 AF022789 0.0102 Ubiquitin specific protease 12 83840 LOC285533 NM_173662 0.0102 Hypothetical protein LOC285533 23388 R3HDM NM_015361 0.0103 R3H domain (binds single- stranded nucleic acids) containing 90215 CYP1A2 NM_000761 0.0103 "Cytochrome P450, family 1, subfamily A, polypeptide 2" 16881 OLFM4 NM_006418 0.0103 Olfactomedin 4 1763 MYH7B AB040945 0.0103 "Myosin, heavy polypeptide 7B, cardiac muscle, beta" 115350 HTATSF1 NM_014500 0.0103 HIV TAT specific factor 1 36942 RPL36A NM_021029 0.0103 Ribosomal protein L36a 78610 MGC24133 NM_174896 0.0103 Hypothetical protein MGC24133 185303 SELV NM_182704 0.0103 Selenoprotein V 39072 GOLPH3 NM_022130 0.0103 Golgi phosphoprotein 3 (coat- protein) 97734 SATB1 NM_002971 0.0103 Special AT-rich sequence binding protein 1 (binds to http://ard.bmj.com/ nuclear matrix/scaffold- associating DNA's) 43801 SLC24A6 NM_024959 0.0103 "Solute carrier family 24 (sodium/potassium/calcium exchanger), member 6" 147429 TPM4 AF186109 0.0103 Tropomyosin 4 93750 LRP5 NM_002335 0.0103 Low density lipoprotein on October 2, 2021 by guest. Protected copyright. receptor-related protein 5 6988 D21S2056E NM_003683 0.0103 DNA segment on chromosome 21 (unique) 2056 expressed sequence 32266 TMEM34 NM_018241 0.0103 Transmembrane protein 34 91754 EIF5A NM_001970 0.0103 Eukaryotic translation initiation factor 5A 62995 FLJ35728 NM_152610 0.0103 Hypothetical protein FLJ35728 110084 LIM NM_006457 0.0103 LIM protein (similar to rat protein kinase C-binding enigma) 5867 CLCNKA NM_004070 0.0104 Chloride channel Ka 159268 RANBP2L1 BC047558 0.0104 RAN binding protein 2-like 1 57042 FLJ30294 NM_144632 0.0104 Hypothetical protein FLJ30294

62 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

163108 TANK NM_004180 0.0104 TRAF family member- associated NFKB activator 32615 NM_018507 0.0104 89260 BTEB1 NM_001206 0.0104 Basic transcription element binding protein 1 172291 NM_015129 0.0104 Septin 6 43750 FLJ12985 NM_024924 0.0104 Hypothetical protein FLJ12985 153432 AJ227900 0.0105 Homo sapiens partial mRNA; ID EE2-16B. 90020 TAP1 NM_000593 0.0105 "Transporter 1, ATP-binding cassette, sub-family B (MDR/TAP)" 151479 SENP5 BC036626 0.0105 SUMO1/sentrin specific protease 5 131588 KAAG1 NM_181337 0.0105 Kidney associated antigen 1 98653 NPPB NM_002521 0.0105 Natriuretic peptide precursor B 38829 FLJ21839 NM_021831 0.0105 Hypothetical protein FLJ21839 89023 RPS4Y1 NM_001008 0.0105 "Ribosomal protein S4, Y- linked 1" 117357 CFLAR NM_003879 0.0105 CASP8 and FADD-like apoptosis regulator 109106 MTMR3 NM_021090 0.0105 Myotubularin related protein 3 79008 CDK6 BC027989 0.0105 Cyclin-dependent kinase 6 25527 CGI-63 NM_016011 0.0105 Nuclear receptor binding factor 1 9134 GPR18 NM_005292 0.0106 G protein-coupled receptor 18 164339 XPNPEP1 NM_020383 0.0106 "X-prolyl aminopeptidase (aminopeptidase P) 1, soluble" http://ard.bmj.com/ 19437 C20orf10 NM_014477 0.0106 Chromosome 20 open reading frame 10 146614 IREM2 NM_181449 0.0107 Immune receptor expressed on myeloid cells 2 136213 OGFR NM_007346 0.0107 Opioid growth factor receptor 130514 FCGR2A NM_021642 0.0107 "Fc fragment of IgG, low affinity IIa, receptor for on October 2, 2021 by guest. Protected copyright. (CD32)" 25652 GOLGA7 NM_016099 0.0107 "Golgi autoantigen, golgin subfamily a, 7" 43684 PKD1-like NM_024874 0.0107 Polycystic kidney disease 1- like 36229 LOC56181 NM_019557 0.0107 Hypothetical protein RP1- 317E23 158438 XM_173084 0.0107 86125 CD3G NM_000073 0.0107 "CD3G antigen, gamma polypeptide (TiT3 complex)" 37694 AZI2 NM_022461 0.0108 5-azacytidine induced 2 178757 MAN1B1 NM_007230 0.0108 "Mannosidase, alpha, class 1B, member 1" 25729 HEMK1 NM_016173 0.0108 HemK methyltransferase family member 1

63 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

10427 GOLGA5 NM_005113 0.0108 "Golgi autoantigen, golgin subfamily a, 5" 160477 AK098102 0.0108 Similar to CD200 cell surface glycoprotein receptor isoform 2 variant 2 85234 BXDC1 BC035314 0.0108 Brix domain containing 1 4934 NFATC3 NM_004555 0.0109 "Nuclear factor of activated T- cells, cytoplasmic, calcineurin-dependent 3" 159574 OR10R2 AK057554 0.011 "Olfactory receptor, family 10, subfamily R, member 2" 8410 COPB2 NM_004766 0.011 "Coatomer protein complex, subunit beta 2 (beta prime)" 167548 GGTL4 NM_080839 0.011 Gamma-glutamyltransferase- like 4 122434 HBS1L NM_006620 0.011 HBS1-like (S. cerevisiae) 12629 LMO2 NM_005574 0.011 LIM domain only 2 (rhombotin-like 1) 89406 FUT3 NM_000149 0.011 "Fucosyltransferase 3 (galactoside 3(4)-L- fucosyltransferase, Lewis blood group included)" 55206 DPP9 NM_139159 0.011 Dipeptidylpeptidase 9 96048 RALB NM_002881 0.011 V-ral simian leukemia viral oncogene homolog B (ras related; GTP binding protein) 96046 RAD23B NM_002874 0.011 RAD23 homolog B (S. cerevisiae) 52116 CBFB/MYH11D AF249897 0.011 "core binding factor beta/myosin heavy chain fusion protein type D; CBFbeta-MYH11 chimeric fusion transcript type D; http://ard.bmj.com/ Homo sapiens PCBFb- MYH11d chimeric fusion protein (CBFB/MYH11D) mRNA, partial cds." 159420 BX538220 0.011 LOC440448

38796 SIGIRR NM_021805 0.011 Single Ig IL-1R-related on October 2, 2021 by guest. Protected copyright. molecule 11918 PITX3 NM_005029 0.0111 Paired-like homeodomain transcription factor 3 1810 ZSWIM6 AB046797 0.0111 "Zinc finger, SWIM domain containing 6" 90055 NCF4 NM_000631 0.0111 "Neutrophil cytosolic factor 4, 40kDa" 18210 NT5C2 NM_012229 0.0111 "5'-nucleotidase, cytosolic II" 23527 SEC31L2 NM_015490 0.0111 SEC31-like 2 (S. cerevisiae) 162507 AK024681 0.0111 Full length insert cDNA clone ZE08A03 3166 TTYH3 AB051478 0.0111 Tweety homolog 3 (Drosophila) 4774 EPHB1 NM_004441 0.0111 EphB1 87378 RPL5 NM_000969 0.0111 Ribosomal protein L5 95126 ID3 NM_002167 0.0111 "Inhibitor of DNA binding 3,

64 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

dominant negative helix-loop- helix protein" 19795 FKBP8 NM_012181 0.0112 "FK506 binding protein 8, 38kDa" 128522 HIP1 NM_005338 0.0112 Huntingtin interacting protein 1 94295 CYR61 NM_001554 0.0112 "Cysteine-rich, angiogenic inducer, 61" 7832 CAD NM_004341 0.0112 "Carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase" 99247 SORT1 NM_002959 0.0112 Sortilin 1 108119 TRIM14 NM_014788 0.0112 Tripartite motif-containing 14 162909 LMTK3 XM_055866 0.0112 Lemur tyrosine kinase 3 44763 TTTY11 NR_001548 0.0112 "synonym: TTY11; Homo sapiens testis-specific transcript, Y-linked 11 (TTTY11) on chromosome Y." 20802 P101-PI3K NM_014308 0.0112 "Phosphoinositide-3-kinase, regulatory subunit, polypeptide p101" 115605 AQP9 NM_020980 0.0112 Aquaporin 9 147607 ZNF85 NM_003429 0.0113 "Zinc finger protein 85 (HPF4, HTF1)" 39504 VPS33A NM_022916 0.0113 Vacuolar protein sorting 33A (yeast) 162317 AL080216 0.0113 MRNA; cDNA DKFZp586K1123 (from clone DKFZp586K1123) 129064 FGD4 NM_139241 0.0113 "FYVE, RhoGEF and PH domain containing 4" 16196 SLMAP NM_007159 0.0113 Sarcolemma associated http://ard.bmj.com/ protein 186094 ARL9 XM_059617 0.0113 "Homo sapiens ADP- ribosylation factor-like 9 (ARL9), mRNA." 19683 RERE NM_012102 0.0113 Arginine-glutamic acid

dipeptide (RE) repeats on October 2, 2021 by guest. Protected copyright. 57689 DCBLD2 NM_080927 0.0113 "Discoidin, CUB and LCCL domain containing 2" 54598 LGR8 NM_130806 0.0114 Leucine-rich repeat- containing G protein-coupled receptor 8 40726 C20orf67 NM_022104 0.0114 Chromosome 20 open reading frame 67 148524 AF054994 0.0114 Clone 23832 mRNA sequence 23068 KIAA0831 NM_014924 0.0114 KIAA0831 83908 2'-PDE NM_177966 0.0114 2'-phosphodiesterase 76739 LOC348180 AK097851 0.0114 Hypothetical protein LOC348180 14176 INMT NM_006774 0.0114 Indolethylamine N- methyltransferase 140679 SERPINB2 NM_002575 0.0114 "Serine (or cysteine)

65 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

proteinase inhibitor, clade B (ovalbumin), member 2" 27952 PDE11A NM_016953 0.0114 Phosphodiesterase 11A 94779 GADD45A NM_001924 0.0114 "Growth arrest and DNA- damage-inducible, alpha" 94563 CD8A NM_001768 0.0114 "CD8 antigen, alpha polypeptide (p32)" 44049 CXorf21 NM_025159 0.0114 Chromosome X open reading frame 21 35137 NFKBIA NM_020529 0.0115 "Nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor, alpha" 175064 CUTL1 NM_181552 0.0115 "Cut-like 1, CCAAT displacement protein (Drosophila)" 10357 SIAH2 NM_005067 0.0115 Seven in absentia homolog 2 (Drosophila) 109585 CDW92 NM_080546 0.0115 CDW92 antigen 27130 NDUFAF1 NM_016013 0.0115 "NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 1" 167315 APOL3 NM_014349 0.0116 "Apolipoprotein L, 3" 35502 PGM2 NM_018290 0.0116 Phosphoglucomutase 2 172538 ALDH4A1 NM_170726 0.0116 "Aldehyde dehydrogenase 4 family, member A1" 57842 ASAH3 NM_133492 0.0116 N-acylsphingosine amidohydrolase (alkaline ceramidase) 3 164410 NIN NM_016350 0.0116 Ninein (GSK3B interacting protein) 22718 LPIN2 NM_014646 0.0116 Lipin 2 13641 SYNCRIP NM_006372 0.0116 "Synaptotagmin binding, http://ard.bmj.com/ cytoplasmic RNA interacting protein" 9087 FOXL1 NM_005250 0.0116 Forkhead box L1 34857 LXN NM_020169 0.0116 Latexin 120059 SOX15 NM_006942 0.0117 SRY (sex determining region

Y)-box 15 on October 2, 2021 by guest. Protected copyright. 36767 TDE2 NM_020755 0.0117 Tumor differentially expressed 2 98204 TNFSF4 NM_003326 0.0117 "Tumor necrosis factor (ligand) superfamily, member 4 (tax-transcriptionally activated glycoprotein 1, 34kDa)" 71941 FLJ22374 XM_353570 0.0117 "Homo sapiens hypothetical protein FLJ22374 (FLJ22374), mRNA." 80001 EPHA4 BC016981 0.0117 EphA4 27481 KLF12 NM_016285 0.0117 Kruppel-like factor 12 1093 NRG1 NM_013958 0.0117 Neuregulin 1 94953 GABRR2 NM_002043 0.0117 "Gamma-aminobutyric acid (GABA) receptor, rho 2" 2249 ZNF418 AB075836 0.0117 Zinc finger protein 418

66 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

130119 MAPK4 NM_002747 0.0118 Mitogen-activated protein kinase 4 88539 RPL9 NM_000661 0.0118 Ribosomal protein L9 58378 STAT1 NM_139266 0.0118 "Signal transducer and activator of transcription 1, 91kDa" 34546 FLJ20273 NM_019027 0.0118 RNA-binding protein 157876 LOC400986 AL832977 0.0118 Protein immuno-reactive with anti-PTH polyclonal antibodies 47566 UCN2 NM_033199 0.0119 Urocortin 2 30171 C13orf11 NM_017905 0.0119 Chromosome 13 open reading frame 11 35930 C5orf3 NM_018691 0.0119 Chromosome 5 open reading frame 3 98381 ZYX NM_003461 0.0119 Zyxin 31600 MTB NM_017760 0.0119 More than blood homolog 131162 BOC NM_033254 0.0119 Brother of CDO 94179 G22P1 NM_001469 0.0119 Thyroid autoantigen 70kDa (Ku antigen) 87929 MLH1 NM_000249 0.0119 "MutL homolog 1, colon cancer, nonpolyposis type 2 (E. coli)" 18494 UCK2 NM_012474 0.012 Uridine-cytidine kinase 2 68786 RAMP AK027651 0.012 RA-regulated nuclear matrix- associated protein 28555 KIAA2010 NM_017936 0.012 KIAA2010 15767 MYST3 NM_006766 0.012 MYST histone acetyltransferase (monocytic leukemia) 3 28355 DERPC NM_017804 0.012 Decreased expression in renal and prostate http://ard.bmj.com/ 20708 SLC5A4 NM_014227 0.012 "Solute carrier family 5 (low affinity glucose cotransporter), member 4" 34479 DSCR6 NM_018962 0.012 Down syndrome critical region gene 6 61239 FLJ32825 NM_152492 0.012 Hypothetical protein FLJ32825 on October 2, 2021 by guest. Protected copyright. 107243 HOXD4 AA447692 0.0121 Homeo box D4 11398 DHRS9 NM_005771 0.0121 Dehydrogenase/reductase (SDR family) member 9 26018 NM_014721 0.0121 100871 R43605 0.0121 "yg20b05.s1 Soares infant brain 1NIB Homo sapiens cDNA clone IMAGE:32697 3', mRNA sequence." 158749 LOC284600 AK056486 0.0121 Hypothetical protein LOC284600 33147 SLC2A9 NM_020041 0.0121 "Solute carrier family 2 (facilitated glucose transporter), member 9" 117620 LEPR NM_002303 0.0121 Leptin receptor 23888 HMP19 NM_015980 0.0121 HMP19 protein 15019 PIK3CB NM_006219 0.0121 "Phosphoinositide-3-kinase,

67 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

catalytic, beta polypeptide" 4471 JARID1C NM_004187 0.0121 "Jumonji, AT rich interactive domain 1C (RBP2-like)" 139476 C9orf72 NM_145005 0.0121 Chromosome 9 open reading frame 72 165482 JAG2 NM_002226 0.0122 Jagged 2 19500 UBP1 NM_014517 0.0122 Upstream binding protein 1 (LBP-1a) 87399 RPL30 NM_000989 0.0122 Ribosomal protein L30 157954 XM_299177 0.0122 173900 RANBP2L1 NM_005054 0.0122 RAN binding protein 2-like 1 184221 XM_352022 0.0122 30158 DDX27 NM_017895 0.0122 DEAD (Asp-Glu-Ala-Asp) box polypeptide 27 142275 AB019566 0.0122 Similar to hypothetical protein 14655 TMF1 NM_007114 0.0122 TATA element modulatory factor 1 20993 NDOR1 NM_014434 0.0122 NADPH dependent diflavin oxidoreductase 1 154999 AF279780 0.0122 "NTera2D1 cell line mRNA containing L1 retroposon, clone P7." 15863 RAB32 NM_006834 0.0122 "RAB32, member RAS oncogene family" 103974 GUCA1B AA446316 0.0122 Guanylate cyclase activator 1B (retina) 27597 HSPC121 NM_016395 0.0122 Butyrate-induced transcript 1 1432 C11orf11 NM_006133 0.0122 Chromosome 11 open reading frame 11 153156 C10orf107 NM_173554 0.0123 Chromosome 10 open reading frame 107 80126 TNIK XM_039796 0.0123 TRAF2 and NCK interacting http://ard.bmj.com/ kinase 112417 PLXND1 NM_015103 0.0123 Plexin D1 41574 AFURS1 NM_024524 0.0123 ATPase family homolog upregulated in senescence cells 112974 IRF2BP2 BC020516 0.0123 Interferon regulatory factor 2 binding protein 2 95957 PSMD11 NM_002815 0.0123 "Proteasome (prosome, on October 2, 2021 by guest. Protected copyright. macropain) 26S subunit, non- ATPase, 11" 181050 XM_351011 0.0123 124628 SEMA7A NM_003612 0.0123 "Sema domain, immunoglobulin domain (Ig), and GPI membrane anchor, (semaphorin) 7A" 15115 TNFAIP3 NM_006290 0.0123 "Tumor necrosis factor, alpha- induced protein 3" 158410 PB1 AL049232 0.0123 Polybromo 1 128054 INSRR NM_014215 0.0123 Insulin receptor-related receptor 8999 ATP5G2 NM_005176 0.0123 "ATP synthase, H+ transporting, mitochondrial F0 complex, subunit c (subunit 9), isoform 2"

68 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

176447 BZRP NM_000714 0.0123 Benzodiazapine receptor (peripheral) 97955 SRPK1 NM_003137 0.0123 SFRS protein kinase 1 17062 DCTN6 NM_006571 0.0123 Dynactin 6 96248 SIAT1 NM_003032 0.0123 "Sialyltransferase 1 (beta- galactoside alpha-2,6- sialyltransferase)" 147119 HSM803120 0.0123 153634 AF085894 0.0124 "Transcribed locus, weakly similar to XP_375099.1 hypothetical protein LOC283585 [Homo sapiens]" 35911 ACAS2 NM_018677 0.0124 Acetyl-Coenzyme A synthetase 2 (ADP forming) 36204 NUDT4 NM_019094 0.0124 Nudix (nucleoside diphosphate linked moiety X)- type motif 4 22629 SLC2A8 NM_014580 0.0124 "Solute carrier family 2, (facilitated glucose transporter) member 8" 29537 VAMP1 NM_016830 0.0124 Vesicle-associated membrane protein 1 (synaptobrevin 1) 90024 IGFBP2 NM_000597 0.0125 "Insulin-like growth factor binding protein 2, 36kDa" 56269 CTGLF1 NM_133446 0.0125 "Centaurin, gamma-like family, member 1" 52685 MLL4 AF105279 0.0125 Myeloid/lymphoid or mixed- lineage leukemia 4 64603 MGC35274 NM_153374 0.0125 Hypothetical protein MGC35274 50340 C6orf93 NM_032860 0.0125 Chromosome 6 open reading frame 93 http://ard.bmj.com/ 29725 ALDRL6 NM_017584 0.0126 Aldehyde reductase (aldose reductase) like 6 11381 PLXNC1 NM_005761 0.0126 Plexin C1 117248 DAZL NM_001351 0.0126 Deleted in azoospermia-like 157922 AK094156 0.0127 Similar to KIAA0454 protein

56968 MGC31963 NM_144580 0.0127 Kidney predominant protein on October 2, 2021 by guest. Protected copyright. NCU-G1 5523 EIF3S2 NM_003757 0.0127 "Eukaryotic translation initiation factor 3, subunit 2 beta, 36kDa" 150151 BC038571 0.0127 "Transcribed locus, weakly similar to XP_375099.1 hypothetical protein LOC283585 [Homo sapiens]" 78261 MGC21416 NM_173834 0.0127 Hypothetical protein MGC21416 134219 SLC29A4 NM_153247 0.0127 "Solute carrier family 29 (nucleoside transporters), member 4" 124197 C14orf108 NM_018229 0.0127 Chromosome 14 open reading frame 108 39395 TBC1D15 NM_022771 0.0127 "TBC1 domain family,

69 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

member 15" 74267 LOC162967 AL831902 0.0128 Hypothetical protein LOC162967 30274 FLJ20850 NM_017967 0.0128 Hypothetical protein FLJ20850 52066 OPLAH AF217994 0.0128 5-oxoprolinase (ATP- hydrolysing) 87376 RPL5 NM_000969 0.0128 Ribosomal protein L5 7928 DTX1 NM_004416 0.0128 Deltex homolog 1 (Drosophila) 136084 DEDD NM_004216 0.0128 Death effector domain containing 4246 SLC7A7 NM_003982 0.0129 "Solute carrier family 7 (cationic amino acid transporter, y+ system), member 7" 60859 C15orf19 NM_152260 0.0129 Chromosome 15 open reading frame 19 104108 LOC153561 AA669750 0.0129 Hypothetical protein LOC153561 40039 C16orf30 NM_024600 0.0129 Chromosome 16 open reading frame 30 75864 KLHL15 AL834313 0.013 Kelch-like 15 (Drosophila) 94541 CBFB NM_001755 0.013 "Core-binding factor, beta subunit" 34819 DPYSL5 NM_020134 0.013 Dihydropyrimidinase-like 5 185743 XM_169227 0.0131 81315 AKR1C1 BC014579 0.0131 "Aldo-keto reductase family 1, member C1 (dihydrodiol dehydrogenase 1; 20-alpha (3-alpha)-hydroxysteroid dehydrogenase)" 181619 XM_352977 0.0131 http://ard.bmj.com/ 78902 C19orf33 BC025257 0.0131 Chromosome 19 open reading frame 33 152853 MFN1 AF085833 0.0131 Mitofusin 1 44132 T3JAM NM_025228 0.0132 TRAF3-interacting Jun N- terminal kinase (JNK)-

activating modulator on October 2, 2021 by guest. Protected copyright. 46926 ARHGAP9 NM_032496 0.0132 Rho GTPase activating protein 9 162034 BC036645 0.0132 LOC439993 112430 GAPD NM_002046 0.0132 Glyceraldehyde-3-phosphate dehydrogenase 97999 T NM_003181 0.0133 "T, brachyury homolog (mouse)" 70318 LOC96610 AK026408 0.0133 Hypothetical protein similar to KIAA0187 gene product 89423 GCH1 NM_000161 0.0134 GTP cyclohydrolase 1 (dopa- responsive dystonia) 166824 POLR2J2 NM_032958 0.0134 DNA directed RNA polymerase II polypeptide J- related gene 70788 LOC374946 XM_351230 0.0134 "synonym: UNQ3119; AGPA3119; Similar to RIKEN

70 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

cDNA 2610109H07 gene; Homo sapiens hypothetical gene supported by AK075558; BC021286 (LOC374946), mRNA." 4381 FEN1 NM_004111 0.0134 Flap structure-specific endonuclease 1 14419 SLC2A3 NM_006931 0.0135 "Solute carrier family 2 (facilitated glucose transporter), member 3" 28055 HAO1 NM_017545 0.0135 Hydroxyacid oxidase (glycolate oxidase) 1 37086 SQRDL NM_021199 0.0135 Sulfide quinone reductase- like (yeast) 22999 NM_014867 0.0135 6661 MLLT10 NM_004641 0.0135 "Myeloid/lymphoid or mixed- lineage leukemia (trithorax homolog, Drosophila); translocated to, 10" 139899 PLEKHK1 NM_145307 0.0135 "Pleckstrin homology domain containing, family K member 1" 74044 DKFZp434D0215 XM_098238 0.0135 SH3 domain protein D19 11898 PCYT1A NM_005017 0.0135 "Phosphate cytidylyltransferase 1, choline, alpha isoform" 86921 CCR2 NM_000648 0.0136 Chemokine (C-C motif) receptor 2 4651 CALR NM_004343 0.0136 Calreticulin 152822 FLJ16103 BC039363 0.0136 FLJ16103 protein 59954 KHDRBS2 NM_152688 0.0136 "KH domain containing, RNA binding, signal transduction associated 2" http://ard.bmj.com/ 92340 MMP15 NM_002428 0.0136 Matrix metalloproteinase 15 (membrane-inserted) 147192 HSU67093 0.0136 27302 PGCP NM_016134 0.0136 Plasma glutamate carboxypeptidase

31753 FLJ20519 NM_017860 0.0136 Hypothetical protein on October 2, 2021 by guest. Protected copyright. FLJ20519 109464 FGF8 NM_006119 0.0136 Fibroblast growth factor 8 (androgen-induced) 97366 PPM1G NM_002707 0.0137 "Protein phosphatase 1G (formerly 2C), magnesium- dependent, gamma isoform" 99782 VGF NM_003378 0.0137 VGF nerve growth factor inducible 105748 ANTXR1 NM_032208 0.0137 Anthrax toxin receptor 1 21861 GGA1 NM_013365 0.0137 "Golgi associated, gamma adaptin ear containing, ARF binding protein 1" 26190 KIAA0274 NM_014845 0.0137 KIAA0274 37541 MAWBP NM_022129 0.0137 MAWD binding protein 155034 XM_351474 0.0137 33943 C15orf12 NM_018285 0.0137 Chromosome 15 open

71 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

reading frame 12 136083 NIT1 NM_005600 0.0137 Nitrilase 1 9892 TRIP NM_005879 0.0137 TRAF interacting protein 109607 ZNF75 NM_007131 0.0138 Zinc finger protein 75 (D8C6) 25707 NSFL1C NM_016143 0.0138 NSFL1 (p97) cofactor (p47) 24440 DLG7 NM_014750 0.0138 "Discs, large homolog 7 (Drosophila)" 79550 PHYHD1 NM_174933 0.0138 Phytanoyl-CoA dioxygenase domain containing 1 34376 BIN3 NM_018688 0.0138 Bridging integrator 3 49346 MGC20481 NM_052849 0.0138 Hypothetical protein MGC20481 121193 ZSWIM4 XM_031342 0.0139 "Zinc finger, SWIM domain containing 4" 25064 DKFZP434B168 NM_015434 0.0139 DKFZP434B168 protein 95124 TNC NM_002160 0.0139 Tenascin C (hexabrachion) 50413 MGC16279 NM_032916 0.0139 Hypothetical protein MGC16279 171853 RIOK3 NM_003831 0.0139 RIO kinase 3 (yeast) 79071 KIAA1509 XM_029353 0.0139 KIAA1509 146848 AF511647 0.0139 Chromosome 21 mRNA sequence 90523 RPL24 NM_000986 0.0139 Ribosomal protein L24 46203 RASSF5 NM_031437 0.0139 Ras association (RalGDS/AF- 6) domain family 5 157226 AK092048 0.0139 MRNA; cDNA DKFZp313C0240 (from clone DKFZp313C0240) 28879 FLJ10597 NM_018150 0.0139 Hypothetical protein FLJ10597 51410 ARHGEF12 AF090906 0.014 Rho guanine nucleotide

exchange factor (GEF) 12 http://ard.bmj.com/ 123097 APTX NM_017692 0.014 Aprataxin 33398 PARP11 NM_020367 0.014 "Poly (ADP-ribose) polymerase family, member 11" 103681 XM_034511 0.014 97548 PTPN12 NM_002835 0.014 "Protein tyrosine phosphatase, non-receptor on October 2, 2021 by guest. Protected copyright. type 12" 6344 ELAVL2 NM_004432 0.014 "ELAV (embryonic lethal, abnormal vision, Drosophila)- like 2 (Hu antigen B)" 41041 DGCR8 NM_022720 0.0141 DiGeorge syndrome critical region gene 8 26227 NM_014873 0.0141 55370 LRRC28 NM_144598 0.0141 Leucine rich repeat containing 28 86741 HEXB NM_000521 0.0141 Hexosaminidase B (beta polypeptide) 70772 DKFZP434K046 AK075438 0.0141 Hypothetical protein DKFZp434K046 46485 FKSG17 NM_032031 0.0142 FKSG17 91021 DOK1 NM_001381 0.0142 "Docking protein 1, 62kDa

72 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

(downstream of tyrosine kinase 1)" 180669 XM_087153 0.0142 66489 HCP5 AJ437509 0.0142 HLA complex P5 26146 LRIG2 NM_014813 0.0142 Leucine-rich repeats and immunoglobulin-like domains 2 167994 MRE11A NM_005590 0.0142 MRE11 meiotic recombination 11 homolog A (S. cerevisiae) 112516 BC008216 0.0142 25500 ATP6V1D NM_015994 0.0143 "ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D" 23368 NCSTN NM_015331 0.0143 Nicastrin 60119 C20orf58 NM_152864 0.0143 Chromosome 20 open reading frame 58 40375 SENP2 NM_021627 0.0143 SUMO1/sentrin/SMT3 specific protease 2 84585 ZNF90; HPF9 M61870 0.0143 Similar to 40S ribosomal protein S16 95342 LYN NM_002350 0.0143 V-yes-1 Yamaguchi sarcoma viral related oncogene homolog 22745 ENTH NM_014666 0.0143 Enthoprotin 99012 PSMA6 NM_002791 0.0143 "Proteasome (prosome, macropain) subunit, alpha type, 6" 59532 DKFZp762I137 NM_152411 0.0144 Hypothetical protein DKFZp762I137 73431 C6orf85 AK096219 0.0144 Chromosome 6 open reading frame 85 23094 KIAA1012 NM_014939 0.0144 KIAA1012 60936 UHRF2 NM_152306 0.0144 Chromosome 9 open reading http://ard.bmj.com/ frame 38 19085 HOXC11 NM_014212 0.0145 Homeo box C11 67874 AF456465 0.0145 Hypothetical protein 18315 EPB41L3 NM_012307 0.0145 Erythrocyte membrane protein band 4.1-like 3 17511 SC5DL NM_006918 0.0145 "Sterol-C5-desaturase (ERG3 on October 2, 2021 by guest. Protected copyright. delta-5-desaturase homolog, fungal)-like" 96202 SEC14L1 NM_003003 0.0145 SEC14-like 1 (S. cerevisiae) 145221 WFDC2 NM_006103 0.0145 WAP four-disulfide core domain 2 90558 RPS15 NM_001018 0.0145 Ribosomal protein S15 18392 P8 NM_012385 0.0145 P8 protein (candidate of metastasis 1) 10111 VPS26 NM_004896 0.0145 Vacuolar protein sorting 26 (yeast) 56273 TANK NM_133484 0.0146 TRAF family member- associated NFKB activator 13738 PAICS NM_006452 0.0146 "Phosphoribosylaminoimidazo le carboxylase, phosphoribosylaminoimidazol e succinocarboxamide

73 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

synthetase" 2905 RAI17 NM_020338 0.0146 Retinoic acid induced 17 15404 T1A-2 NM_006474 0.0147 Lung type-I cell membrane- associated glycoprotein 78006 LOC196264 BC008810 0.0147 Hypothetical protein LOC196264 181447 LOC129293 XM_059341 0.0147 Hypothetical protein LOC129293 40171 SUV39H2 NM_024670 0.0147 Suppressor of variegation 3-9 homolog 2 (Drosophila) 159243 ZCSL2 AK023203 0.0148 "Zinc finger, CSL domain containing 2" 150072 AF086547 0.0148 Full length insert cDNA clone ZE12B03 116510 DKFZP564C103 NM_015654 0.0148 DKFZP564C103 protein 30863 DDX47 NM_016355 0.0148 DEAD (Asp-Glu-Ala-Asp) box polypeptide 47 108464 PCDHGC3 NM_032053 0.0148 "Protocadherin gamma subfamily C, 3" 152622 AK098724 0.0148 "CDNA FLJ25858 fis, clone TST09644" 44783 TTLL2 NM_031949 0.0149 "Tubulin tyrosine ligase-like family, member 2" 38138 NUP37 NM_024057 0.0149 Nucleoporin 37kDa 85173 LOC284648 BC034591 0.0149 Hypothetical protein LOC284648 107260 AA459657 0.0149 Clone 23570 mRNA sequence 81476 LOC92912 NM_173469 0.0149 Hypothetical protein LOC92912 59517 FLJ34658 NM_152404 0.0149 Hypothetical protein FLJ34658 http://ard.bmj.com/ 78397 BC014322 0.0149 "MRNA, endogenous retrovirus" 103686 SFRP2 AF017986 0.0149 Secreted frizzled-related protein 2 104401 AP1S1 NM_001283 0.0149 "Adaptor-related protein complex 1, sigma 1 subunit" 25800 PADI3 NM_016233 0.0149 "Peptidyl arginine deiminase, on October 2, 2021 by guest. Protected copyright. type III" 9392 CHAF1A NM_005483 0.0149 "Chromatin assembly factor 1, subunit A (p150)" 146208 AY216265 0.0149 "Homo sapiens ETS2 intronic transcript 1 mRNA, complete sequence." 18805 OR11A1 NM_013937 0.015 "Olfactory receptor, family 11, subfamily A, member 1" 149987 RABGAP1L AK054962 0.015 RAB GTPase activating protein 1-like 102967 SON NM_003103 0.015 SON DNA binding protein 126771 ZNF639 NM_016331 0.0151 Zinc finger protein 639 14147 TALDO1 NM_006755 0.0151 Transaldolase 1 32985 ZDHHC13 NM_019028 0.0151 "Zinc finger, DHHC domain containing 13"

74 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

86945 ADH5 NM_000671 0.0151 "Alcohol dehydrogenase 5 (class III), chi polypeptide" 128125 ACSL5 NM_016234 0.0151 Acyl-CoA synthetase long- chain family member 5 97910 SOD3 NM_003102 0.0151 "Superoxide dismutase 3, extracellular" 90132 ATP1A1 NM_000701 0.0151 "ATPase, Na+/K+ transporting, alpha 1 polypeptide" 35087 PCBP4 NM_020418 0.0151 Poly(rC) binding protein 4 22561 DRIM NM_014503 0.0151 Down-regulated in metastasis 50587 SLC22A16 NM_033125 0.0151 "Solute carrier family 22 (organic cation transporter), member 16" 83381 APOC3 NM_000040 0.0151 Apolipoprotein C-III 27399 HECA NM_016217 0.0151 Headcase homolog (Drosophila) 148217 C10orf12 AK025166 0.0151 Chromosome 10 open reading frame 12 3223 ABLIM2 NM_032432 0.0151 "Actin binding LIM protein family, member 2" 26661 FTHFSDC1 NM_015440 0.0152 Formyltetrahydrofolate synthetase domain containing 1 47750 R29124_1 NM_033543 0.0152 Carcinoembryonic antigen- related cell adhesion molecule 15270 APG7L NM_006395 0.0152 APG7 autophagy 7-like (S. cerevisiae) 38230 C2orf17 NM_024293 0.0152 Chromosome 2 open reading frame 17 83465 COL7A1 NM_000094 0.0152 "Collagen, type VII, alpha 1 (epidermolysis bullosa, http://ard.bmj.com/ dystrophic, dominant and recessive)" 161201 AL049435 0.0152 "CDNA FLJ13601 fis, clone PLACE1010069" 44973 DCOHM NM_032151 0.0152 Dimerization cofactor of

hepatocyte nuclear factor 1 ( on October 2, 2021 by guest. Protected copyright. HNF1) from muscle 25808 NQO3A2 NM_016243 0.0153 "NAD(P)H:quinone oxidoreductase type 3, polypeptide A2" 37702 SIL1 NM_022464 0.0153 "Endoplasmic reticulum chaperone SIL1, homolog of yeast" 147813 ANKRD21 NM_174981 0.0153 Ankyrin repeat domain 21 152278 LOC284385 AK097685 0.0154 "Homo sapiens cDNA FLJ40366 fis, clone TESTI2034777." 142467 ELK4 NM_021795 0.0154 "ELK4, ETS-domain protein (SRF accessory protein 1)" 48320 MGC4251 NM_032376 0.0154 Hypothetical protein MGC4251 107442 AA133281 0.0155 Hypothetical gene supported

75 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

by BC031266 130530 PIGM NM_145167 0.0155 "Phosphatidylinositol glycan, class M" 10672 GPR6 NM_005284 0.0155 G protein-coupled receptor 6 160553 AK093682 0.0156 Hypothetical gene supported by AK093682; AK129519 158204 MGC44505 NM_178553 0.0156 Hypothetical protein MGC44505 149425 AF052146 0.0156 "CDNA FLJ43660 fis, clone SYNOV4004823" 16148 SSR3 NM_007107 0.0156 "Signal sequence receptor, gamma (translocon- associated protein gamma)" 115337 RP2 NM_006915 0.0156 Retinitis pigmentosa 2 (X- linked recessive) 58441 TEX261 NM_144582 0.0156 Testis expressed sequence 261 4051 TNFRSF10C NM_003841 0.0156 "Tumor necrosis factor receptor superfamily, member 10c, decoy without an intracellular domain" 76883 XM_291027 0.0156 20825 HEBP2 NM_014320 0.0156 Heme binding protein 2 38956 CUZD1 NM_022034 0.0158 CUB and zona pellucida-like domains 1 128934 SLC2A4RG NM_020062 0.0158 SLC2A4 regulator 50489 TRIM4 NM_033017 0.0158 Tripartite motif-containing 4 161836 AK097124 0.0158 "CDNA FLJ39805 fis, clone SPLEN2007951" 24161 DCTN4 NM_016221 0.0158 Dynactin 4 (p62) 49481 ART5 NM_053017 0.0158 ADP-ribosyltransferase 5 102155 AKAP11 NM_016248 0.0158 A kinase (PRKA) anchor http://ard.bmj.com/ protein 11 101173 CASP1 NM_001223 0.0158 "Caspase 1, apoptosis-related cysteine protease (interleukin 1, beta, convertase)" 87880 KCNQ1OT1 NM_000218 0.0159 "Potassium voltage-gated channel, KQT-like subfamily, member 1" on October 2, 2021 by guest. Protected copyright. 181580 KRTAP19-6 NM_181612 0.0159 "synonym: KAP19.6; Homo sapiens keratin associated protein 19-6 (KRTAP19-6), mRNA." 121815 EIF2S1 NM_004094 0.0159 "Eukaryotic translation initiation factor 2, subunit 1 alpha, 35kDa" 21932 BAZ1A NM_013448 0.016 "Bromodomain adjacent to zinc finger domain, 1A" 18178 GNG3 NM_012202 0.016 "Guanine nucleotide binding protein (G protein), gamma 3" 9363 MAFB NM_005461 0.016 V-maf musculoaponeurotic fibrosarcoma oncogene homolog B (avian) 16829 IPO8 NM_006390 0.016 Importin 8 182909 XM_352255 0.016

76 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

61434 MGC26963 NM_152621 0.016 Hypothetical protein MGC26963 109609 TPM3 NM_153649 0.016 Tropomyosin 3 94838 ELA2 NM_001972 0.016 "Elastase 2, neutrophil" 107508 MTCYTB 0.016 57959 C10orf42 NM_138357 0.016 Chromosome 10 open reading frame 42 25789 VPS29 NM_016226 0.016 Vacuolar protein sorting 29 (yeast) 85082 C20orf178 NM_176812 0.016 Chromosome 20 open reading frame 178 96726 UVRAG NM_003369 0.016 UV radiation resistance associated gene 27326 LW-1 NM_016153 0.0161 LW-1 9730 ACTR1A NM_005736 0.0161 "ARP1 actin-related protein 1 homolog A, centractin alpha (yeast)" 134403 MSI2 NM_170721 0.0161 Musashi homolog 2 (Drosophila) 62257 DGKB NM_145695 0.0161 "Diacylglycerol kinase, beta 90kDa" 34578 FAM35A NM_019054 0.0161 "Family with sequence similarity 35, member A" 57973 MGC15763 NM_138381 0.0161 Hypothetical protein BC008322 150168 RSBN1L XM_168443 0.0161 "synonyms: FLJ42526, FLJ45813, MGC71764; Homo sapiens round spermatid basic protein 1-like (RSBN1L), mRNA." 8786 PIK3R2 NM_005027 0.0161 "Phosphoinositide-3-kinase, regulatory subunit, polypeptide 2 (p85 beta)" http://ard.bmj.com/ 15081 RAD21 NM_006265 0.0161 RAD21 homolog (S. pombe) 134061 SDCCAG10 NM_005869 0.0161 Serologically defined colon cancer antigen 10 90385 IL1R1 NM_000877 0.0162 "Interleukin 1 receptor, type I" 77087 ANKIB1 AL137349 0.0162 Ankyrin repeat and IBR

domain containing 1 on October 2, 2021 by guest. Protected copyright. 121662 MKRN1 NM_013446 0.0162 "Makorin, ring finger protein, 1" 146958 HS5643310 0.0162 18933 NCOA6 NM_014071 0.0162 Nuclear receptor coactivator 6 29022 TMEM30A NM_018247 0.0163 Transmembrane protein 30A 33070 ZNF307 NM_019110 0.0164 Zinc finger protein 307 12660 PTPRCAP NM_005608 0.0164 "Protein tyrosine phosphatase, receptor type, C-associated protein" 153379 KIAA0650 BC006008 0.0164 KIAA0650 protein 24431 TM9SF4 NM_014742 0.0165 Transmembrane 9 superfamily protein member 4 15854 CKAP4 NM_006825 0.0165 Cytoskeleton-associated protein 4 67487 KRTAP8-1 AJ457064 0.0165 Keratin associated protein 8-1

77 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

186275 XM_353851 0.0165 157269 AK096648 0.0165 "Transcribed locus, highly similar to XP_225701.2 similar to ring finger protein [Rattus norvegicus]" 46677 NM_032253 0.0166 55678 C10orf9 NM_145012 0.0166 Chromosome 10 open reading frame 9 148568 AL109719 0.0166 MRNA full length insert cDNA clone EUROIMAGE 283668 88300 APP NM_000484 0.0167 "Amyloid beta (A4) precursor protein (protease nexin-II, Alzheimer disease)" 70664 ZNF621 AK074366 0.0167 Zinc finger protein 621 5629 DPM1 NM_003859 0.0167 "Dolichyl-phosphate mannosyltransferase polypeptide 1, catalytic subunit" 45798 CPEB1 NM_030594 0.0167 Cytoplasmic polyadenylation element binding protein 1 40098 FLJ23342 NM_024631 0.0167 Hypothetical protein FLJ23342 159492 XM_096471 0.0167 7867 CSPG2 NM_004385 0.0167 Chondroitin sulfate proteoglycan 2 (versican) 27272 RNF12 NM_016120 0.0167 Ring finger protein 12 141153 PGBD4 NM_152595 0.0168 PiggyBac transposable element derived 4 91276 CXCL10 NM_001565 0.0168 Chemokine (C-X-C motif) ligand 10 99115 PXN NM_002859 0.0168 Paxillin 114681 LOC51257 NM_016496 0.0168 Hypothetical protein LOC51257 http://ard.bmj.com/ 94257 MR1 NM_001531 0.0169 "Major histocompatibility complex, class I-related" 97492 PSMA5 NM_002790 0.0169 "Proteasome (prosome, macropain) subunit, alpha type, 5"

62273 TIGD4 NM_145720 0.017 Tigger transposable element on October 2, 2021 by guest. Protected copyright. derived 4 99262 SCGF NM_002975 0.017 Stem cell growth factor; lymphocyte secreted C-type lectin 93562 IGFBP6 NM_002178 0.017 Insulin-like growth factor binding protein 6 185553 KRTAP20-2 NM_181616 0.017 "synonym: KAP20.2; Homo sapiens keratin associated protein 20-2 (KRTAP20-2), mRNA." 32392 FLJ11126 NM_018332 0.017 FLJ11126 protein 81546 BC018779 0.017 "Homo sapiens cDNA clone IMAGE:4870477, partial cds." 34195 EAF2 NM_018456 0.017 ELL associated factor 2 146238 HS384361 0.017 37789 HTF9C NM_022727 0.017 HpaII tiny fragments locus 9C

78 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

34230 TPARL NM_018475 0.017 TPA regulated locus 90513 RPL12 NM_000976 0.0171 Ribosomal protein L12 6962 EI24 NM_004879 0.0171 Etoposide induced 2.4 mRNA 58117 NM_138611 0.0171 72257 KIAA0540 AK074036 0.0171 KIAA0540 protein 10855 STAT2 NM_005419 0.0171 "Signal transducer and activator of transcription 2, 113kDa" 103871 OSTM1 W47552 0.0171 Osteopetrosis associated transmembrane protein 1 130620 FLJ12505 NM_024749 0.0171 Hypothetical protein FLJ12505 146409 HSNCX1 0.0171 11861 MARS NM_004990 0.0171 Methionine-tRNA synthetase 61318 DKFZp761G058 NM_152542 0.0171 Hypothetical protein DKFZp761G058 186317 na XM_210543 0.0171 Similar to SPBPJ4664.02 80814 GALNT10 NM_017540 0.0171 UDP-N-acetyl-alpha-D- galactosamine:polypeptide N- acetylgalactosaminyltransfera se 10 (GalNAc-T10) 72008 UBR1 NM_174916 0.0172 Ubiquitin protein ligase E3 component n-recognin 1 134784 ATP6V1C1 NM_001695 0.0172 "ATPase, H+ transporting, lysosomal 42kDa, V1 subunit C, isoform 1" 151455 AK023336 0.0172 "CDNA FLJ13274 fis, clone OVARC1001029" 186090 MGC52010 XM_039373 0.0172 "Homo sapiens hypothetical protein MGC52010 (MGC52010), mRNA." 108429 PSMC4 NM_006503 0.0172 "Proteasome (prosome, macropain) 26S subunit, http://ard.bmj.com/ ATPase, 4" 133534 TDO2 NM_005651 0.0172 "Tryptophan 2,3- dioxygenase" 94602 CDH3 NM_001793 0.0172 "Cadherin 3, type 1, P- cadherin (placental)"

186854 FSIP2 NM_173651 0.0172 Fibrous sheath interacting on October 2, 2021 by guest. Protected copyright. protein 2 5265 VAMP3 NM_004781 0.0172 Vesicle-associated membrane protein 3 (cellubrevin) 58067 XM_352923 0.0172 160784 GSPT1 AK095367 0.0172 G1 to S phase transition 1 98483 PLA2G6 NM_003560 0.0172 "Phospholipase A2, group VI (cytosolic, calcium- independent)" 5325 ECEL1 NM_004826 0.0172 Endothelin converting enzyme-like 1 46892 KIAA1838 NM_032448 0.0172 KIAA1838 96405 STAT4 NM_003151 0.0172 Signal transducer and activator of transcription 4 36847 NIN NM_020921 0.0172 Ninein (GSK3B interacting protein)

79 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

59435 MGC40157 NM_152350 0.0172 Hypothetical protein MGC40157 91079 EMP3 NM_001425 0.0172 Epithelial membrane protein 3 17170 FTCD NM_006657 0.0173 Formiminotransferase cyclodeaminase 58947 C6orf57 NM_145267 0.0173 Chromosome 6 open reading frame 57 87336 PPP3R1 NM_000945 0.0173 "Protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)" 183029 XM_350931 0.0173 159784 LOC339745 BX538143 0.0173 Hypothetical protein LOC339745 17250 BAT8 NM_006709 0.0173 HLA-B associated transcript 8 103715 RAP140 AF273053 0.0173 Retinoblastoma-associated protein 140 45539 NM_025056 0.0173 70641 KIAA1432 AK074150 0.0173 KIAA1432 33080 ARHGEF3 NM_019555 0.0173 Rho guanine nucleotide exchange factor (GEF) 3 63114 FLJ38482 NM_152681 0.0173 Hypothetical protein FLJ38482 19868 RHOQ NM_012249 0.0173 "Ras homolog gene family, member Q" 59010 ZNF485 NM_145312 0.0174 Zinc finger protein 485 142204 CR1 NM_000573 0.0174 "Complement component (3b/4b) receptor 1, including Knops blood group system" 77861 BC006438 0.0174 Similar to 60S ribosomal protein L7a (Surfeit locus protein 3) (PLA-X polypeptide) http://ard.bmj.com/ 67795 KIAA1618 AF397205 0.0174 KIAA1618 170520 RTN4 NM_007008 0.0174 Reticulon 4 101643 RPLP2 NM_001004 0.0174 "Ribosomal protein, large P2" 22006 WDR37 NM_014023 0.0174 WD repeat domain 37 30706 FLJ10900 NM_018264 0.0174 Hypothetical protein FLJ10900 on October 2, 2021 by guest. Protected copyright. 6025 GBF1 NM_004193 0.0174 Golgi-specific brefeldin A resistance factor 1 74243 NFYC AL713771 0.0174 "Nuclear transcription factor Y, gamma" 186466 XM_211012 0.0174 111352 TBL1XR1 NM_024665 0.0174 Transducin (beta)-like 1X- linked receptor 1 161896 SLC36A1 AK025102 0.0174 "Solute carrier family 36 (proton/amino acid symporter), member 1" 23485 KIAA1194 NM_015455 0.0174 KIAA1194 143100 HRH3 AB045369 0.0174 Histamine receptor H3 81691 RPL27 BC021886 0.0174 Ribosomal protein L27 33178 AGPAT4 NM_020133 0.0174 "1-acylglycerol-3-phosphate O-acyltransferase 4

80 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

(lysophosphatidic acid acyltransferase, delta)" 10888 MLF2 NM_005439 0.0174 Myeloid leukemia factor 2 25712 SHANK1 NM_016148 0.0175 SH3 and multiple ankyrin repeat domains 1 166876 WBSCR20A NM_018044 0.0175 Williams Beuren syndrome chromosome region 20A 147569 ADRA1D NM_000678 0.0175 "Adrenergic, alpha-1D-, receptor" 9178 HIST1H1C NM_005319 0.0175 "Histone 1, H1c" 26484 PLCL2 NM_015184 0.0175 Phospholipase C-like 2 141638 ZNF526 XM_057401 0.0175 "synonyms: MGC4267, KIAA1951; go_component: nucleus [goid 0005634] [evidence IEA]; go_function: zinc ion binding [goid 0008270] [evidence IEA]; go_function: nucleic acid binding [goid 0003676] [evidence IEA]; Homo sapiens zinc finger protein 526 (ZNF526), mRNA." 75659 DKFZP434C131 AL360256 0.0176 DKFZP434C131 protein 48539 CINP NM_032630 0.0176 Cyclin-dependent kinase 2- interacting protein 154341 AL360145 0.0176 Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 839551. 183924 DP58 XM_293976 0.0177 Cytosolic phosphoprotein DP58 161914 SVIL AK057722 0.0177 Supervillin 44276 EDG8 NM_030760 0.0177 "Endothelial differentiation, sphingolipid G-protein- http://ard.bmj.com/ coupled receptor, 8" 13171 TCFL1 NM_005997 0.0177 Transcription factor-like 1 13986 IQGAP2 NM_006633 0.0177 IQ motif containing GTPase activating protein 2 55338 C14orf32 NM_144578 0.0178 Chromosome 14 open

reading frame 32 on October 2, 2021 by guest. Protected copyright. 151547 XM_208731 0.0178 118957 MAP2K6 NM_002758 0.0178 Mitogen-activated protein kinase kinase 6 69749 LOC284371 AK093512 0.0178 Hypothetical protein LOC284371 1102 RNPS1 NM_080594 0.0178 "RNA binding protein S1, serine-rich domain" 5529 PEA15 NM_003768 0.0178 Phosphoprotein enriched in astrocytes 15 56796 ADAMTS15 NM_139055 0.0178 "A disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 15" 92191 LAF4 NM_002285 0.0179 Lymphoid nuclear protein related to AF4 34177 IQWD1 NM_018442 0.0179 Glycine cleavage system

81 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

protein H (aminomethyl carrier) 87249 IL2RB NM_000878 0.0179 "Interleukin 2 receptor, beta" 123802 MRPL42 NM_014050 0.0179 Mitochondrial ribosomal protein L42 30669 FLJ10815 NM_018231 0.018 Hypothetical protein FLJ10815 149687 IDS2 AF050146 0.018 "Transcribed locus, moderately similar to NP_034628.1 iduronate 2- sulfatase [Mus musculus]" 92317 MGST2 NM_002413 0.018 Microsomal glutathione S- transferase 2 182906 XM_167912 0.018 153895 AP1GBP1 AF075022 0.018 AP1 gamma subunit binding protein 1 152457 LOC255798 XM_173087 0.018 Hypothetical protein LOC255798 106986 HAND2 AF087940 0.0181 Heart and neural crest derivatives expressed 2 26220 CNAP1 NM_014865 0.0181 Chromosome condensation- related SMC-associated protein 1 115243 NXT2 NM_018698 0.0181 Nuclear transport factor 2-like export factor 2 30548 FLJ10579 NM_018145 0.0181 Hypothetical protein FLJ10579 7167 TNFSF10 NM_003810 0.0181 "Tumor necrosis factor (ligand) superfamily, member 10" 53849 DLGAP3 XM_035601 0.0182 "Discs, large (Drosophila) homolog-associated protein 3" http://ard.bmj.com/ 36286 SLC10A3 NM_019848 0.0182 "Solute carrier family 10 (sodium/bile acid cotransporter family), member 3" 80212 ZNF605 BC020877 0.0182 Zinc finger protein 605

62910 FLJ31413 NM_152557 0.0182 Hypothetical protein on October 2, 2021 by guest. Protected copyright. FLJ31413 12578 IFI35 NM_005533 0.0182 Interferon-induced protein 35 420 KIAA1409 XM_028395 0.0182 "synonym: FLJ43337; Homo sapiens KIAA1409 (KIAA1409), mRNA." 36163 SEC15L1 NM_019053 0.0182 SEC15-like 1 (S. cerevisiae) 109561 KIAA1244 NM_020340 0.0183 KIAA1244 107150 SOS1 H64325 0.0183 Son of sevenless homolog 1 (Drosophila) 187207 BC007204 0.0183 FP6778 135748 AP3S2 NM_005829 0.0184 "Adaptor-related protein complex 3, sigma 2 subunit" 6937 FXR2 NM_004860 0.0184 "Fragile X mental retardation, autosomal homolog 2" 17181 SRCAP NM_006662 0.0184 Snf2-related CBP activator protein

82 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

3876 PPAP2B NM_003713 0.0184 Phosphatidic acid phosphatase type 2B 122724 LRCH1 AB023233 0.0184 Leucine-rich repeats and calponin homology (CH) domain containing 1 32353 ZNF83 NM_018300 0.0184 Zinc finger protein 83 (HPF1) 147734 HNRNPG-T NM_014469 0.0184 Testes-specific heterogenous nuclear ribonucleoprotein G-T 145486 GCNT2 NM_001491 0.0184 "Glucosaminyl (N-acetyl) transferase 2, I-branching enzyme" 170037 CDIPT NM_006319 0.0184 CDP-diacylglycerol--inositol 3-phosphatidyltransferase (phosphatidylinositol synthase) 6569 RARRES3 NM_004585 0.0184 Retinoic acid receptor responder (tazarotene induced) 3 74391 FLJ21816 NM_024675 0.0185 Hypothetical protein FLJ21816 106912 APBA3 NM_004886 0.0185 "Amyloid beta (A4) precursor protein-binding, family A, member 3 (X11-like 2)" 103923 VAMP3 AA488635 0.0185 Vesicle-associated membrane protein 3 (cellubrevin) 161922 AK091693 0.0185 "CDNA FLJ34374 fis, clone FEBRA2017502" 185757 XM_353311 0.0185 49928 PARD6G NM_032510 0.0185 Par-6 partitioning defective 6 homolog gamma (C. elegans) 180782 na XM_209187 0.0185 Similar to BC022651 protein 23634 EIF2B4 NM_015636 0.0185 "Eukaryotic translation http://ard.bmj.com/ initiation factor 2B, subunit 4 delta, 67kDa" 119202 RPS10 NM_001014 0.0185 Ribosomal protein S10 93719 LAMR1 NM_002295 0.0185 "Laminin receptor 1 (ribosomal protein SA,

67kDa)" on October 2, 2021 by guest. Protected copyright. 196 KIAA0830 XM_290546 0.0185 KIAA0830 protein 153871 BX538252 0.0185 MRNA; cDNA DKFZp779A135 (from clone DKFZp779A135) 165500 APOL4 NM_030643 0.0185 "Apolipoprotein L, 4" 155233 SPERIOLIN XM_351789 0.0185 "synonym: MGC61633; similar to Putative protein C21orf56; Homo sapiens likely ortholog of mouse speriolin (SPERIOLIN), mRNA." 11342 ACTR1B NM_005735 0.0185 "ARP1 actin-related protein 1 homolog B, centractin beta (yeast)" 9865 ZMPSTE24 NM_005857 0.0185 "Zinc metalloproteinase (STE24 homolog, yeast)"

83 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

133128 USP15 NM_006313 0.0186 Ubiquitin specific protease 15 89077 SST NM_001048 0.0186 Somatostatin 129738 FLJ13868 NM_022744 0.0186 Hypothetical protein FLJ13868 29700 NM_017571 0.0186 38978 SLC4A10 NM_022058 0.0187 "Solute carrier family 4, sodium bicarbonate transporter-like, member 10" 33328 CHPT1 NM_020244 0.0187 Choline phosphotransferase 1 45766 PRR3 NM_025263 0.0187 Proline rich 3 94025 CTSW NM_001335 0.0187 Cathepsin W (lymphopain) 41611 SAP130 NM_024545 0.0187 MSin3A-associated protein 130 153549 FLJ20273 BC026299 0.0187 RNA-binding protein 94816 EFNA5 NM_001962 0.0187 Ephrin-A5 91968 HLA-DPB1 NM_002121 0.0188 "Major histocompatibility complex, class II, DP beta 1" 154471 AF147341 0.0188 Full length insert cDNA clone YB29B09 61871 ZNF524 NM_153219 0.0188 Zinc finger protein 524 155341 LOC283332 AK093215 0.0188 Hypothetical protein LOC283332 120285 GNAI3 NM_006496 0.0188 "Guanine nucleotide binding protein (G protein), alpha inhibiting activity polypeptide 3" 99071 PTPN1 NM_002827 0.0188 "Protein tyrosine phosphatase, non-receptor type 1" 47932 RASGRP4 NM_052949 0.0188 RAS guanyl releasing protein 4 142887 RAB11A NM_004663 0.0188 "RAB11A, member RAS http://ard.bmj.com/ oncogene family" 8896 G1P2 NM_005101 0.0188 "Interferon, alpha-inducible protein (clone IFI-15K)" 35720 PAG NM_018440 0.0188 Phosphoprotein associated with glycosphingolipid- enriched microdomains 105302 HIMAP2 NM_015660 0.0189 Immunity associated protein 2 on October 2, 2021 by guest. Protected copyright. 50916 MK2S4 NM_052862 0.0189 Protein kinase substrate MK2S4 71793 PARP14 XM_291055 0.0189 "synonym: KIAA1268; Homo sapiens poly (ADP-ribose) polymerase family, member 14 (PARP14), mRNA." 23501 NIPSNAP3A NM_015469 0.0189 Nipsnap homolog 3A (C. elegans) 77953 DKFZp761I2123 BC008049 0.0189 Hypothetical protein DKFZp761I2123 86640 PAFAH1B1 NM_000430 0.0189 "Platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa" 41636 MPZL1 NM_024569 0.0189 Myelin protein zero-like 1 7417 ATIC NM_004044 0.0189 5-aminoimidazole-4- carboxamide ribonucleotide

84 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

formyltransferase/IMP cyclohydrolase 89194 RNASE4 NM_001145 0.0189 "Angiogenin, ribonuclease, RNase A family, 5" 58568 FLJ31978 NM_144669 0.0189 Hypothetical protein FLJ31978 141205 C6orf55 NM_016485 0.0189 Chromosome 6 open reading frame 55 184102 XM_351368 0.019 180414 na XM_117014 0.019 Hypothetical LOC197317 35 HSPCB NM_007355 0.019 "Heat shock 90kDa protein 1, beta" 85448 XRRA1 BC037294 0.019 X-ray radiation resistance associated 1 99089 PTPRH NM_002842 0.019 "Protein tyrosine phosphatase, receptor type, H" 29899 SNRK NM_017719 0.019 SNF-1 related kinase 56420 MGC16044 NM_138371 0.019 Hypothetical protein MGC16044 5875 CRY1 NM_004075 0.019 Cryptochrome 1 (photolyase- like) 33999 HIMAP4 NM_018326 0.019 Immunity associated protein 4 186574 C19orf35 XM_353169 0.019 "synonym: FLJ45778; Homo sapiens chromosome 19 open reading frame 35 (C19orf35), mRNA." 137881 ZNF514 NM_032788 0.019 Zinc finger protein 514 78742 RCL1 BC020899 0.0191 RNA terminal phosphate cyclase-like 1 12123 CBL NM_005188 0.0191 Cas-Br-M (murine) ecotropic retroviral transforming sequence http://ard.bmj.com/ 107837 SNRPN NM_003097 0.0191 SNRPN upstream reading frame 181457 na XM_063871 0.0191 Similar to ENSANGP00000013733 37855 FLJ21144 NM_022774 0.0191 Hypothetical protein

FLJ21144 on October 2, 2021 by guest. Protected copyright. 16982 RELB NM_006509 0.0191 "V-rel reticuloendotheliosis viral oncogene homolog B, nuclear factor of kappa light polypeptide gene enhancer in B-cells 3 (avian)" 60565 ZNF626 NM_145297 0.0191 Zinc finger protein 626 78356 CREB3L1 BC014097 0.0191 CAMP responsive element binding protein 3-like 1 90903 CIRBP NM_001280 0.0191 Cold inducible RNA binding protein 27172 CGI-100 NM_016040 0.0192 CGI-100 protein 51660 IGLV@ AF107249 0.0192 Immunoglobulin lambda variable group 22376 RNF11 NM_014372 0.0192 Ring finger protein 11 89558 MTM1 NM_000252 0.0192 Myotubularin 1 105777 NALP1 NM_033006 0.0192 "NACHT, leucine rich repeat

85 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

and PYD containing 1" 641 ZDHHC5 XM_290511 0.0192 "synonyms: ZNF375, KIAA1748, DKFZP586K0524; go_component: integral to membrane [goid 0016021] [evidence IEA]; go_function: metal ion binding [goid 0046872] [evidence IEA]; Homo sapiens zinc finger, DHHC domain containing 5 (ZDHHC5), mRNA." 33734 KIAA1536 NM_020898 0.0192 KIAA1536 protein 167364 SULT1A2 NM_001054 0.0192 "Sulfotransferase family, cytosolic, 1A, phenol- preferring, member 2" 44005 FLJ22761 NM_025130 0.0192 Hypothetical protein FLJ22761 28415 PARP16 NM_017851 0.0192 "Poly (ADP-ribose) polymerase family, member 16" 40258 ZNF410 NM_021188 0.0192 Zinc finger protein 410 110244 ZNF587 NM_032828 0.0192 Zinc finger protein 587 92146 KCNN3 NM_002249 0.0192 "Potassium intermediate/small conductance calcium- activated channel, subfamily N, member 3" 10829 CXCL11 NM_005409 0.0192 Chemokine (C-X-C motif) ligand 11 157360 ARL12 AK093715 0.0193 ADP-ribosylation factor-like 12 30643 FLJ10759 NM_018207 0.0193 Hypothetical protein FLJ10759 http://ard.bmj.com/ 9079 FER NM_005246 0.0193 Fer (fps/fes related) tyrosine kinase (phosphoprotein NCP94) 34623 FLJ10287 NM_019083 0.0193 Hypothetical protein FLJ10287

60746 GSTM4 NM_147148 0.0193 Glutathione S-transferase M4 on October 2, 2021 by guest. Protected copyright. 11930 PRF1 NM_005041 0.0193 Perforin 1 (pore forming protein) 61028 ZNF491 NM_152356 0.0193 Zinc finger protein 491 95294 LDHB NM_002300 0.0193 Lactate dehydrogenase B 142138 CLCNKB BC020873 0.0193 Chloride channel Kb 56357 LOC148213 NM_138286 0.0194 Hypothetical protein FLJ31526 59389 MGC35033 NM_152319 0.0194 Hypothetical protein MGC35033 160704 AK022135 0.0195 Similar to RIKEN cDNA C030014K22 gene 173680 HNRPC NM_004500 0.0195 Heterogeneous nuclear ribonucleoprotein C (C1/C2) 70828 NOD27 AK090439 0.0195 Nucleotide-binding oligomerization domains 27 150067 BC039364 0.0195 "Homo sapiens, clone

86 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

IMAGE:5270693, mRNA" 46388 CDCA7 NM_031942 0.0196 Cell division cycle associated 7 48483 NM_032568 0.0196 26822 FGFR1OP2 NM_015633 0.0197 FGFR1 oncogene partner 2 95380 MCP NM_002389 0.0197 "Membrane cofactor protein (CD46, trophoblast- lymphocyte cross-reactive antigen)" 35658 FLJ11301 NM_018385 0.0197 Hypothetical protein FLJ11301 37777 ANAPC1 NM_022662 0.0197 Anaphase promoting complex subunit 1 14842 ISGF3G NM_006084 0.0197 "Interferon-stimulated transcription factor 3, gamma 48kDa" 82605 MGC33600 NM_182539 0.0197 Hypothetical protein MGC33600 27600 TH1L NM_016397 0.0197 TH1-like (Drosophila) 24666 KIAA0863 NM_014913 0.0197 KIAA0863 protein 110426 TAF9 NM_016283 0.0197 "TAF9 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 32kDa" 182001 XM_292745 0.0198 74105 ELOVL7 AL137506 0.0198 "ELOVL family member 7, elongation of long chain fatty acids (yeast)" 30622 FLJ10726 NM_018195 0.0198 Hypothetical protein FLJ10726 149064 BE785458 0.0198 "601478023F1 NIH_MGC_68 Homo sapiens cDNA clone IMAGE:3880901 5', mRNA http://ard.bmj.com/ sequence." 91890 GNAZ NM_002073 0.0198 "Guanine nucleotide binding protein (G protein), alpha z polypeptide" 180513 XM_352430 0.0199

149873 AK057759 0.0199 "CDNA FLJ25030 fis, clone on October 2, 2021 by guest. Protected copyright. CBL02631" 23859 TMX2 NM_015959 0.0199 Thioredoxin-related transmembrane protein 2 148927 AK026647 0.0199 "Transcribed locus, weakly similar to XP_326282.1 Neurospora crassa NCU06427.1 gene" 97162 OLR1 NM_002543 0.0199 Oxidised low density lipoprotein (lectin-like) receptor 1 36112 FLJ11127 NM_019018 0.0199 Hypothetical protein FLJ11127 11202 SSX1 NM_005635 0.0199 "Synovial sarcoma, X breakpoint 1" 145144 BCCIP NM_016567 0.0199 BRCA2 and CDKN1A interacting protein

87 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

11496 DOC-1R NM_005851 0.0199 Tumor suppressor deleted in oral cancer-related 1 9539 RBL2 NM_005611 0.0199 Retinoblastoma-like 2 (p130) 97940 SPTBN1 NM_003128 0.0199 "Spectrin, beta, non- erythrocytic 1" 179101 NAP1L1 NM_004537 0.0199 Nucleosome assembly protein 1-like 1 10189 EBI2 NM_004951 0.0199 Epstein-Barr virus induced gene 2 (lymphocyte-specific G protein-coupled receptor) 95462 MTAP NM_002451 0.0199 Methylthioadenosine phosphorylase 69 FNBP2 AB007925 0.0199 Formin binding protein 2 184880 XM_352027 0.0199 94634 CEACAM4 NM_001817 0.0199 Carcinoembryonic antigen- related cell adhesion molecule 4 59840 FLJ38281 NM_152601 0.0199 Hypothetical protein FLJ38281 87934 MTR NM_000254 0.02 5-methyltetrahydrofolate- homocysteine methyltransferase 5166 PCSK7 NM_004716 0.02 Proprotein convertase subtilisin/kexin type 7 16737 SEC24B NM_006323 0.02 "SEC24 related gene family, member B (S. cerevisiae)" 80205 LOC283377 BC020844 0.02 Hypothetical protein LOC283377 25610 CGI-141 NM_016072 0.02 CGI-141 protein 47205 HAVCR2 NM_032782 0.0201 Hepatitis A virus cellular receptor 2 109977 BC006361 0.0201 "Transcribed locus, highly similar to XP_294802.3 http://ard.bmj.com/ hypothetical gene supported by AK092558; AL137655; BC006361 [Homo sapiens]" 49234 KRT6IRS NM_033448 0.0201 Keratin 6 irs 104688 PSMA3 NM_002788 0.0201 "Proteasome (prosome,

macropain) subunit, alpha on October 2, 2021 by guest. Protected copyright. type, 3" 170842 GSPT2 BC036077 0.0202 G1 to S phase transition 2 72694 LOC286161 AK091672 0.0202 "unnamed protein product; Homo sapiens cDNA FLJ34353 fis, clone FEBRA2011665." 170771 KIF23 NM_004856 0.0202 Kinesin family member 23 30436 FLJ10379 NM_018079 0.0202 Hypothetical protein FLJ10379 38555 THAP9 NM_024672 0.0202 THAP domain containing 9 32460 FLJ11286 NM_018381 0.0202 Hypothetical protein FLJ11286 100114 IKBKAP NM_003640 0.0202 "Inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase complex- associated protein"

88 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

147186 HSU52054 0.0202 28002 C21orf91 NM_017447 0.0202 Chromosome 21 open reading frame 91 99568 TARS NM_003191 0.0202 "synonyms: ThrRS, MGC9344; threonine--tRNA ligase; go_component: cytoplasm [goid 0005737] [evidence TAS] [pmid 2033077]; go_component: soluble fraction [goid 0005625] [evidence TAS] [pmid 2033077]; go_function: ATP binding [goid 0005524] [evidence IEA]; go_function: ligase activity [goid 0016874] [evidence IEA]; go_function: threonine-tRNA ligase activity [goid 0004829] [evidence IEA]; go_process: protein biosynthesis [goid 0006412] [evidence NR]; go_process: threonyl-tRNA aminoacylation [goid 0006435] [evidence IEA]; Homo sapiens threonyl- tRNA synthetase (TARS), mRNA." 95308 LIMK1 NM_002314 0.0202 LIM domain kinase 1 154314 LOC339168 BC040900 0.0202 Hypothetical protein LOC339168 20296 GMPPA NM_013335 0.0202 GDP-mannose pyrophosphorylase A 39840 ZNF576 NM_024327 0.0202 Zinc finger protein 576

107700 PCDH1 NM_002587 0.0202 Protocadherin 1 (cadherin-like http://ard.bmj.com/ 1) 11777 ACTN4 NM_004924 0.0202 "Actinin, alpha 4" 107864 PDCD8 NM_004208 0.0202 Programmed cell death 8 (apoptosis-inducing factor) 140942 NM_014630 0.0202

49450 RBP7 NM_052960 0.0202 "Retinol binding protein 7, on October 2, 2021 by guest. Protected copyright. cellular" 15642 HPSE NM_006665 0.0202 Heparanase 37618 IFRG15 NM_022347 0.0202 IFRG15 protein 22423 C4.4A NM_014400 0.0202 GPI-anchored metastasis- associated protein homolog 118044 SENP5 NM_152699 0.0202 SUMO1/sentrin specific protease 5 98764 PCTK2 NM_002595 0.0202 PCTAIRE protein kinase 2 98554 FKBP6 NM_003602 0.0202 "FK506 binding protein 6, 36kDa" 54178 MLL AF272375 0.0203 "Myeloid/lymphoid or mixed- lineage leukemia (trithorax homolog, Drosophila)" 16301 DUSP12 NM_007240 0.0203 Dual specificity phosphatase 12 4338 CMKLR1 NM_004072 0.0203 Chemokine-like receptor 1

89 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

3929 EIF3S3 NM_003756 0.0203 "Eukaryotic translation initiation factor 3, subunit 3 gamma, 40kDa" 117542 EIF2B3 NM_020365 0.0203 "Eukaryotic translation initiation factor 2B, subunit 3 gamma, 58kDa" 12611 KRT16 NM_005557 0.0203 Keratin 16 (focal non- epidermolytic palmoplantar keratoderma) 87395 RPL23A NM_000984 0.0203 Ribosomal protein L23a 184110 AMACO XM_291673 0.0204 "Homo sapiens A-domain containing protein similar to matrilin and collagen (AMACO), mRNA." 132449 PARD3 NM_019619 0.0204 Par-3 partitioning defective 3 homolog (C. elegans) 92282 MARK3 NM_002376 0.0204 MAP/microtubule affinity- regulating kinase 3 152035 DDX6 AK021715 0.0204 DEAD (Asp-Glu-Ala-Asp) box polypeptide 6 71753 FLJ10980 XM_035527 0.0204 Hypothetical protein FLJ10980 47098 FOXP1 NM_032682 0.0204 Forkhead box P1 84960 ANKRD13 XM_027116 0.0204 "synonym: NY-REN-25; NY- REN-25 antigen; Homo sapiens ankyrin repeat domain 13 (ANKRD13), mRNA." 67070 SEC24A AJ131244 0.0204 "SEC24 related gene family, member A (S. cerevisiae)" 3765 C11orf9 AF038536 0.0204 Chromosome 11 open reading frame 9 54039 LOC168850 NM_176814 0.0204 Hypothetical protein http://ard.bmj.com/ LOC168850 19347 SIAT7D NM_014403 0.0204 "Sialyltransferase 7D ((alpha- N-acetylneuraminyl-2,3-beta- galactosyl-1,3)-N-acetyl galactosaminide alpha-2,6-

sialyltransferase)" on October 2, 2021 by guest. Protected copyright. 72344 LOC403313 AK074672 0.0204 Hypothetical LOC403313 614 KIAA1718 AB051505 0.0204 KIAA1718 protein 18606 GNL2 NM_013285 0.0204 Guanine nucleotide binding protein-like 2 (nucleolar) 7963 EPHB4 NM_004444 0.0204 EphB4 92918 ATP6V1E1 NM_001696 0.0204 "ATPase, H+ transporting, lysosomal 31kDa, V1 subunit E isoform 1" 41260 MPPE1 NM_023075 0.0204 Metallophosphoesterase 1 31328 C2orf29 NM_017546 0.0204 Chromosome 2 open reading frame 29 158887 LOC152225 AK090588 0.0204 Hypothetical protein LOC152225 12273 GPR34 NM_005300 0.0204 G protein-coupled receptor 34 61857 GJB4 NM_153212 0.0205 "Gap junction protein, beta 4 (connexin 30.3)"

90 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

185885 XM_088516 0.0205 66557 KCTD13 NM_178863 0.0205 Potassium channel tetramerisation domain containing 13 45862 BHLHB3 NM_030762 0.0205 "Basic helix-loop-helix domain containing, class B, 3" 146627 GRIK2 S75105 0.0205 "GRIK2=GluR6 kainate receptor {3' untranslated region, TAA trinucleotide repeats} [human, caudate/putamen, mRNA Partial, 540 nt]" 88887 LHB NM_000894 0.0205 Luteinizing hormone beta polypeptide 46680 DKFZp434K2435 NM_032256 0.0205 Hypothetical protein DKFZp434K2435 55676 ZNF25 NM_145011 0.0206 Zinc finger protein 25 (KOX 19) 42631 APOL5 NM_030642 0.0206 "Apolipoprotein L, 5" 86816 CCR5 NM_000579 0.0206 Chemokine (C-C motif) receptor 5 1283 KIAA0342 XM_047357 0.0206 KIAA0342 gene product 155173 BC041428 0.0206 "Homo sapiens, clone IMAGE:4156279, mRNA" 81317 BC014606 0.0206 "Homo sapiens cDNA clone IMAGE:4826808, partial cds." 71113 FLJ35093 XM_351263 0.0206 "synonym: DKFZp686M07166; Homo sapiens FLJ35093 protein (FLJ35093), mRNA." 172020 SKIP NM_016532 0.0206 Skeletal muscle and kidney enriched inositol phosphatase 94674 COL4A2 NM_001846 0.0206 "Collagen, type IV, alpha 2" http://ard.bmj.com/ 90528 RPL28 NM_000991 0.0206 Ribosomal protein L28 93807 MAP4 NM_002375 0.0206 Microtubule-associated protein 4 24741 OIP106 NM_014965 0.0207 OGT(O-Glc-NAc transferase)- interacting protein 106 KDa

80778 SLC1A2 BC031313 0.0207 "Solute carrier family 1 (glial on October 2, 2021 by guest. Protected copyright. high affinity glutamate transporter), member 2" 16975 POLH NM_006502 0.0207 "Polymerase (DNA directed), eta" 161579 AK095986 0.0207 LOC441300 13099 MIPEP NM_005932 0.0207 Mitochondrial intermediate peptidase 62017 MGC34741 NM_153356 0.0207 Hypothetical protein MGC34741 102039 FASTK NM_006712 0.0207 FAST kinase 4202 NOL3 NM_003946 0.0207 Nucleolar protein 3 (apoptosis repressor with CARD domain) 119096 IQSEC2 AB011094 0.0207 IQ motif and Sec7 domain 2 86968 ALAS1 NM_000688 0.0208 "Aminolevulinate, delta-, synthase 1" 13327 MS4A3 NM_006138 0.0208 "Membrane-spanning 4-

91 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

domains, subfamily A, member 3 (hematopoietic cell-specific)" 80854 E2F2 BC007609 0.0208 E2F transcription factor 2 97763 SDC4 NM_002999 0.0208 "Syndecan 4 (amphiglycan, ryudocan)" 60892 SYT11 NM_152280 0.0208 Synaptotagmin XI 115434 ARHGEF7 NM_145735 0.0208 Rho guanine nucleotide exchange factor (GEF) 7 113905 MBNL3 NM_018388 0.0208 Muscleblind-like 3 (Drosophila) 76826 AK098479 0.0208 "unnamed protein product; Homo sapiens cDNA FLJ25613 fis, clone STM01546." 36922 KCNJ12 NM_021012 0.0208 "Potassium inwardly-rectifying channel, subfamily J, member 12" 172030 UGT2B10 NM_001075 0.0209 "UDP glycosyltransferase 2 family, polypeptide B10" 4445 PYY NM_004160 0.0209 Peptide YY 121187 DKFZp434I1610 AL136732 0.0209 Hypothetical protein DKFZp434I1610 158982 AK057045 0.0209 "Transcribed locus, weakly similar to XP_223365.2 similar to Txk [Rattus norvegicus]" 7870 CSPG2 NM_004385 0.021 Chondroitin sulfate proteoglycan 2 (versican) 90524 RPL27 NM_000988 0.021 Ribosomal protein L27 102163 ELMO1 NM_014800 0.021 "Engulfment and cell motility 1 (ced-12 homolog, C. elegans)" http://ard.bmj.com/ 142671 SNRPE NM_003094 0.021 Small nuclear ribonucleoprotein polypeptide E 17859 PDCD10 NM_007217 0.021 Programmed cell death 10 11214 TARBP1 NM_005646 0.021 TAR (HIV) RNA binding

protein 1 on October 2, 2021 by guest. Protected copyright. 100969 PTPN14 AA130874 0.021 "Protein tyrosine phosphatase, non-receptor type 14" 82450 BC033582 0.021 "Homo sapiens mRNA similar to LOC166173 (cDNA clone MGC:34832 IMAGE:5203730), complete cds." 12220 GCHFR NM_005258 0.0211 GTP cyclohydrolase I feedback regulator 79827 XM_036408 0.0211 92205 LCN1 NM_002297 0.0211 Lipocalin 1 (tear prealbumin) 20660 HSPC150 NM_014176 0.0211 HSPC150 protein similar to ubiquitin-conjugating enzyme 150085 WDFY1 BC028181 0.0211 WD repeat and FYVE domain containing 1

92 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

107932 IGLL1 NM_020070 0.0211 Immunoglobulin lambda-like polypeptide 1 22054 MRPL13 NM_014078 0.0211 Mitochondrial ribosomal protein L13 158093 CYP2U1 AK026498 0.0211 "Cytochrome P450, family 2, subfamily U, polypeptide 1" 37482 MANBAL NM_022077 0.0211 "Mannosidase, beta A, lysosomal-like" 118891 HOXC12 NM_173860 0.0211 Homeo box C12 94407 ATF4 NM_001675 0.0211 Activating transcription factor 4 (tax-responsive enhancer element B67) 29822 TRPM7 NM_017672 0.0211 "Transient receptor potential cation channel, subfamily M, member 7" 23832 CGI-07 NM_015938 0.0211 CGI-07 protein 22712 NM_014643 0.0211 453 KIAA1468 AB040901 0.0211 KIAA1468 68587 C9orf81 XM_095991 0.0211 Chromosome 9 open reading frame 81 41914 FLJ13984 NM_024770 0.0211 Hypothetical protein FLJ13984 27151 SUV420H1 NM_016028 0.0211 Suppressor of variegation 4- 20 homolog 1 (Drosophila) 161040 AK054990 0.0212 "Transcribed locus, highly similar to XP_086937.6 similar to hypothetical protein A230046P18; cDNA sequence BC055759 [Homo sapiens]" 116680 NM_014144 0.0212 131493 ARHGAP26 NM_015071 0.0212 Rho GTPase activating protein 26 http://ard.bmj.com/ 22673 LOH11CR2A NM_014622 0.0212 "Loss of heterozygosity, 11, chromosomal region 2, gene A" 123153 SERPINB9 NM_004155 0.0212 "Serine (or cysteine) proteinase inhibitor, clade B

(ovalbumin), member 9" on October 2, 2021 by guest. Protected copyright. 30223 FLJ20718 NM_017939 0.0212 Hypothetical protein FLJ20718 96138 RYK NM_002958 0.0212 RYK receptor-like tyrosine kinase 15710 PC4 NM_006713 0.0212 Activated RNA polymerase II transcription cofactor 4 40010 SCRN3 NM_024583 0.0212 Secernin 3 31674 CHCHD3 NM_017812 0.0213 Coiled-coil-helix-coiled-coil- helix domain containing 3 82350 ZNF545 NM_133466 0.0213 Zinc finger protein 545 171490 FBXO24 NM_012172 0.0213 F-box protein 24 26571 LEPROTL1 NM_015344 0.0214 Leptin receptor overlapping transcript-like 1 13736 PRPF8 NM_006445 0.0214 PRP8 pre-mRNA processing factor 8 homolog (yeast) 16836 NOL5A NM_006392 0.0214 Nucleolar protein 5A (56kDa

93 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

with KKE/D repeat) 13846 TTC10 NM_006531 0.0214 Tetratricopeptide repeat domain 10 64965 PNPLA4 U03886 0.0214 Patatin-like phospholipase domain containing 4 77317 TMEM16F XM_113743 0.0214 Transmembrane protein 16F 12705 SYT1 NM_005639 0.0214 Synaptotagmin I 92752 IFRD1 NM_001550 0.0214 Interferon-related developmental regulator 1 166263 BAI1 NM_001702 0.0214 Brain-specific angiogenesis inhibitor 1 15712 MAN2C1 NM_006715 0.0215 "Mannosidase, alpha, class 2C, member 1" 31141 JMJD1B NM_016604 0.0215 Jumonji domain containing 1B 135270 NFRKB NM_006165 0.0215 Nuclear factor related to kappa B binding protein 25933 NUP93 NM_014669 0.0215 Nucleoporin 93kDa 161787 AK022266 0.0215 "CDNA FLJ12204 fis, clone MAMMA1000921" 27221 CDK5RAP1 NM_016082 0.0215 CDK5 regulatory subunit associated protein 1 89784 CYBB NM_000397 0.0215 "Cytochrome b-245, beta polypeptide (chronic granulomatous disease)" 88991 RPL18A NM_000980 0.0215 Ribosomal protein L18a 91477 CAPNS1 NM_001749 0.0216 "Calpain, small subunit 1" 180280 XM_353440 0.0216 158237 BC038357 0.0216 "Homo sapiens, clone IMAGE:4823092, mRNA" 97538 PTMA NM_002823 0.0216 "Prothymosin, alpha (gene sequence 28)" 5585 NAPA NM_003827 0.0216 "N-ethylmaleimide-sensitive http://ard.bmj.com/ factor attachment protein, alpha" 12332 HRAS NM_005343 0.0216 V-Ha-ras Harvey rat sarcoma viral oncogene homolog 105959 WDR6 NM_018031 0.0216 WD repeat domain 6 28912 GPP34R NM_018178 0.0216 GPP34-related protein 52102 MAP3K2 AF234262 0.0216 Mitogen-activated protein on October 2, 2021 by guest. Protected copyright. kinase kinase kinase 2 27759 ZNF581 NM_016535 0.0217 Zinc finger protein 581 164355 DIAPH2 NM_006729 0.0217 Diaphanous homolog 2 (Drosophila) 30769 RNF138 NM_016271 0.0217 Ring finger protein 138 83702 FLJ00060 BC033195 0.0217 Hypothetical gene FLJ00060 86440 PFKM NM_000289 0.0217 "Phosphofructokinase, muscle" 59584 NM_152452 0.0217 79338 NM_173359 0.0218 17722 RPL10A NM_007104 0.0218 Ribosomal protein L10a 54354 CST9L NM_080610 0.0218 Cystatin 9-like (mouse) 159291 KIAA0143 AK002123 0.0218 KIAA0143 protein 184123 FLJ38288 NM_173632 0.0218 Hypothetical protein FLJ38288

94 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

11096 LCP2 NM_005565 0.0219 Lymphocyte cytosolic protein 2 (SH2 domain containing leukocyte protein of 76kDa) 114758 LOC57168 NM_020437 0.022 Similar to aspartate beta hydroxylase (ASPH) 180263 XM_351974 0.0221 32461 IAN4L1 NM_018384 0.0221 Immune associated nucleotide 4 like 1 (mouse) 7939 PHC1 NM_004426 0.0221 Polyhomeotic-like 1 (Drosophila) 20675 HSPC163 NM_014184 0.0221 HSPC163 protein 39556 FLJ13855 NM_023079 0.0221 Hypothetical protein FLJ13855 148186 BC038355 0.0221 "Homo sapiens, clone IMAGE:3858719, mRNA" 92344 MNDA NM_002432 0.0222 Myeloid cell nuclear differentiation antigen 80593 DDX17 BC029553 0.0222 DEAD (Asp-Glu-Ala-Asp) box polypeptide 17 97042 PPM1D NM_003620 0.0222 "Protein phosphatase 1D magnesium-dependent, delta isoform" 134644 RPL7A NM_000972 0.0222 Ribosomal protein L7a 145372 RAD51L1 NM_002877 0.0222 RAD51-like 1 (S. cerevisiae) 106376 HUCEP11 NM_014858 0.0222 Cerebral protein 11 8842 SFPQ NM_005066 0.0223 Splicing factor proline/glutamine rich (polypyrimidine tract binding protein associated) 141712 SRR NM_021947 0.0223 Serine racemase 130529 CGI-41 NM_015997 0.0223 CGI-41 protein 100432 SP100 NM_003113 0.0223 Nuclear antigen Sp100 http://ard.bmj.com/ 23290 KIAA0922 NM_015196 0.0223 KIAA0922 protein 112512 BC008091 0.0223 "Homo sapiens mRNA similar to hypothetical protein FLJ20234 (cDNA clone MGC:17335 IMAGE:4212810), complete

cds." on October 2, 2021 by guest. Protected copyright. 154629 AF056441 0.0223 Clone NBB7 Cri-du-chat critical region mRNA 178481 LIR9 NM_181879 0.0224 Leukocyte Ig-like receptor 9 54814 SBBI54 NM_138334 0.0224 Hypothetical transmembrane protein SBBI54 147578 RPS12 NM_001016 0.0224 Ribosomal protein S12 139335 SP8 AK056857 0.0224 Sp8 transcription factor 87679 CASP9 NM_001229 0.0224 "Caspase 9, apoptosis-related cysteine protease" 105283 ZCWCC3 NM_015358 0.0224 "Zinc finger, CW-type with coiled-coil domain 3" 75710 MGC33211 AL512748 0.0224 Similar to RIKEN cDNA 4933439B08 gene 145899 MUC3A M55406 0.0224 "Mucin 3A, intestinal" 16842 RNASEH2A NM_006397 0.0225 "Ribonuclease H2, large subunit"

95 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

147863 OTOP2 NM_178160 0.0225 Otopetrin 2 132728 AASDHPPT NM_015423 0.0225 Aminoadipate-semialdehyde dehydrogenase- phosphopantetheinyl transferase 37142 C12orf14 NM_021238 0.0225 Chromosome 12 open reading frame 14 117279 UBE3A NM_000462 0.0225 "Ubiquitin protein ligase E3A (human papilloma virus E6- associated protein, Angelman syndrome)" 33867 HIST1H2BB NM_021062 0.0225 "synonyms: H2B.1, H2B/f, H2BFF; go_component: nucleus [goid 0005634] [evidence IEA]; go_component: chromosome [goid 0005694] [evidence IEA]; go_component: nucleosome [goid 0000786] [evidence NAS] [pmid 9439656]; go_function: DNA binding [goid 0003677] [evidence NAS] [pmid 9439656]; go_process: nucleosome assembly [goid 0006334] [evidence NAS] [pmid 9439656]; go_process: chromosome organization and biogenesis (sensu Eukarya) [goid 0007001] [evidence IEA]; Homo sapiens histone 1, H2bb

(HIST1H2BB), mRNA." http://ard.bmj.com/ 88009 PPT1 NM_000310 0.0225 "Palmitoyl-protein thioesterase 1 (ceroid- lipofuscinosis, neuronal 1, infantile)" 156573 PCDH17 AK001134 0.0225 Hypothetical protein LOC144997 on October 2, 2021 by guest. Protected copyright. 10281 NME4 NM_005009 0.0225 "Non-metastatic cells 4, protein expressed in" 46870 PINK1 NM_032409 0.0225 PTEN induced putative kinase 1 167179 MSL3L1 NM_006800 0.0225 Male-specific lethal 3-like 1 (Drosophila) 37839 C20orf81 NM_022760 0.0225 Chromosome 20 open reading frame 81 156349 LOC284240 AL390159 0.0225 Hypothetical protein LOC284240 95538 NID NM_002508 0.0225 Nidogen (enactin) 26665 ELYS NM_015446 0.0225 ELYS transcription factor-like protein TMBS62 44026 MAK3 NM_025146 0.0225 Mak3 homolog (S. cerevisiae) 63750 NM_153753 0.0226 89044 RPS19 NM_001022 0.0226 Ribosomal protein S19

96 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

74032 FLJ12519 NM_032168 0.0226 Hypothetical protein FLJ12519 88416 FCGR3A NM_000569 0.0226 "Fc fragment of IgG, low affinity IIIb, receptor for (CD16)" 79021 CYP4X1 NM_178033 0.0226 "Cytochrome P450, family 4, subfamily X, polypeptide 1" 14869 GNB2L1 NM_006098 0.0226 "Guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1" 46719 MGC3207 NM_032285 0.0226 Hypothetical protein MGC3207 78084 BC009463 0.0226 "Transcribed locus, moderately similar to XP_376048.1 similar to FKSG60 [Homo sapiens]" 108144 HNRPD NM_002138 0.0226 "Heterogeneous nuclear ribonucleoprotein D (AU-rich element RNA binding protein 1, 37kDa)" 36361 GRIPAP1 NM_020137 0.0226 GRIP1 associated protein 1 158611 AFG3L2 AK022220 0.0226 AFG3 ATPase family gene 3- like 2 (yeast) 53139 DPCD AF264625 0.0226 Deleted in a mouse model of primary ciliary dyskinesia 89994 IL6R NM_000565 0.0226 Interleukin 6 receptor 86995 ATP4A NM_000704 0.0226 "ATPase, H+/K+ exchanging, alpha polypeptide" 50385 MGC14161 NM_032892 0.0226 Hypothetical protein MGC14161 112340 IL28B NM_172139 0.0226 "Interleukin 28B (interferon, lambda 3)" 84542 MUC1 M21868 0.0226 "Mucin 1, transmembrane" http://ard.bmj.com/ 40216 COTL1 NM_021149 0.0226 Coactosin-like 1 (Dictyostelium) 93734 LIG4 NM_002312 0.0226 "Ligase IV, DNA, ATP- dependent" 140070 GHITM NM_014394 0.0226 Growth hormone inducible

transmembrane protein on October 2, 2021 by guest. Protected copyright. 156713 AK092951 0.0226 "CDNA FLJ35632 fis, clone SPLEN2011678" 12925 CTDSPL NM_005808 0.0226 "CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like" 153021 BM563086 0.0226 "Transcribed locus, weakly similar to NP_650255.1 Drosophila melanogaster CG11670 gene" 48854 C20orf100 NM_032883 0.0227 Chromosome 20 open reading frame 100 158792 LOC285086 BC045581 0.0227 Hypothetical protein LOC285086 91666 CTPS NM_001905 0.0228 CTP synthase 72864 FLJ35530 AK092849 0.0228 FLJ35530 protein

97 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

13881 IMP-1 NM_006546 0.0228 IGF-II mRNA-binding protein 1 73619 AK097297 0.0228 "CDNA FLJ39978 fis, clone SPLEN2029380" 18875 OSTM1 NM_014028 0.0228 Osteopetrosis associated transmembrane protein 1 161863 LOC134145 AK000674 0.0228 Hypothetical protein LOC134145 184472 XM_351446 0.0229 8852 TLE3 NM_005078 0.0229 "Transducin-like enhancer of split 3 (E(sp1) homolog, Drosophila)" 41473 ZNF495 NM_024303 0.0229 Zinc finger protein 495 178041 C2orf13 NM_173545 0.0229 Chromosome 2 open reading frame 13 104086 AA775606 0.023 "zf30e02.s1 Soares_fetal_heart_NbHH19 W Homo sapiens cDNA clone IMAGE:378458 3', mRNA sequence." 92301 MAP3K3 NM_002401 0.023 Mitogen-activated protein kinase kinase kinase 3 87643 BFSP1 NM_001195 0.023 "Beaded filament structural protein 1, filensin" 91162 GBAS NM_001483 0.023 Glioblastoma amplified sequence 97855 SLPI NM_003064 0.0231 Secretory leukocyte protease inhibitor (antileukoproteinase) 30484 XM_352956 0.0231 50428 MGC14141 NM_032928 0.0231 Hypothetical protein MGC14141 142995 KNS2 AY180169 0.0232 Kinesin 2 60/70kDa 98426 HIST1H2AK NM_003510 0.0232 "Histone 1, H2ak" http://ard.bmj.com/ 96812 ZNF76 NM_003427 0.0233 Zinc finger protein 76 (expressed in testis) 41083 FLJ11730 NM_022756 0.0233 Hypothetical protein FLJ11730 104223 MTCOX3 0.0233

27787 TLR7 NM_016562 0.0234 Toll-like receptor 7 on October 2, 2021 by guest. Protected copyright. 16424 YAP1 NM_006106 0.0234 "Yes-associated protein 1, 65kDa" 55050 LOC119710 NM_138787 0.0234 Hypothetical protein BC009561 107333 LYRIC N92734 0.0234 LYRIC/3D3 19926 TLK1 NM_012290 0.0235 Tousled-like kinase 1 46982 USP38 NM_032557 0.0235 Ubiquitin specific protease 38 171832 CXYORF1 BC029274 0.0235 Similar to CXYorf1-related protein 44959 DKFZP434K1421 NM_032141 0.0235 Hypothetical protein DKFZp434K1421 89294 CASP7 NM_001227 0.0235 "Caspase 7, apoptosis-related cysteine protease" 136817 IQGAP3 NM_178229 0.0235 IQ motif containing GTPase activating protein 3

98 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

15521 CGREF1 NM_006569 0.0235 Cell growth regulator with EF hand domain 1 16537 ORC2L NM_006190 0.0235 "Origin recognition complex, subunit 2-like (yeast)" 97749 CCL4 NM_002984 0.0235 Chemokine (C-C motif) ligand 4 105883 BBS4 NM_033028 0.0235 Bardet-Biedl syndrome 4 178729 TERF1 NM_003218 0.0236 Telomeric repeat binding factor (NIMA-interacting) 1 153226 BC038532 0.0236 "Transcribed locus, weakly similar to XP_371690.1 hypothetical LOC389202 [Homo sapiens]" 109389 BCL11B NM_022898 0.0236 B-cell CLL/lymphoma 11B (zinc finger protein) 972 RUTBC2 AB075821 0.0236 RUN and TBC1 domain containing 2 10677 GPR7 NM_005285 0.0236 G protein-coupled receptor 7 153267 ZNF331 AK022474 0.0236 Zinc finger protein 331 33255 DUSP22 NM_020185 0.0236 Dual specificity phosphatase 22 120994 DKFZP434N1817 NM_032137 0.0236 Hypothetical protein DKFZp434N1817 23980 YPEL5 NM_016061 0.0236 Yippee-like 5 (Drosophila) 149859 DAAM1 AL050013 0.0237 Dishevelled associated activator of morphogenesis 1 171816 FUT5 NM_002034 0.0237 "Fucosyltransferase 5 (alpha (1,3) fucosyltransferase)" 86134 CHS1 NM_000081 0.0237 Chediak-Higashi syndrome 1 308 KIAA1155 AB032981 0.0237 KIAA1155 protein 121520 CCNA1 NM_003914 0.0238 Cyclin A1 89353 CHC1 NM_001269 0.0238 "RNA, U17D small nucleolar" http://ard.bmj.com/ 158532 XM_291261 0.0238 52882 XM_088565 0.0238 147498 PGLS; 6PGL BC017706 0.0238 "Homo sapiens 6- phosphogluconolactonase, mRNA (cDNA clone IMAGE:4395142), with apparent retained intron." on October 2, 2021 by guest. Protected copyright. 111542 C21orf70 NM_058190 0.0239 Chromosome 21 open reading frame 70 48736 PLXDC2 NM_032812 0.0239 Plexin domain containing 2 68551 AK021623 0.0239 "unnamed protein product; Homo sapiens cDNA FLJ11561 fis, clone HEMBA1003142." 138640 NS NM_014366 0.024 Nucleostemin 62664 JMY NM_152405 0.024 Junction-mediating and regulatory protein 161808 LOC257106 NM_181720 0.024 Hypothetical protein LOC257106 22134 HSPC063 NM_014155 0.0241 HSPC063 protein 87373 RARG XM_352902 0.0241 "synonyms: RARC, NR1B3; retinoic acid receptor, gamma polypeptide; retinoic acid

99 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

receptor gamma-1; go_component: nucleus [goid 0005634] [evidence IEA]; go_function: transcription factor activity [goid 0003700] [evidence IEA]; go_function: steroid hormone receptor activity [goid 0003707] [evidence IEA]; go_function: retinoic acid receptor activity [goid 0003708] [evidence TAS] [pmid 2157970]; go_process: development [goid 0007275] [evidence TAS] [pmid 2157970]; go_process: regulation of transcription, DNA-dependent [goid 0006355] [evidence IEA]; Homo sapiens retinoic acid receptor, gamma (RARG), mRNA." 11452 GPA33 NM_005814 0.0241 Glycoprotein A33 (transmembrane) 26160 SEC24D NM_014822 0.0241 "SEC24 related gene family, member D (S. cerevisiae)" 21427 SEPHS1 NM_012247 0.0242 Selenophosphate synthetase 1 86746 HOXD13 NM_000523 0.0242 Homeo box D13 27056 NOSIP NM_015953 0.0242 Nitric oxide synthase interacting protein 156846 BC046442 0.0242 "Transcribed locus, weakly similar to XP_237211.2

similar to hypothetical protein http://ard.bmj.com/ FLJ40432 [Rattus norvegicus]" 22643 CXXC1 NM_014593 0.0242 CXXC finger 1 (PHD domain) 159221 AK095503 0.0242 "CDNA FLJ38184 fis, clone FCBBF1000157"

14926 LASP1 NM_006148 0.0244 LIM and SH3 protein 1 on October 2, 2021 by guest. Protected copyright. 33764 KIAA1622 NM_020958 0.0244 KIAA1622 98754 PCNA NM_002592 0.0244 Proliferating cell nuclear antigen 86326 IL2RG NM_000206 0.0244 "Interleukin 2 receptor, gamma (severe combined immunodeficiency)" 26759 LRIG1 NM_015541 0.0244 Leucine-rich repeats and immunoglobulin-like domains 1 87824 GP9 NM_000174 0.0244 Glycoprotein IX (platelet) 9828 KLRG1 NM_005810 0.0244 "Killer cell lectin-like receptor subfamily G, member 1" 13293 CD2BP2 NM_006110 0.0245 CD2 antigen (cytoplasmic tail) binding protein 2 71378 AK094159 0.0245 "CDNA FLJ36840 fis, clone ASTRO2011461"

100 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

180497 XM_353229 0.0245 57238 ZNF564 NM_144976 0.0245 Zinc finger protein 564 178981 MAP2K7 NM_005043 0.0245 "synonyms: MKK7, Jnkk2, MAPKK7, PRKMK7; dual specificity mitogen-activated protein kinase kinase 7; c-Jun N-terminal kinase kinase 2; MAP kinase kinase 7; JNK- activating kinase 2; JNK kinase 2; go_function: ATP binding [goid 0005524] [evidence IEA]; go_function: transferase activity [goid 0016740] [evidence IEA]; go_function: MAP kinase kinase activity [goid 0004708] [evidence TAS] [pmid 9535930]; go_function: protein-tyrosine kinase activity [goid 0004713] [evidence IEA]; go_function: protein serine/threonine kinase activity [goid 0004674] [evidence IEA]; go_process: response to stress [goid 0006950] [evidence TAS] [pmid 9535930]; go_process: signal transduction [goid 0007165] [evidence TAS] [pmid 9535930]; go_process: protein amino acid phosphorylation [goid

0006468] [evidence IEA]; http://ard.bmj.com/ Homo sapiens mitogen- activated protein kinase kinase 7 (MAP2K7), mRNA." 88046 ATXN1 NM_000332 0.0246 Ataxin 1 38778 VPS11 NM_021729 0.0246 Vacuolar protein sorting 11 (yeast) 78905 BC025345 0.0246 "MRNA similar to LOC149651 on October 2, 2021 by guest. Protected copyright. (cDNA clone MGC:39393 IMAGE:4862156), complete cds" 7794 ARRB2 NM_004313 0.0246 "Arrestin, beta 2" 110360 FLJ20294 NM_017749 0.0246 Hypothetical protein FLJ20294 99640 TK1 NM_003258 0.0246 "Thymidine kinase 1, soluble" 154042 BC047952 0.0246 Similar to Heat shock protein 67B2 138193 SLC23A3 NM_144712 0.0246 "Solute carrier family 23 (nucleobase transporters), member 3" 12871 SERF2 NM_005770 0.0246 Small EDRK-rich factor 2 99927 DEK NM_003472 0.0247 DEK oncogene (DNA binding) 152209 BC036936 0.0247 "Homo sapiens, clone

101 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

IMAGE:5242357, mRNA" 113374 TACC3 NM_006342 0.0247 "Transforming, acidic coiled- coil containing protein 3" 147076 HSM800000 0.0247 4581 PSCDBP NM_004288 0.0247 "Pleckstrin homology, Sec7 and coiled-coil domains, binding protein" 72392 GPR126 AK075087 0.0247 G protein-coupled receptor 126 16474 GZMA NM_006144 0.0247 "Granzyme A (granzyme 1, cytotoxic T-lymphocyte- associated serine esterase 3)" 79772 HUMPPA NM_014603 0.0247 Paraneoplastic antigen 152450 Y10209 0.0247 CD30L protein 40128 FLJ22222 NM_024648 0.0248 Hypothetical protein FLJ22222 125025 KIAA0590 NM_014714 0.0248 KIAA0590 gene product 76611 FLJ40083 NM_182628 0.0249 Hypothetical protein FLJ40083 155091 ZNF451 AK023072 0.0249 KIAA1702 protein 85557 MGC47816 NM_173642 0.0249 Hypothetical protein MGC47816 77492 MAML2 NM_032427 0.0249 Mastermind-like 2 (Drosophila) 170248 ADD3 NM_016824 0.0249 Adducin 3 (gamma) 74068 XM_087593 0.0249 153446 LOC284788 BC033532 0.025 Hypothetical protein LOC284788 90865 CDK9 NM_001261 0.025 Cyclin-dependent kinase 9 (CDC2-related kinase) 6449 HUS1 NM_004507 0.025 HUS1 checkpoint homolog http://ard.bmj.com/ (S. pombe) 117296 USP9Y NM_004654 0.0251 "Ubiquitin specific protease 9, Y-linked (fat facets-like, Drosophila)" 37140 SELK NM_021237 0.0251 Selenoprotein K 12986 IGSF6 NM_005849 0.0251 "Immunoglobulin superfamily, member 6" on October 2, 2021 by guest. Protected copyright. 38690 PRODH2 NM_021232 0.0251 Proline dehydrogenase (oxidase) 2 15107 TAF10 NM_006284 0.0252 "TAF10 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 30kDa" 174407 HFE NM_139005 0.0252 Hemochromatosis 101847 HNRPH3 NM_012207 0.0252 Heterogeneous nuclear ribonucleoprotein H3 (2H9) 46072 PABPC3 NM_030979 0.0252 "Poly(A) binding protein, cytoplasmic 3" 100225 CST7 NM_003650 0.0252 Cystatin F (leukocystatin) 16137 CLTB NM_007097 0.0252 "Clathrin, light polypeptide (Lcb)" 53446 AF090927 0.0252 "Homo sapiens clone HQ0457 PRO0457 mRNA,

102 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

complete cds." 58108 HINT3 NM_138571 0.0252 Histidine triad nucleotide binding protein 3 55377 FLJ31153 NM_144600 0.0253 Hypothetical protein FLJ31153 154179 RAB11B BC014506 0.0253 "RAB11B, member RAS oncogene family" 80551 LOC222171 NM_175887 0.0253 Hypothetical protein LOC222171 12719 TMPRSS2 NM_005656 0.0254 "Transmembrane protease, serine 2" 160827 XM_097824 0.0255 1690 KIAA1363 NM_020792 0.0255 KIAA1363 protein 40554 PROK2 NM_021935 0.0255 Prokineticin 2 22016 DKFZP586A0522 NM_014033 0.0255 DKFZP586A0522 protein 168770 TNFRSF18 NM_148901 0.0255 "Tumor necrosis factor receptor superfamily, member 18" 115193 LAMA1 NM_005559 0.0255 "Laminin, alpha 1" 7117 DNAH11 NM_003777 0.0255 "Dynein, axonemal, heavy polypeptide 11" 51718 AF116677 0.0255 "predicted protein of HQ1966; Homo sapiens PRO1966 mRNA, complete cds." 22971 KIAA0196 NM_014846 0.0255 KIAA0196 gene product 131702 ARID1B NM_020732 0.0255 AT rich interactive domain 1B (SWI1-like) 145259 WAC NM_016628 0.0256 WW domain containing adaptor with coiled-coil 12471 TOSO NM_005449 0.0256 Regulator of Fas-induced apoptosis 22665 C9orf10 NM_014612 0.0256 Chromosome 9 open reading http://ard.bmj.com/ frame 10 27506 SS18L2 NM_016305 0.0257 Synovial sarcoma translocation gene on chromosome 18-like 2 56030 GPR78 NM_080819 0.0257 G protein-coupled receptor 78 21703 DNAJD1 NM_013238 0.0257 "DnaJ (Hsp40) homolog, subfamily D, member 1" on October 2, 2021 by guest. Protected copyright. 5851 CCBL1 NM_004059 0.0257 "Cysteine conjugate-beta lyase; cytoplasmic (glutamine transaminase K, kyneurenine aminotransferase)" 79785 FKHL18 NM_004118 0.0257 Forkhead-like 18 (Drosophila) 48661 MGC15429 NM_032750 0.0257 Hypothetical protein MGC15429 10375 TLE1 NM_005077 0.0257 "Transducin-like enhancer of split 1 (E(sp1) homolog, Drosophila)" 98976 PRM2 NM_002762 0.0257 Protamine 2 87870 ITGB3 NM_000212 0.0257 "Integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61)" 51071 HTRA3 NM_053044 0.0257 Serine protease HTRA3 129239 LNX2 NM_153371 0.0257 Ligand of numb-protein X 2

103 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

178299 NFATC3 NM_173163 0.0258 "Nuclear factor of activated T- cells, cytoplasmic, calcineurin-dependent 3" 2838 KIAA1033 XM_035313 0.0258 "Homo sapiens KIAA1033 protein (KIAA1033), mRNA." 23398 BCL2L13 NM_015367 0.0258 BCL2-like 13 (apoptosis facilitator) 54918 KIF12 NM_138424 0.0258 Kinesin family member 12 21438 HEY1 NM_012258 0.0258 Hairy/enhancer-of-split related with YRPW motif 1 169532 MS4A1 NM_021950 0.0258 "Membrane-spanning 4- domains, subfamily A, member 1" 92688 GNRH2 NM_001501 0.0259 Gonadotropin-releasing hormone 2 151721 WWOX BC036619 0.0259 WW domain containing oxidoreductase 36188 LKAP NM_019081 0.0259 Limkain b1 149710 PAPPA AK024330 0.0259 "Homo sapiens cDNA FLJ14268 fis, clone PLACE1003383." 78682 RNF149 NM_173647 0.0259 Ring finger protein 149 84203 TRGC2 BC039725 0.0259 T cell receptor gamma constant 2 40307 HTCD37 NM_021222 0.0259 TcD37 homolog 35515 CWF19L1 NM_018294 0.0259 "CWF19-like 1, cell cycle control (S. pombe)" 105327 MRPL11 NM_016050 0.0259 Mitochondrial ribosomal protein L11 29810 FLJ20084 NM_017659 0.0259 Hypothetical protein FLJ20084 94162 FLNA NM_001456 0.0259 "Filamin A, alpha (actin binding protein 280)" http://ard.bmj.com/ 150817 GPC6 AF339813 0.0259 Glypican 6 32614 LRDD NM_018494 0.0259 Leucine-rich repeats and death domain containing 49219 MGC9084 NM_033418 0.0259 Hypothetical protein MGC9084

27751 HAO2 NM_016527 0.0259 Hydroxyacid oxidase 2 (long on October 2, 2021 by guest. Protected copyright. chain) 101516 KCNA6 NM_002235 0.0259 "Potassium voltage-gated channel, shaker-related subfamily, member 6" 124513 RNF14 NM_004290 0.0259 Ring finger protein 14 84682 SGCA NM_000023 0.0259 "Sarcoglycan, alpha (50kDa dystrophin-associated glycoprotein)" 45246 TMC7 NM_024847 0.0259 Transmembrane channel-like 7 36891 GNAO1 NM_020988 0.0259 "Guanine nucleotide binding protein (G protein), alpha activating activity polypeptide O" 100935 AA702674 0.0259 "zi90e01.s1 Soares_fetal_liver_spleen_1N

104 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

FLS_S1 Homo sapiens cDNA clone IMAGE:448056 3' similar to contains Alu repetitive element;, mRNA sequence." 97779 MAP2K4 NM_003010 0.0259 Mitogen-activated protein kinase kinase 4 33351 PDXP NM_020315 0.0259 "Pyridoxal (pyridoxine, vitamin B6) phosphatase" 181247 DNCL2A NM_177954 0.0259 "Dynein, cytoplasmic, light polypeptide 2A" 96856 CHIT1 NM_003465 0.0259 Chitinase 1 (chitotriosidase) 185873 XM_294713 0.0259 174181 SMTN NM_006932 0.0259 Smoothelin 98372 ZNF207 NM_003457 0.0259 Zinc finger protein 207 16190 ZP3 NM_007155 0.026 Zona pellucida glycoprotein 3 (sperm receptor) 26076 BMS1L NM_014753 0.026 "BMS1-like, ribosome assembly protein (yeast)" 37 LDHB NM_002300 0.026 Lactate dehydrogenase B 30529 FLJ10546 NM_018133 0.026 Hypothetical protein FLJ10546 26125 FLJ11383 NM_014801 0.026 Hypothetical protein FLJ11383 99336 SIAT8A NM_003034 0.026 "Sialyltransferase 8A (alpha- N-acetylneuraminate: alpha- 2,8-sialyltransferase, GD3 synthase)" 7096 EIF4G3 NM_003760 0.0261 "Eukaryotic translation initiation factor 4 gamma, 3" 19024 HSPC065 NM_014157 0.0261 HSPC065 protein 93404 GABRR1 NM_002042 0.0261 "Gamma-aminobutyric acid (GABA) receptor, rho 1" http://ard.bmj.com/ 8176 SSA2 NM_004600 0.0261 "Sjogren syndrome antigen A2 (60kDa, ribonucleoprotein autoantigen SS-A/Ro)" 182602 XM_352276 0.0261 12833 ZNF263 NM_005741 0.0261 Zinc finger protein 263

10726 H1F0 NM_005318 0.0261 "H1 histone family, member on October 2, 2021 by guest. Protected copyright. 0" 40166 FLJ12750 NM_024667 0.0261 Hypothetical protein FLJ12750 109155 PPP1R12B NM_032103 0.0261 "Protein phosphatase 1, regulatory (inhibitor) subunit 12B" 82509 BC034020 0.0261 "Homo sapiens cDNA clone IMAGE:4701004, partial cds." 44850 FKSG83 NM_032030 0.0261 FKSG83 100137 CPZ NM_003652 0.0261 Carboxypeptidase Z 3608 LOC126208 XM_058999 0.0261 "Homo sapiens hypothetical protein LOC126208 (LOC126208), mRNA." 28934 ATAD3A NM_018188 0.0262 "ATPase family, AAA domain containing 3A" 12699 SYBL1 NM_005638 0.0262 Synaptobrevin-like 1

105 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

99577 TCEB3 NM_003198 0.0262 "Transcription elongation factor B (SIII), polypeptide 3 (110kDa, elongin A)" 172400 CPR4 AF060515 0.0263 "Homo sapiens cyclin K (CPR4) mRNA, complete cds." 86908 SOD2 NM_000636 0.0263 "Superoxide dismutase 2, mitochondrial" 50326 LACTB NM_032857 0.0263 "Lactamase, beta" 124832 FLJ20481 NM_017839 0.0263 Hypothetical protein FLJ20481 24337 JMJD2A NM_014663 0.0263 Jumonji domain containing 2A 33777 MOV10 NM_020963 0.0263 "Mov10, Moloney leukemia virus 10, homolog (mouse)" 33163 KCMF1 NM_020122 0.0263 Potassium channel modulatory factor 1 148993 AK096143 0.0263 "CDNA FLJ38824 fis, clone LIVER2008945" 99376 SLC19A1 NM_003056 0.0263 "Solute carrier family 19 (folate transporter), member 1" 22294 PES1 NM_014303 0.0263 "Pescadillo homolog 1, containing BRCT domain (zebrafish)" 183165 XM_171495 0.0263 70179 SLITRK6 AK021931 0.0263 "SLIT and NTRK-like family, member 6" 26091 SCRN1 NM_014766 0.0263 Secernin 1 116462 ALDH3A1 NM_000691 0.0263 "Aldehyde dehydrogenase 3 family, memberA1" 42 DAAM2 NM_015345;NM_000991 0.0264 Dishevelled associated activator of morphogenesis 2; Ribosomal protein L28 http://ard.bmj.com/ 31630 CDKAL1 NM_017774 0.0264 CDK5 regulatory subunit associated protein 1-like 1 117474 PLEKHB2 NM_017958 0.0264 "Pleckstrin homology domain containing, family B (evectins) member 2"

1720 CSGlcA-T AB037823 0.0264 Chondroitin sulfate on October 2, 2021 by guest. Protected copyright. glucuronyltransferase 30382 FLJ10276 NM_018045 0.0264 Hypothetical protein FLJ10276 55797 KIAA1190 NM_145166 0.0264 Hypothetical protein KIAA1190 47462 HIAT1 NM_033055 0.0265 Hippocampus abundant transcript 1 9905 PAK4 NM_005884 0.0265 P21(CDKN1A)-activated kinase 4 48952 GAL3ST3 NM_033036 0.0265 Galactose-3-O- sulfotransferase 3 8020 FUT8 NM_004480 0.0265 "Fucosyltransferase 8 (alpha (1,6) fucosyltransferase)" 19774 FBXL3 NM_012158 0.0265 F-box and leucine-rich repeat protein 3 87354 PTGER4 NM_000958 0.0265 Prostaglandin E receptor 4

106 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

(subtype EP4) 141538 FLJ25328 NM_152483 0.0265 Hypothetical protein FLJ25328 55545 FLJ25449 NM_144714 0.0265 Hypothetical protein MGC27069 68363 EHBP1L1 AJ404607 0.0265 EH domain binding protein 1- like 1 60448 PP3856 NM_145201 0.0265 Similar to CG3714 gene product 16234 SUPT16H NM_007192 0.0266 Suppressor of Ty 16 homolog (S. cerevisiae) 36707 PELI1 NM_020651 0.0266 Pellino homolog 1 (Drosophila) 26624 EP400 NM_015409 0.0266 E1A binding protein p400 87033 CACNB4 NM_000726 0.0266 "Calcium channel, voltage- dependent, beta 4 subunit" 63047 DCP1B NM_152640 0.0267 Decapping enzyme hDcp1b 61930 RNF3 NM_153250 0.0267 "synonyms: DONG1, RNF3A, FLJ36550, MGC40413; go_component: ubiquitin ligase complex [goid 0000151] [evidence IEA]; go_function: zinc ion binding [goid 0008270] [evidence IEA]; go_function: ubiquitin- protein ligase activity [goid 0004842] [evidence IEA]; go_process: protein ubiquitination [goid 0016567] [evidence IEA]; Homo sapiens ring finger protein 3 (RNF3), mRNA." 82249 C14orf27 NM_175060 0.0267 Chromosome 14 open http://ard.bmj.com/ reading frame 27 98835 PIM1 NM_002648 0.0267 Pim-1 oncogene 86167 CPT2 NM_000098 0.0268 Carnitine palmitoyltransferase II 17197 HCP5 NM_006674 0.0268 HLA complex P5

59300 MGC32020 NM_152266 0.0268 Hypothetical protein on October 2, 2021 by guest. Protected copyright. MGC32020 42587 LY6G5C NM_025262 0.0268 "Lymphocyte antigen 6 complex, locus G5C" 21887 LASS2 NM_013384 0.0268 LAG1 longevity assurance homolog 2 (S. cerevisiae) 9461 IFNGR2 NM_005534 0.0268 Interferon gamma receptor 2 (interferon gamma transducer 1) 18958 ATAD2 NM_014109 0.0268 "ATPase family, AAA domain containing 2" 71329 AK093659 0.0269 Similar to Peptidyl-prolyl cis- trans isomerase E (PPIase E) (Rotamase E) (Cyclophilin E) (Cyclophilin 33) 46431 CCNB1 NM_031966 0.0269 Cyclin B1 99019 PSMB2 NM_002794 0.0269 "Proteasome (prosome,

107 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

macropain) subunit, beta type, 2" 129955 JJAZ1 NM_015355 0.027 Joined to JAZF1 84254 KIAA0143 XM_035825 0.027 KIAA0143 protein 13992 MTHFD2 NM_006636 0.027 "Methylene tetrahydrofolate dehydrogenase (NAD+ dependent), methenyltetrahydrofolate cyclohydrolase" 49984 DGAT2 NM_032564 0.027 Diacylglycerol O- acyltransferase homolog 2 (mouse) 11877 NDUFB9 NM_005005 0.0271 "NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 9, 22kDa" 87440 ANK2 NM_001029 0.0271 "Ankyrin 2, neuronal" 36828 ZBTB2 NM_020861 0.0271 Zinc finger and BTB domain containing 2 115773 AES NM_001130 0.0271 Amino-terminal enhancer of split 146042 HMGB1 AF283771 0.0271 High-mobility group box 1 91873 GFAP NM_002055 0.0272 Glial fibrillary acidic protein 91392 ATP5D NM_001687 0.0272 "ATP synthase, H+ transporting, mitochondrial F1 complex, delta subunit" 126725 MARK1 NM_018650 0.0272 MAP/microtubule affinity- regulating kinase 1 70022 LOC220929 AK095436 0.0272 Hypothetical protein LOC220929 23468 HOM-TES-103 NM_015438 0.0272 HOM-TES-103 tumor antigen- like 16839 NOL5A NM_006392 0.0273 Nucleolar protein 5A (56kDa with KKE/D repeat) http://ard.bmj.com/ 26875 ATP5S NM_015684 0.0273 "ATP synthase, H+ transporting, mitochondrial F0 complex, subunit s (factor B)" 1636 TLE4 AB033087 0.0273 "Transducin-like enhancer of split 4 (E(sp1) homolog,

Drosophila)" on October 2, 2021 by guest. Protected copyright. 92987 CANX NM_001746 0.0273 Calnexin 63448 FLJ37078 NM_153043 0.0273 Hypothetical protein FLJ37078 7106 BECN1 NM_003766 0.0273 "Beclin 1 (coiled-coil, myosin- like BCL2 interacting protein)" 80294 BC022342 0.0274 160157 LOC283270 AK091052 0.0274 Hypothetical protein LOC283270 25855 UBXD2 NM_014607 0.0274 UBX domain containing 2 105317 SYTL2 NM_032379 0.0274 Synaptotagmin-like 2 11071 KARS NM_005548 0.0274 Lysyl-tRNA synthetase 73988 DHX29 NM_019030 0.0274 DEAH (Asp-Glu-Ala-His) box polypeptide 29 124525 P2RX7 NM_002562 0.0274 "Purinergic receptor P2X, ligand-gated ion channel, 7" 184029 XM_292989 0.0274

108 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

68872 FLJ31222 AK055784 0.0274 FLJ31222 protein 103958 AA412739 0.0275 Transcribed locus 175264 LACTB NM_171846 0.0275 "Lactamase, beta" 83662 FLJ35834 NM_178827 0.0275 Hypothetical protein FLJ35834 93292 EIF4A2 NM_001967 0.0275 "Eukaryotic translation initiation factor 4A, isoform 2" 31972 FLJ10199 NM_018022 0.0275 Hypothetical protein FLJ10199 94083 DPH2L2 NM_001384 0.0275 DPH2-like 2 (S. cerevisiae) 27606 C20orf43 NM_016407 0.0275 Chromosome 20 open reading frame 43 7454 CDH16 NM_004062 0.0275 "Cadherin 16, KSP-cadherin" 38874 FKBP10 NM_021939 0.0276 "FK506 binding protein 10, 65 kDa" 113116 M6PR NM_002355 0.0276 Mannose-6-phosphate receptor (cation dependent) 162729 C2orf3 AL157503 0.0277 Chromosome 2 open reading frame 3 165828 PURA NM_005859 0.0277 Purine-rich element binding protein A 89255 BMP2 NM_001200 0.0277 Bone morphogenetic protein 2 12391 PCMT1 NM_005389 0.0277 Protein-L-isoaspartate (D- aspartate) O- methyltransferase 50367 STS-1 NM_032873 0.0277 Nm23-phosphorylated unknown substrate 156650 AK025305 0.0277 "CDNA: FLJ21652 fis, clone COL08582" 32499 FOXJ2 NM_018416 0.0277 Forkhead box J2 161053 AK094718 0.0277 "Transcribed locus, weakly http://ard.bmj.com/ similar to XP_375099.1 hypothetical protein LOC283585 [Homo sapiens]" 106219 G1P3 NM_002038 0.0278 "Interferon, alpha-inducible protein (clone IFI-6-16)" 156876 AL832858 0.0278 MRNA; cDNA DKFZp667A182 (from clone on October 2, 2021 by guest. Protected copyright. DKFZp667A182) 129823 CKLFSF2 NM_144673 0.0278 Chemokine-like factor super family 2 133876 PORIMIN NM_052932 0.0279 Pro-oncosis receptor inducing membrane injury gene 158099 LOC150837 AK092497 0.0279 Hypothetical gene supported by BC062774 85457 FLJ13105 BC037529 0.0279 Hypothetical protein FLJ13105 7148 C19orf2 NM_003796 0.0279 Chromosome 19 open reading frame 2 8655 CD8B1 NM_004931 0.0279 "CD8 antigen, beta polypeptide 1 (p37)" 181915 XM_352503 0.0279 79860 FCHO2 BC014311 0.0279 FCH domain only 2 75179 FLJ40288 NM_173682 0.0279 Hypothetical protein

109 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

FLJ40288 45250 NM_024849 0.028 94394 ARF3 NM_001659 0.028 ADP-ribosylation factor 3 81574 BC019715 0.028 "Homo sapiens, clone IMAGE:4931423, mRNA, partial cds" 87907 LIPC NM_000236 0.028 "Lipase, hepatic" 152241 BC015434 0.028 "Homo sapiens, clone IMAGE:4414697, mRNA" 175029 DIO2 NM_000793 0.028 "Deiodinase, iodothyronine, type II" 138634 RFT1 NM_052859 0.028 Putative endoplasmic reticulum multispan transmembrane protein 32277 FLJ10853 NM_018246 0.028 Hypothetical protein FLJ10853 118205 DKFZP564F0522 XM_043885 0.0281 "Homo sapiens DKFZP564F0522 protein (DKFZP564F0522), mRNA." 93052 CDA NM_001785 0.0281 Cytidine deaminase 31173 RKHD2 NM_016626 0.0282 Ring finger and KH domain containing 2 117548 RUNX3 NM_004350 0.0282 Runt-related transcription factor 3 40731 CDW92 NM_022109 0.0282 CDW92 antigen 142940 U2AF1L1 NM_005083 0.0282 U2(RNU2) small nuclear RNA auxillary factor 1-like 1 21894 SLC25A24 NM_013386 0.0282 "Solute carrier family 25 (mitochondrial carrier; phosphate carrier), member 24" 141986 RBPSUH NM_015874 0.0282 Recombining binding protein suppressor of hairless http://ard.bmj.com/ (Drosophila) 78945 MGC23909 NM_174909 0.0283 Hypothetical protein MGC23909 7977 ERH NM_004450 0.0283 Enhancer of rudimentary homolog (Drosophila)

147933 IRAK1BP1 AK098678 0.0283 Interleukin-1 receptor- on October 2, 2021 by guest. Protected copyright. associated kinase 1 binding protein 1 45099 ZNF408 NM_024741 0.0283 Zinc finger protein 408 98447 HIST2H2BE NM_003528 0.0284 "Histone 2, H2be" 49390 MGC10715 NM_052881 0.0284 "synonyms: FLJ39592, MGC20504, dJ734P14.5; go_component: nucleus [goid 0005634] [evidence IEA]; go_component: intracellular [goid 0005622] [evidence IEA]; go_function: zinc ion binding [goid 0008270] [evidence IEA]; go_function: nucleic acid binding [goid 0003676] [evidence IEA]; go_process: regulation of

110 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

transcription, DNA-dependent [goid 0006355] [evidence IEA]; Homo sapiens novel C2H2 type zinc finger protein (MGC10715), mRNA." 185788 XM_353468 0.0284 103938 GNB5 H08753 0.0284 "Guanine nucleotide binding protein (G protein), beta 5" 180322 XM_353115 0.0284 31846 C14orf10 NM_017917 0.0284 Chromosome 14 open reading frame 10 61136 C10orf13 NM_152429 0.0285 Chromosome 10 open reading frame 13 97299 PKM2 NM_002654 0.0285 "Pyruvate kinase, muscle" 89648 PLA2G2A NM_000300 0.0285 "Phospholipase A2, group IIA (platelets, synovial fluid)" 56492 CCDC5 NM_138443 0.0285 "Neural precursor cell expressed, developmentally down-regulated 4-like" 125160 SLC4A1 NM_000342 0.0285 "Solute carrier family 4, anion exchanger, member 1 (erythrocyte membrane protein band 3, Diego blood group)" 32953 KIAA1128 NM_018999 0.0285 KIAA1128 28842 FLJ10496 NM_018114 0.0285 Hypothetical protein FLJ10496 84937 BC032569 0.0285 "Transcribed locus, moderately similar to NP_858931.1 NFS1 nitrogen fixation 1 (S. cerevisiae) [Homo sapiens]" 99760 UCN NM_003353 0.0285 Urocortin http://ard.bmj.com/ 80082 BC017967 0.0285 "Transcribed locus, weakly similar to NP_002112.3 major histocompatibility complex, class II, DP beta 1 [Homo sapiens]"

29783 BNC2 NM_017637 0.0285 Basonuclin 2 on October 2, 2021 by guest. Protected copyright. 48274 CHCHD6 NM_032343 0.0286 Coiled-coil-helix-coiled-coil- helix domain containing 6 107218 LOC91137 H11501 0.0286 Hypothetical protein BC017169 84735 C3 NM_000064 0.0286 Complement component 3 173651 KCNN2 NM_021614 0.0286 "Potassium intermediate/small conductance calcium- activated channel, subfamily N, member 2" 25190 DKFZP434O047 NM_015594 0.0287 DKFZP434O047 protein 5247 C5orf13 NM_004772 0.0287 Chromosome 5 open reading frame 13 49477 ODC-p NM_052998 0.0287 Ornithine decarboxylase-like 25927 NM_014664 0.0287 52260 AF054589 0.0287

111 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

97175 ORC4L NM_002552 0.0287 "Origin recognition complex, subunit 4-like (yeast)" 26632 C20orf28 NM_015417 0.0287 Chromosome 20 open reading frame 28 7166 HRK NM_003806 0.0287 "Harakiri, BCL2 interacting protein (contains only BH3 domain)" 159187 LOC285797 AL831931 0.0288 Hypothetical gene supported by AL831931 23506 TAZ NM_015472 0.0289 Transcriptional co-activator with PDZ-binding motif (TAZ) 37514 FKBPL NM_022110 0.0289 FK506 binding protein like 132294 HSLIP2B_488 0.0289 93208 CTNNA1 NM_001903 0.0289 "Catenin (cadherin-associated protein), alpha 1, 102kDa" 56686 OACT2 NM_138799 0.0289 O-acyltransferase (membrane bound) domain containing 2 30731 FLJ10925 NM_018275 0.0289 Hypothetical protein FLJ10925 24106 SUFU NM_016169 0.0289 Suppressor of fused homolog (Drosophila) 85163 BC034574 0.0289 Similar to Striatin 57795 SHANK2 NM_133266 0.0289 SH3 and multiple ankyrin repeat domains 2 153177 PHEX AK095185 0.0291 "Phosphate regulating endopeptidase homolog, X- linked (hypophosphatemia, vitamin D resistant rickets)" 20050 PRND NM_012409 0.0291 Prion protein 2 (dublet) 35665 FLJ11342 NM_018394 0.0291 Hypothetical protein FLJ11342 107026 XRN1 AL117516 0.0291 5'-3' exoribonuclease 1 96602 TNR NM_003285 0.0291 "Tenascin R (restrictin, http://ard.bmj.com/ janusin)" 28220 PC-LKC NM_017675 0.0291 Protocadherin LKC 11004 HLA-B NM_005514 0.0291 "Major histocompatibility complex, class I, B" 72167 AK056895 0.0293 Hypothetical gene supported by AK056895 on October 2, 2021 by guest. Protected copyright. 97694 RING1 NM_002931 0.0294 Ring finger protein 1 99845 NM_003417 0.0294 151530 AK024898 0.0294 "CDNA: FLJ21245 fis, clone COL01184" 1390 SIPA1L3 XM_032278 0.0294 Signal-induced proliferation- associated 1 like 3 164442 WBSCR21 NM_031295 0.0294 Williams Beuren syndrome chromosome region 21 50317 FLJ14827 NM_032848 0.0294 Hypothetical protein FLJ14827 10321 PRCP NM_005040 0.0294 Prolylcarboxypeptidase (angiotensinase C) 61908 NM_153237 0.0295 27460 SELT NM_016275 0.0295 Selenoprotein T 114704 P2RXL1 NM_005446 0.0295 "Purinergic receptor P2X-like

112 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

1, orphan receptor" 90241 CYP7A1 NM_000780 0.0295 "Cytochrome P450, family 7, subfamily A, polypeptide 1" 168813 TIAL1 NM_003252 0.0295 TIA1 cytotoxic granule- associated RNA binding protein-like 1 110093 SOX21 NM_007084 0.0295 SRY (sex determining region Y)-box 21 26247 DCL-1 NM_014880 0.0295 Type I transmembrane C-type lectin receptor DCL-1 77825 STK4 BC005231 0.0295 Serine/threonine kinase 4 151266 ZNF407 AK024882 0.0295 Zinc finger protein 407 55246 LOC92346 NM_139240 0.0295 LOC92346 24913 NEDD4L NM_015277 0.0296 "Neural precursor cell expressed, developmentally down-regulated 4-like" 47887 SORCS1 NM_052918 0.0296 Sortilin-related VPS10 domain containing receptor 1 71884 LOC92017 AK024473 0.0296 Similar to RIKEN cDNA 4933437K13 17678 KPTN NM_007059 0.0296 Kaptin (actin binding protein) 94263 TLX2 NM_001534 0.0296 "T-cell leukemia, homeobox 2" 147568 FCGR3A NM_000570 0.0297 "Fc fragment of IgG, low affinity IIIb, receptor for (CD16)" 50835 HLA-DPA1 NM_033554 0.0297 "Major histocompatibility complex, class II, DP alpha 1" 12691 SMO NM_005631 0.0297 Smoothened homolog (Drosophila) 179821 SSX2 NM_175698 0.0297 "Synovial sarcoma, X breakpoint 2" 96080 RENT1 NM_002911 0.0297 Regulator of nonsense http://ard.bmj.com/ transcripts 1 11827 HMGN1 NM_004965 0.0298 High-mobility group nucleosome binding domain 1 185726 na XM_059256 0.0298 Hypothetical LOC128499 34168 RNF130 NM_018434 0.0298 Ring finger protein 130 120139 BTBD5 NM_017658 0.0298 BTB (POZ) domain containing on October 2, 2021 by guest. Protected copyright. 5 47535 CGB7 NM_033142 0.0298 "Chorionic gonadotropin, beta polypeptide 7" 148320 BC016962 0.0298 "Homo sapiens, clone IMAGE:4214654, mRNA" 11673 ZBTB16 NM_006006 0.0298 Zinc finger and BTB domain containing 16 148417 BC038757 0.0298 "Homo sapiens, clone IMAGE:5269899, mRNA" 50403 PTPN11 NM_032904 0.0299 "synonyms: CFC, NS1, SHP2, BPTP3, PTP2C, PTP- 1D, PRO1847, SH-PTP2, SH- PTP3, MGC14433; Noonan syndrome 1; protein-tyrosine phosphatase 2C; go_function: hydrolase activity [goid

113 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

0016787] [evidence IEA]; go_function: protein binding [goid 0005515] [evidence IPI] [pmid 10209036]; go_function: non-membrane spanning protein tyrosine phosphatase activity [goid 0004726] [evidence TAS] [pmid 7681589]; go_process: perception of sound [goid 0007605] [evidence IEA]; go_process: intracellular signaling cascade [goid 0007242] [evidence IEA]; go_process: protein amino acid dephosphorylation [goid 0006470] [evidence IEA]; Homo sapiens protein tyrosine phosphatase, non- receptor type 11 (Noonan syndrome 1) (PTPN11), mRNA." 97016 SMARCA5 NM_003601 0.0299 "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5" 167342 NUP98 NM_005387 0.0299 Nucleoporin 98kDa 86557 UROD NM_000374 0.0299 Uroporphyrinogen decarboxylase 140007 CAMK1D NM_020397 0.03 Calcium/calmodulin- dependent protein kinase ID 58960 MOBKL2C NM_145279 0.0301 "MOB1, Mps One Binder

kinase activator-like 2C http://ard.bmj.com/ (yeast)" 91003 DKC1 NM_001363 0.0301 "Dyskeratosis congenita 1, dyskerin" 60849 TAS1R2 NM_152232 0.0301 "synonyms: TR2, T1R2, GPR71; G protein-coupled receptor 71; go_component: on October 2, 2021 by guest. Protected copyright. membrane [goid 0016020] [evidence IEA]; go_function: receptor activity [goid 0004872] [evidence IEA]; go_function: metabotropic glutamate, GABA-B-like receptor activity [goid 0008067] [evidence IEA]; Homo sapiens taste receptor, type 1, member 2 (TAS1R2), mRNA." 145491 APBB1 NM_001164 0.0301 "Amyloid beta (A4) precursor protein-binding, family B, member 1 (Fe65)" 50180 NM_032746 0.0301 167470 NRG1 NM_013961 0.0301 Neuregulin 1

114 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

41716 C14orf139 NM_024633 0.0301 Chromosome 14 open reading frame 139 154983 AK022335 0.0302 "CDNA FLJ12273 fis, clone MAMMA1001671" 84819 EPOR NM_000121 0.0303 Erythropoietin receptor 27990 CECR1 NM_017424 0.0303 "Cat eye syndrome chromosome region, candidate 1" 25306 COL5A3 NM_015719 0.0304 "Collagen, type V, alpha 3" 11347 RASGRP1 NM_005739 0.0304 RAS guanyl releasing protein 1 (calcium and DAG- regulated) 78281 BC012753 0.0304 "CDNA clone IMAGE:3625232, partial cds" 65870 C20orf70 XM_114180 0.0304 "synonyms: SPLUNC2, bA49G10.1; short palate, lung and nasal epithelium carcinoma associated 2; parotid secretory protein; go_function: lipid binding [goid 0008289] [evidence IEA]; Homo sapiens chromosome 20 open reading frame 70 (C20orf70), mRNA." 20029 SERPINB13 NM_012397 0.0304 "Serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 13" 150039 BC039528 0.0304 "Homo sapiens, clone IMAGE:5742085, mRNA" 93120 CCR7 NM_001838 0.0304 Chemokine (C-C motif) receptor 7 119166 BTN2A2 NM_006995 0.0305 "Butyrophilin, subfamily 2, member A2" http://ard.bmj.com/ 50432 C7orf35 NM_032936 0.0305 Chromosome 7 open reading frame 35 43382 ZRANB3 NM_032143 0.0305 "Zinc finger, RAN-binding domain containing 3" 70969 PAN3 NM_175854 0.0305 PABP1-dependent poly A-

specific ribonuclease subunit on October 2, 2021 by guest. Protected copyright. PAN3 105127 SEC23B NM_006363 0.0306 Sec23 homolog B (S. cerevisiae) 9675 TSSC4 NM_005706 0.0306 Tumor suppressing subtransferable candidate 4 5337 NCR2 NM_004828 0.0306 Natural cytotoxicity triggering receptor 2 82831 MOBKL1A NM_173468 0.0306 "MOB1, Mps One Binder kinase activator-like 1A (yeast)" 28189 AFTIPHILIN NM_017657 0.0306 Aftiphilin protein 30503 C9orf87 NM_018112 0.0306 Chromosome 9 open reading frame 87 80059 BC017721 0.0306 "Homo sapiens, clone IMAGE:4429392, mRNA, partial cds"

115 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

46519 L3MBTL NM_032107 0.0306 L(3)mbt-like (Drosophila) 35914 ZNF313 NM_018683 0.0306 Zinc finger protein 313 181914 XM_353470 0.0306 135448 EIF4A2 NM_001967 0.0306 "Eukaryotic translation initiation factor 4A, isoform 2" 42054 ACTR5 NM_024855 0.0307 ARP5 actin-related protein 5 homolog (yeast) 171703 SOX1 NM_005986 0.0307 SRY (sex determining region Y)-box 1 109884 AF217973 0.0307 Homo sapiens clone PP1345 unknown mRNA. 85134 LOC147965 NM_174905 0.0307 Hypothetical protein LOC147965 46082 FLJ12525 NM_031206 0.0308 Hypothetical protein FLJ12525 40924 C7orf2 NM_022458 0.0308 Chromosome 7 open reading frame 2 156354 LOC146517 BX537575 0.0308 Hypothetical protein LOC146517 21652 SYNGR4 NM_012451 0.0308 Synaptogyrin 4 117217 SGTB NM_019072 0.0308 "Small glutamine-rich tetratricopeptide repeat (TPR)-containing, beta" 18555 MKLN1 NM_013255 0.0308 "Muskelin 1, intracellular mediator containing kelch motifs" 185096 XM_351861 0.0308 11149 CLDN11 NM_005602 0.0308 Claudin 11 (oligodendrocyte transmembrane protein) 29893 XM_352946 0.0309 132489 MAWBP AK092826 0.0309 MAWD binding protein 15940 MYO9A NM_006901 0.0309 Myosin IXA http://ard.bmj.com/ 107904 USP9X NM_004652 0.0309 "Ubiquitin specific protease 9, X-linked (fat facets-like, Drosophila)" 70568 Beta4GalNAc-T4 NM_178537 0.0309 "Beta1,4-N- acetylgalactosaminyltransfera ses IV" 151330 MAP4K4 AF085826 0.0309 Mitogen-activated protein on October 2, 2021 by guest. Protected copyright. kinase kinase kinase kinase 4 56953 SPOCD1 NM_144569 0.0309 SPOC domain containing 1 180512 na XM_294723 0.0309 Hypothetical LOC338825 26182 KIAA0563 NM_014834 0.0309 KIAA0563 gene product 182723 FLJ39963 NM_182633 0.0309 Hypothetical protein FLJ39963 131972 PCTK1 NM_006201 0.031 PCTAIRE protein kinase 1 92546 DRG2 NM_001388 0.031 Developmentally regulated GTP binding protein 2 82289 BC031977 0.031 "Similar to zinc finger protein 91 (HPF7, HTF10)" 57724 MADCAM1 NM_130762 0.031 Mucosal vascular addressin cell adhesion molecule 1 30009 FLJ20397 NM_017802 0.031 Hypothetical protein FLJ20397

116 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

49993 RNASE7 NM_032572 0.031 "Ribonuclease, RNase A family, 7" 71042 AK091978 0.031 "CDNA FLJ34659 fis, clone KIDNE2018863" 182953 XM_352994 0.031 26764 DKFZP564K1964 NM_015544 0.031 DKFZP564K1964 protein 125364 TOP1 NM_003286 0.031 Topoisomerase (DNA) I 100453 NM_015870 0.031 39718 STAG3 NM_024070 0.031 Stromal antigen 3 9221 LCK NM_005356 0.0311 Lymphocyte-specific protein tyrosine kinase 123863 KIAA1008 NM_014953 0.0311 KIAA1008 8725 LIMS1 NM_004987 0.0311 LIM and senescent cell antigen-like domains 1 59707 GPR155 NM_152529 0.0311 G protein-coupled receptor 155 29011 CNDP2 NM_018235 0.0311 CNDP dipeptidase 2 (metallopeptidase M20 family) 43196 C1QTNF2 NM_031908 0.0311 C1q and tumor necrosis factor related protein 2 14251 ZAP128 NM_006821 0.0312 Peroxisomal long-chain acyl- coA thioesterase 20766 NM_014274 0.0312 101963 CAMKK2 NM_006549 0.0312 "Calcium/calmodulin- dependent protein kinase kinase 2, beta" 654 KIAA1764 AB051551 0.0313 KIAA1764 protein 51748 AF119843 0.0313 "predicted protein of HQ1085; Homo sapiens PRO1085 mRNA, complete cds." 119739 HELB NM_033647 0.0313 Helicase (DNA) B 17142 ZNF266 NM_006631 0.0313 Zinc finger protein 266 http://ard.bmj.com/ 152942 AK094343 0.0313 "CDNA FLJ37024 fis, clone BRACE2010837" 45929 LOC81558 NM_030802 0.0313 C/EBP-induced protein 16375 CBARA1 NM_006077 0.0313 Calcium binding atopy-related autoantigen 1 37389 NR0B2 NM_021969 0.0313 "Nuclear receptor subfamily 0, group B, member 2" on October 2, 2021 by guest. Protected copyright. 112118 GTF2IRD2 NM_032203 0.0314 "synonyms: FLJ21423, GTF2IRD2A; GTF2IRD2 alpha; general transcription factor II i repeat domain 2 alpha; go_component: nucleus [goid 0005634] [evidence IEA]; go_function: zinc ion binding [goid 0008270] [evidence IEA]; go_function: nucleic acid binding [goid 0003676] [evidence IEA]; Homo sapiens GTF2I repeat domain containing 2 (GTF2IRD2), mRNA." 102447 ABCC9 NM_020297 0.0314 "ATP-binding cassette, sub-

117 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

family C (CFTR/MRP), member 9" 7778 ANXA13 NM_004306 0.0314 Annexin A13 12371 MYCL1 NM_005376 0.0314 "V-myc myelocytomatosis viral oncogene homolog 1, lung carcinoma derived (avian)" 60287 CRI2 NM_153232 0.0314 CREBBP/EP300 inhibitor 2 54790 ATM NM_138293 0.0314 "Ataxia telangiectasia mutated (includes complementation groups A, C and D)" 13673 UBD NM_006398 0.0314 Ubiquitin D 33770 KIAA1627 NM_020961 0.0314 KIAA1627 protein 95321 LRP3 NM_002333 0.0314 Low density lipoprotein receptor-related protein 3 155652 KPNA3 AL137645 0.0314 Karyopherin alpha 3 (importin alpha 4) 132480 RGR NM_002921 0.0314 Retinal G protein coupled receptor 39501 FLJ12442 NM_022908 0.0314 Hypothetical protein FLJ12442 13281 PIAS3 NM_006099 0.0314 "Protein inhibitor of activated STAT, 3" 23792 EDD NM_015902 0.0315 E3 identified by differential display 25426 CGI-09 NM_015939 0.0315 CGI-09 protein 26 M24537 0.0316 43198 CSDUFD1 NM_031919 0.0316 Cystatin and DUF19 domain containing 1 41699 XM_351837 0.0316 138536 WDR43 XM_087089 0.0317 WD repeat domain 43 http://ard.bmj.com/ 88374 SFTPB NM_000542 0.0317 "Surfactant, pulmonary- associated protein B" 119182 BTN3A3 NM_006994 0.0318 "Butyrophilin, subfamily 3, member A3" 99813 XPO1 NM_003400 0.0318 "Exportin 1 (CRM1 homolog, yeast)" 98602 ITGA10 NM_003637 0.0318 "Integrin, alpha 10" on October 2, 2021 by guest. Protected copyright. 119538 NR1D1 NM_021724 0.0318 "Nuclear receptor subfamily 1, group D, member 1" 173554 HUMGT198A NM_013290 0.0318 "GT198, complete ORF" 171590 AK057861 0.0318 "unnamed protein product; Homo sapiens cDNA FLJ25132 fis, clone CBR06774." 75702 LRRN3 NM_018334 0.0318 Leucine rich repeat neuronal 3 56703 FAM3D NM_138805 0.0318 "Family with sequence similarity 3, member D" 14846 TUBB5 NM_006087 0.0318 "Tubulin, beta, 5" 61096 GRPEL2 NM_152407 0.0318 "GrpE-like 2, mitochondrial (E. coli)" 52375 LOC220869 AF068294 0.0318 Dopamine responsive protein

118 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

14523 U1SNRNPBP NM_007020 0.0318 U11/U12 snRNP 35K 111790 Zep-2 NM_032186 0.0319 Zinc finger motif enhancer binding protein 2 9489 LGALS3BP NM_005567 0.0319 "Lectin, galactoside-binding, soluble, 3 binding protein" 146159 MDS025 AY092059 0.0319 Hypothetical protein MDS025 6367 ETFDH NM_004453 0.0319 Electron-transferring- flavoprotein dehydrogenase 85584 POLD3 XM_166243 0.0319 "synonyms: P66, P68, KIAA0039; DNA polymerase delta, subunit 3; go_component: nucleus [goid 0005634] [evidence IEA]; go_component: delta DNA polymerase complex [goid 0005659] [evidence NAS] [pmid 10219083]; go_function: DNA binding [goid 0003677] [evidence IC] [pmid 10219083]; go_function: delta DNA polymerase activity [goid 0003891] [evidence NAS] [pmid 10219083]; go_process: mismatch repair [goid 0006298] [evidence NAS] [pmid 9099749]; go_process: DNA synthesis during DNA repair [goid 0000731] [evidence NAS] [pmid 7910606]; Homo sapiens polymerase (DNA-

directed), delta 3, accessory http://ard.bmj.com/ subunit (POLD3), mRNA." 128846 CCNJ NM_019084 0.0319 Cyclin J 59287 MGC17943 NM_152261 0.032 Hypothetical protein MGC17943 56519 LOC116238 NM_138463 0.032 Hypothetical protein BC014072 on October 2, 2021 by guest. Protected copyright. 71599 ALCAT1 AK095284 0.032 "unnamed protein product; Homo sapiens cDNA FLJ37965 fis, clone CTONG2009844." 37569 CARD15 NM_022162 0.032 "Caspase recruitment domain family, member 15" 63020 XM_171149 0.032 137813 ARL5 NM_012097 0.032 ADP-ribosylation factor-like 5 1080 GART AF008655 0.032 "Phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazol e synthetase" 58102 C6orf142 NM_138569 0.032 Chromosome 6 open reading frame 142

119 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

146863 XM_291219 0.032 62129 MGC21518 NM_145274 0.032 Hypothetical protein MGC21518 155701 DR1 AL832786 0.032 "Down-regulator of transcription 1, TBP-binding (negative cofactor 2)" 9985 MMP11 NM_005940 0.032 Matrix metalloproteinase 11 (stromelysin 3) 22947 FCHSD2 NM_014824 0.032 FCH and double SH3 domains 2 11204 TAF7 NM_005642 0.032 "TAF7 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 55kDa" 92196 LAMB1 NM_002291 0.032 "Laminin, beta 1" 91945 H3F3A NM_002107 0.032 "H3 histone, family 3A" 82898 ANKRD10 BC039715 0.032 Ankyrin repeat domain 10 118215 ATP6V1E2 NM_080653 0.032 "ATPase, H+ transporting, lysosomal 31kDa, V1 subunit E isoform 2" 19203 CAPN7 NM_014296 0.032 Calpain 7 162569 GOPC AJ420540 0.0321 Golgi associated PDZ and coiled-coil motif containing 89748 TPMT NM_000367 0.0321 Thiopurine S- methyltransferase 146638 growth hormone S97393 0.0321 "Growth hormone receptor {5' receptor region} [human, placenta, mRNA Partial, 455 nt]" 6335 DVL2 NM_004422 0.0321 "Dishevelled, dsh homolog 2 (Drosophila)" 98216 UBE1 NM_003334 0.0321 Ubiquitin-activating enzyme E1 (A1S9T and BN75 temperature sensitivity http://ard.bmj.com/ complementing) 94808 ECGF1 NM_001953 0.0321 Endothelial cell growth factor 1 (platelet-derived) 12285 GPT NM_005309 0.0321 Glutamic-pyruvate transaminase (alanine

aminotransferase) on October 2, 2021 by guest. Protected copyright. 9420 BCAT1 NM_005504 0.0321 "Branched chain aminotransferase 1, cytosolic" 81044 TBK1 BC009864 0.0321 TANK-binding kinase 1 13533 SIAT4C NM_006278 0.0321 "Sialyltransferase 4C (beta- galactoside alpha-2,3- sialyltransferase)" 44657 NRIP2 NM_031474 0.0321 Nuclear receptor interacting protein 2 174322 USP21 NM_012475 0.0321 Ubiquitin specific protease 21 61490 THAP8 NM_152658 0.0321 THAP domain containing 8 100671 H79319 0.0321 "yu28c01.s1 Soares fetal liver spleen 1NFLS Homo sapiens cDNA clone IMAGE:235104 3' similar to contains Alu repetitive element;, mRNA sequence."

120 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

149914 AY034469 0.0321 "Transcribed locus, moderately similar to XP_375099.1 hypothetical protein LOC283585 [Homo sapiens]" 54589 SNAP23 NM_130798 0.0321 "Synaptosomal-associated protein, 23kDa" 135507 C1orf27 NM_017847 0.0321 Chromosome 1 open reading frame 27 10989 SCARB2 NM_005506 0.0323 "Scavenger receptor class B, member 2" 2975 NLGN2 NM_020795 0.0323 Neuroligin 2 19316 AKAP8L NM_014371 0.0323 A kinase (PRKA) anchor protein 8-like 162012 LOC157273 AK055863 0.0323 LOC441336 62985 ZNF540 NM_152606 0.0323 Zinc finger protein 540 3035 XM_350874 0.0323 155817 BC043571 0.0324 "CDNA FLJ43606 fis, clone SPLEN2009548" 121260 RAN NM_006325 0.0324 "RAN, member RAS oncogene family" 42769 CTNNBL1 NM_030877 0.0324 "Catenin, beta like 1" 109343 UCP3 NM_003356 0.0324 "Uncoupling protein 3 (mitochondrial, proton carrier)" 6546 PIK3C2G NM_004570 0.0324 "Phosphoinositide-3-kinase, class 2, gamma polypeptide" 183621 OR52M1 XM_061674 0.0324 "synonyms: OR11-11, OR52M1P, OR52M3P; olfactory receptor, family 52, subfamily M, member 1 pseudogene; olfactory receptor, family 52, subfamily http://ard.bmj.com/ M, member 3 pseudogene; olfactory receptor OR11-11; Homo sapiens olfactory receptor, family 52, subfamily M, member 1 (OR52M1),

mRNA." on October 2, 2021 by guest. Protected copyright. 9383 FRAT1 NM_005479 0.0324 Frequently rearranged in advanced T-cell lymphomas 166505 MYLK NM_005965 0.0324 "Myosin, light polypeptide kinase" 125507 PIK3R3 NM_003629 0.0325 "Phosphoinositide-3-kinase, regulatory subunit, polypeptide 3 (p55, gamma)" 44552 DKFZP586M1120 NM_031294 0.0325 Hypothetical protein DKFZp586M1120 87800 GALC NM_000153 0.0325 Galactosylceramidase (Krabbe disease) 28309 PNRC2 NM_017761 0.0325 Proline-rich nuclear receptor coactivator 2 6119 NM_004261 0.0325 15 kDa selenoprotein 153116 ZDHHC14 BC040707 0.0325 "Zinc finger, DHHC domain containing 14"

121 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

120834 SLC6A8 NM_005629 0.0326 "Solute carrier family 6 (neurotransmitter transporter, creatine), member 8" 155204 NKD1 AK000276 0.0326 Naked cuticle homolog 1 (Drosophila) 85038 DND1 BC033496 0.0326 Dead end homolog 1 (zebrafish) 182747 FLJ40137 NM_173478 0.0326 Hypothetical protein FLJ40137 123877 PTPN21 NM_007039 0.0326 "Protein tyrosine phosphatase, non-receptor type 21" 164030 DDO NM_003649 0.0326 D-aspartate oxidase 25068 CNOT10 NM_015442 0.0326 "CCR4-NOT transcription complex, subunit 10" 68714 RAB6IP1 XM_290550 0.0326 "synonym: KIAA1091; go_function: nucleic acid binding [goid 0003676] [evidence IEA]; Homo sapiens RAB6 interacting protein 1 (RAB6IP1), mRNA." 5272 SLIT2 NM_004787 0.0326 Slit homolog 2 (Drosophila) 90456 ABCB1 NM_000927 0.0326 "ATP-binding cassette, subfamily B (MDR/TAP), member 1" 92969 BTN1A1 NM_001732 0.0326 "Butyrophilin, subfamily 1, member A1" 80959 MGC17624 BC009078 0.0326 "Homo sapiens MGC17624 protein, mRNA (cDNA clone MGC:17624 IMAGE:3855543), complete cds." 178901 PAX7 NM_002584 0.0327 Paired box gene 7 http://ard.bmj.com/ 89013 RPLP1 NM_001003 0.0327 "Ribosomal protein, large, P1" 158163 BC050088 0.0327 Similar to CG14894-PA 119148 GPX5 NM_001509 0.0327 Glutathione peroxidase 5 (epididymal androgen-related protein)

86122 CACNA1S NM_000069 0.0327 "Calcium channel, voltage- on October 2, 2021 by guest. Protected copyright. dependent, L type, alpha 1S subunit" 58910 WDR31 NM_145241 0.0327 WD repeat domain 31 71937 AK025685 0.0327 "unnamed protein product; Homo sapiens cDNA: FLJ22032 fis, clone HEP08743." 56471 LOC113174 NM_138421 0.0327 Hypothetical protein BC012010 107573 COL17A1 NM_000494 0.0327 "Collagen, type XVII, alpha 1" 30929 HYPK NM_016400 0.0327 Huntingtin interacting protein K 35496 GBP3 NM_018284 0.0327 Guanylate binding protein 3 68984 FLJ32949 NM_173812 0.0327 Hypothetical protein FLJ32949 56367 PKD1L1 NM_138295 0.0327 Polycystic kidney disease 1

122 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

like 1 5783 SLC7A6 NM_003983 0.0328 "synonyms: LAT3, LAT-2, y+LAT-2, KIAA0245; amino acid permease; go_component: integral to plasma membrane [goid 0005887] [evidence TAS] [pmid 9829974]; go_function: amino acid-polyamine transporter activity [goid 0005279] [evidence IEA]; go_process: transport [goid 0006810] [evidence TAS] [pmid 9829974]; go_process: amino acid transport [goid 0006865] [evidence IEA]; go_process: amino acid metabolism [goid 0006520] [evidence TAS] [pmid 9829974]; go_process: protein complex assembly [goid 0006461] [evidence TAS] [pmid 9829974]; Homo sapiens solute carrier family 7 (cationic amino acid transporter, y+ system), member 6 (SLC7A6), mRNA." 3250 ZNF594 AB058774 0.0328 Zinc finger protein 594 104606 FYN NM_002037 0.0328 "FYN oncogene related to SRC, FGR, YES" 149877 AF075004 0.0328 Full length insert cDNA YH97G12

40498 MRPS35 NM_021821 0.0329 Mitochondrial ribosomal http://ard.bmj.com/ protein S35 4640 BST2 NM_004335 0.033 Bone marrow stromal cell antigen 2 94067 DIO3 NM_001362 0.033 "Deiodinase, iodothyronine, type III" 19353 CACNG4 NM_014405 0.033 "Calcium channel, voltage- on October 2, 2021 by guest. Protected copyright. dependent, gamma subunit 4" 12907 SDCCAG33 NM_005786 0.033 Serologically defined colon cancer antigen 33 38212 ZNF426 NM_024106 0.0331 Zinc finger protein 426 81747 BC022831 0.0331 "Homo sapiens, clone IMAGE:3357292, mRNA, partial cds" 158562 BC047650 0.0331 "Homo sapiens, clone IMAGE:4825762, mRNA" 39257 FLJ12587 NM_022480 0.0332 Hypothetical protein FLJ12587 161006 LOC148696 AL137491 0.0332 Hypothetical LOC388732 19593 M96 NM_007358 0.0332 Likely ortholog of mouse metal response element binding transcription factor 2 48128 NM_032209 0.0333

123 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

158542 RORA BC040965 0.0333 RAR-related orphan receptor A 76958 DKFZp564C0469 AL050298 0.0333 Hypothetical protein DKFZp564C0469 38176 FLJ22169 NM_024085 0.0333 Hypothetical protein FLJ22169 27165 CGI-94 NM_016037 0.0333 Comparative gene identification transcript 94 30260 FLJ20772 NM_017956 0.0334 Hypothetical protein FLJ20772 57459 ABCA9 NM_080283 0.0334 "ATP-binding cassette, subfamily A (ABC1), member 9" 28690 PACS1 NM_018026 0.0335 Phosphofurin acidic cluster sorting protein 1 91287 IRF3 NM_001571 0.0335 Interferon regulatory factor 3 16718 ANP32A NM_006305 0.0335 "Acidic (leucine-rich) nuclear phosphoprotein 32 family, member A" 5513 TNKS NM_003747 0.0335 "Tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase" 22452 HSPB7 NM_014424 0.0335 "Heat shock 27kDa protein family, member 7 (cardiovascular)" 182998 XM_353138 0.0335 151252 LOC342892 BC052603 0.0336 Hypothetical protein LOC342892 154694 AF086134 0.0336 Hypothetical gene supported by AK096952; AK126241; BC068588 98595 CNTNAP1 NM_003632 0.0336 Contactin associated protein 1 71653 FLJ38374 NM_182583 0.0336 Hypothetical protein http://ard.bmj.com/ FLJ38374 100041 CUL1 NM_003592 0.0336 Cullin 1 63732 C9orf138 NM_153707 0.0336 Chromosome 9 open reading frame 138 145053 HCCA2 NM_053005 0.0336 HCCA2 protein

42143 FLJ23091 NM_024911 0.0337 Putative NFkB activating on October 2, 2021 by guest. Protected copyright. protein 373 72717 AK091840 0.0337 "CDNA FLJ34521 fis, clone HLUNG2007041" 163324 HIF3A NM_022462 0.0337 "Hypoxia inducible factor 3, alpha subunit" 140298 KIF5B NM_004521 0.0337 Kinesin family member 5B 104868 EVC NM_014556 0.0338 Ellis van Creveld syndrome 23355 ARHGEF18 NM_015318 0.0338 Rho/rac guanine nucleotide exchange factor (GEF) 18 79135 TNRC15 BC029456 0.0339 Trinucleotide repeat containing 15 17185 RUVBL2 NM_006666 0.0339 RuvB-like 2 (E. coli) 8707 KCNJ4 NM_004981 0.0339 "Potassium inwardly-rectifying channel, subfamily J, member 4" 28787 FLJ10385 NM_018081 0.0339 Hypothetical protein

124 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

FLJ10385 18385 ORC3L NM_012381 0.0339 "Origin recognition complex, subunit 3-like (yeast)" 117913 DEADC1 NM_182503 0.0339 Deaminase domain containing 1 32387 KIAA1598 NM_018330 0.0339 KIAA1598 184218 XM_353539 0.034 1029 PLEKHH2 XM_059415 0.034 "synonym: KIAA2028; go_component: cytoskeleton [goid 0005856] [evidence IEA]; go_function: ATP binding [goid 0005524] [evidence IEA]; go_function: actin binding [goid 0003779] [evidence IEA]; go_function: motor activity [goid 0003774] [evidence IEA]; Homo sapiens pleckstrin homology domain containing, family H (with MyTH4 domain) member 2 (PLEKHH2), mRNA." 162101 RPL23AP7 X92108 0.034 Ribosomal protein L23a pseudogene 7 109886 AF285120 0.034 "Homo sapiens CGI-204 mRNA, complete cds." 32826 C20orf24 NM_018840 0.0341 Chromosome 20 open reading frame 24 2543 CBFA2T3 NM_175931 0.0341 "Core-binding factor, runt domain, alpha subunit 2; translocated to, 3" 126272 PRKCG NM_002739 0.0341 "Protein kinase C, gamma" 98218 UBE2D1 NM_003338 0.0341 "Ubiquitin-conjugating http://ard.bmj.com/ enzyme E2D 1 (UBC4/5 homolog, yeast)" 160662 AK097763 0.0341 "CDNA FLJ40444 fis, clone TESTI2040143" 17669 CD160 NM_007053 0.0341 CD160 antigen

162956 SNIP BC033233 0.0342 SNAP25-interacting protein on October 2, 2021 by guest. Protected copyright. 34876 CNNM4 NM_020184 0.0342 Cyclin M4 125384 XM_352401 0.0342 53965 FBXO23 AF174603 0.0342 F-box protein 23 17860 RNF139 NM_007218 0.0343 Ring finger protein 139 74353 JAZF1 NM_175061 0.0343 Juxtaposed with another zinc finger gene 1 143891 ZNF471 NM_020813 0.0343 Zinc finger protein 471 24895 BICD2 NM_015250 0.0343 Bicaudal D homolog 2 (Drosophila) 8391 CRLF1 NM_004750 0.0343 Cytokine receptor-like factor 1 13759 TGOLN2 NM_006464 0.0343 Trans-golgi network protein 2 94903 FLI1 NM_002017 0.0343 Friend leukemia virus integration 1 164425 SNX15 NM_013306 0.0343 Sorting nexin 15 168784 HSM804079 0.0344 184869 OR2Z1 XM_210382 0.0344 "synonyms: OR2Z2, OR19-4;

125 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

olfactory receptor, family 2, subfamily Z, member 2; olfactory receptor OR19-4; Homo sapiens olfactory receptor, family 2, subfamily Z, member 1 (OR2Z1), mRNA." 156617 AK098210 0.0344 "HepG2 partial cDNA, clone hmd2d12m5." 6531 PEX14 NM_004565 0.0344 Peroxisomal biogenesis factor 14 130256 IFNAR1 NM_000629 0.0344 "Interferon (alpha, beta and omega) receptor 1" 33979 UEV3 NM_018314 0.0344 Ubiquitin-conjugating enzyme E2-like 39961 ADIPOR2 NM_024551 0.0344 Adiponectin receptor 2 82979 KIAA0146 D63480 0.0344 KIAA0146 protein 52443 RAB6B AF091031 0.0344 "Homo sapiens GTP-binding protein RAB6B (RAB6B) mRNA, partial cds." 132781 SNX5 BT007191 0.0344 Sorting nexin 5 30234 SLC35A5 NM_017945 0.0344 "Solute carrier family 35, member A5" 79602 KIAA0746 XM_045277 0.0344 "Homo sapiens KIAA0746 protein (KIAA0746), mRNA." 110190 C20orf149 NM_024299 0.0344 Chromosome 20 open reading frame 149 1214 RSN AF045653 0.0344 Restin (Reed-Steinberg cell- expressed intermediate filament-associated protein) 139604 FXN NM_000144 0.0346 Frataxin 121820 ELP3 NM_018091 0.0346 Elongation protein 3 homolog (S. cerevisiae) http://ard.bmj.com/ 86855 SERPINE1 NM_000602 0.0347 "Serine (or cysteine) proteinase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 1" 19877 SLC27A5 NM_012254 0.0347 "Solute carrier family 27 (fatty

acid transporter), member 5" on October 2, 2021 by guest. Protected copyright. 58803 MGC15606 NM_145037 0.0347 Hypothetical protein MGC15606 161091 XM_211552 0.0347 45488 NM_025025 0.0347 85093 BC033950 0.0348 "CDNA clone IMAGE:5286091, partial cds" 19572 ZNF236 NM_007345 0.0348 Zinc finger protein 236 146410 HSPSG12UT_3586 0.0348 92716 HCRTR1 NM_001525 0.0348 Hypocretin (orexin) receptor 1 162335 LOC142955 AK055362 0.0348 Hypothetical protein LOC142955 13440 PIN1 NM_006221 0.0348 Protein (peptidyl-prolyl cis/trans isomerase) NIMA- interacting 1 34309 GALNACT-2 NM_018590 0.0348 Chondroitin sulfate GalNAcT- 2

126 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

51239 AF060132 0.0348 "Vlambda-Jlambda; Homo sapiens clone ASSynL209 immunoglobulin lambda light chain variable region mRNA, partial cds." 23745 RARB NM_015854 0.0348 "synonyms: HAP, RRB2, NR1B2; isoform 1 is encoded by transcript variant 1; retinoic acid receptor, beta polypeptide; retinoic acid receptor beta 4; hepatitis B virus activated protein; HBV- activated protein; RAR- epsilon; retinoic acid receptor beta 2; RAR, beta form; go_component: nucleus [goid 0005634] [evidence IEA]; go_component: nucleus [goid 0005634] [evidence IDA] [pmid 2177841]; go_function: transcription factor activity [goid 0003700] [evidence IEA]; go_function: steroid hormone receptor activity [goid 0003707] [evidence IEA]; go_function: retinoic acid receptor activity [goid 0003708] [evidence IDA] [pmid 2177841]; go_function: retinoic acid receptor activity [goid 0003708] [evidence TAS] [pmid 2833708];

go_process: signal http://ard.bmj.com/ transduction [goid 0007165] [evidence TAS] [pmid 2833708]; go_process: cell growth and/or maintenance [goid 0008151] [evidence IEA]; go_process: regulation of transcription, DNA- on October 2, 2021 by guest. Protected copyright. dependent [goid 0006355] [evidence IEA]; go_process: regulation of transcription, DNA-dependent [goid 0006355] [evidence IDA] [pmid 2177841]; Homo sapiens retinoic acid receptor, beta (RARB), transcript variant 1, mRNA." 147379 CASC2 NM_178816 0.0348 Cancer susceptibility candidate 2 95248 KPNB1 NM_002265 0.0348 Karyopherin (importin) beta 1 184018 na XM_088797 0.0348 Similar to cDNA sequence BC035954 32407 FLJ11171 NM_018348 0.0348 Hypothetical protein FLJ11171

127 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

91089 FBL NM_001436 0.0349 Fibrillarin 150386 DDX46 BC030755 0.0349 DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 107009 HEY2 AF311884 0.0349 Hairy/enhancer-of-split related with YRPW motif 2 118181 RPS6KL1 NM_031464 0.0349 Ribosomal protein S6 kinase- like 1 149145 TBC1D14 BC035129 0.0349 "TBC1 domain family, member 14" 77694 LOC286257 BC002613 0.0349 Hypothetical protein LOC286257 16042 TLE4 NM_007005 0.0349 "Transducin-like enhancer of split 4 (E(sp1) homolog, Drosophila)" 183147 XM_294737 0.0349 5388 SLC4A8 NM_004858 0.0349 "Solute carrier family 4, sodium bicarbonate cotransporter, member 8" 136323 C1R NM_001733 0.035 "Complement component 1, r subcomponent" 15567 TEBP NM_006601 0.035 "Unactive progesterone receptor, 23 kD" 2867 LCHN AB032973 0.035 LCHN protein 79215 BTAF1 BC029930 0.035 "BTAF1 RNA polymerase II, B-TFIID transcription factor- associated, 170kDa (Mot1 homolog, S. cerevisiae)" 25179 AUTS2 NM_015570 0.0351 Autism susceptibility candidate 2 110199 NM_024912 0.0351 34541 LOC54499 NM_019026 0.0352 Putative membrane protein 51675 TRERF1 AF111801 0.0352 Transcriptional regulating factor 1 http://ard.bmj.com/ 27435 DHRS8 NM_016245 0.0352 Dehydrogenase/reductase (SDR family) member 8 38520 C14orf169 NM_024644 0.0353 Chromosome 14 open reading frame 169 135866 EYA3 NM_001990 0.0353 Eyes absent homolog 3

(Drosophila) on October 2, 2021 by guest. Protected copyright. 20629 MKRN2 NM_014160 0.0353 "Makorin, ring finger protein, 2" 58583 FLJ32734 NM_144681 0.0353 Hypothetical protein FLJ32734 88538 SELL NM_000655 0.0353 Selectin L (lymphocyte adhesion molecule 1) 93534 HOXB2 NM_002145 0.0353 Homeo box B2 22928 NM_014797 0.0353 104342 TNF NM_000594 0.0354 "Tumor necrosis factor (TNF superfamily, member 2)" 118762 DRCTNNB1A NM_032581 0.0354 "Down-regulated by Ctnnb1, a" 9559 CCL25 NM_005624 0.0354 Chemokine (C-C motif) ligand 25 63662 LOC153222 NM_153607 0.0354 Adult retina protein 61303 NM_152535 0.0354

128 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

137329 TAS1R1 NM_138697 0.0355 "Taste receptor, type 1, member 1" 98955 PRKCSH NM_002743 0.0355 Protein kinase C substrate 80K-H 112388 AK024675 0.0356 "unnamed protein product; Homo sapiens cDNA: FLJ21022 fis, clone CAE06383." 118071 RAB14 NM_016322 0.0356 "RAB14, member RAS oncogene family" 22838 TBC1D5 NM_014744 0.0356 "TBC1 domain family, member 5" 82486 LOC388394 BC033942 0.0356 Similar to candidate mediator of the p53-dependent G2 arrest 129652 HEXA NM_000520 0.0356 Hexosaminidase A (alpha polypeptide) 37001 SPINK2 NM_021114 0.0357 "Serine protease inhibitor, Kazal type 2 (acrosin-trypsin inhibitor)" 140073 CLEC2 NM_016509 0.0357 C-type lectin-like receptor-2 28665 FLJ10159 NM_018013 0.0357 Hypothetical protein FLJ10159 148803 C9orf154 AF075039 0.0357 Chromosome 9 open reading frame 154 72067 CASP8 AK055262 0.0357 "Caspase 8, apoptosis-related cysteine protease" 93368 FLT4 NM_002020 0.0358 Fms-related tyrosine kinase 4 92087 ITGA9 NM_002207 0.0358 "Integrin, alpha 9" 186332 XM_292527 0.0358 7058 DCHS1 NM_003737 0.0358 Dachsous 1 (Drosophila) 140575 CUL5 NM_003478 0.0358 Cullin 5 2662 MGC23401 AB011118 0.0358 Hypothetical protein http://ard.bmj.com/ MGC23401 42784 OR7A17 NM_030901 0.0358 "Olfactory receptor, family 7, subfamily A, member 17" 66663 PPP1R14B AF318364 0.0358 "Protein phosphatase 1, regulatory (inhibitor) subunit

14B" on October 2, 2021 by guest. Protected copyright. 45181 FLJ22624 NM_024808 0.0359 FLJ22624 protein 541 KIAA1600 XM_049351 0.0359 KIAA1600 5601 TNFRSF10D NM_003840 0.036 "Tumor necrosis factor receptor superfamily, member 10d, decoy with truncated death domain" 97952 SRP19 NM_003135 0.036 Signal recognition particle 19kDa 15299 SLC35A1 NM_006416 0.036 "Solute carrier family 35 (CMP-sialic acid transporter), member A1" 57570 C14orf126 NM_080664 0.036 Chromosome 14 open reading frame 126 125010 LOC51136 NM_016125 0.036 PTD016 protein 38884 BCAN NM_021948 0.036 Brevican 107729 HIST1H2BO NM_003527 0.036 "Histone 1, H2bo"

129 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

107445 R74478 0.0361 Transcribed locus 17040 KHDRBS1 NM_006559 0.0361 "KH domain containing, RNA binding, signal transduction associated 1" 145880 ALS2CR10 AB053312 0.0361 "ALS2CR10 mRNA,." 13957 KLRA1 NM_006611 0.0361 "Killer cell lectin-like receptor subfamily A, member 1" 40147 GTDC1 NM_024659 0.0361 Glycosyltransferase-like 1 43583 FLJ12529 NM_024811 0.0361 "Pre-mRNA cleavage factor I, 59 kDa subunit" 127287 AAK1 NM_014911 0.0361 AP2 associated kinase 1 96594 CLDN5 NM_003277 0.0361 Claudin 5 (transmembrane protein deleted in velocardiofacial syndrome) 41572 ULBP3 NM_024518 0.0361 UL16 binding protein 3 182503 XM_352045 0.0362 183685 XM_352179 0.0362 9222 LCK NM_005356 0.0364 Lymphocyte-specific protein tyrosine kinase 125226 C20orf38 NM_018327 0.0364 Chromosome 20 open reading frame 38 93996 CRIP2 NM_001312 0.0364 Cysteine-rich protein 2 185531 HKR2 NM_181846 0.0364 GLI-Kruppel family member HKR2 137522 KIAA1229 XM_030665 0.0364 KIAA1229 protein 129122 C20orf31 NM_018217 0.0364 Chromosome 20 open reading frame 31 48192 DKFZp434I099 NM_032269 0.0364 Hypothetical protein DKFZp434I099 23460 RNF19 NM_015435 0.0364 Ring finger protein 19 99546 SUPT5H NM_003169 0.0364 Suppressor of Ty 5 homolog (S. cerevisiae) http://ard.bmj.com/ 146669 GPBAR1 NM_170699 0.0364 G protein-coupled bile acid receptor 1 185554 KRTAP6-1 NM_181602 0.0364 "synonyms: KAP6.1, C21orf103; Homo sapiens keratin associated protein 6-1 (KRTAP6-1), mRNA." 167089 CYP2A6 NM_000762 0.0365 "Cytochrome P450, family 2, on October 2, 2021 by guest. Protected copyright. subfamily A, polypeptide 6" 95007 GNB1 NM_002074 0.0365 "Guanine nucleotide binding protein (G protein), beta polypeptide 1" 98542 TTF2 NM_003594 0.0365 "Transcription termination factor, RNA polymerase II" 64256 AIM1 XM_166300 0.0365 Absent in melanoma 1 88170 CTSK NM_000396 0.0365 Cathepsin K (pycnodysostosis) 16261 SEC63 NM_007214 0.0366 SEC63-like (S. cerevisiae) 60426 MGC42415 NM_153363 0.0366 Hypothetical protein MGC42415 162346 XM_098012 0.0366 9979 MLLT2 NM_005935 0.0366 "Myeloid/lymphoid or mixed- lineage leukemia (trithorax

130 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

homolog, Drosophila); translocated to, 2" 56466 C10orf65 NM_138413 0.0366 Chromosome 10 open reading frame 65 9694 ACTR3 NM_005721 0.0366 ARP3 actin-related protein 3 homolog (yeast) 117820 HSU63836 0.0366 45825 LIM2 NM_030657 0.0366 "Lens intrinsic membrane protein 2, 19kDa" 122403 KRT7 NM_005556 0.0366 Keratin 7 6615 TGM2 NM_004613 0.0366 "Transglutaminase 2 (C polypeptide, protein- glutamine-gamma- glutamyltransferase)" 82435 XM_029703 0.0366 180124 SLC22A6 NM_004790 0.0366 "Solute carrier family 22 (organic anion transporter), member 6" 109868 AF090894 0.0367 "Homo sapiens clone HQ0113 PRO0113 mRNA, complete cds." 148906 BC043192 0.0367 "CDNA FLJ26819 fis, clone PRS06590" 122254 TRIM50A NM_178125 0.0367 Tripartite motif-containing 50A 36339 SMBP NM_020123 0.0367 SM-11044 binding protein 111435 NOTCH2 NM_024408 0.0367 Notch homolog 2 (Drosophila) 11210 NM_005645 0.0367 186654 EXOSC6 NM_058219 0.0367 Exosome component 6 1781 IPLA2(GAMMA) XM_291241 0.0367 "synonym: IPLA2-2; go_component: intracellular [goid 0005622] [evidence ISS]; go_component: intracellular [goid 0005622] http://ard.bmj.com/ [evidence IDA] [pmid 10744668]; go_component: membrane fraction [goid 0005624] [evidence ISS]; go_component: peroxisomal

membrane [goid 0005778] on October 2, 2021 by guest. Protected copyright. [evidence ISS]; go_component: membrane fraction [goid 0005624] [evidence IDA] [pmid 10744668]; go_component: peroxisomal membrane [goid 0005778] [evidence IDA] [pmid 10744668]; go_function: ATP binding [goid 0005524] [evidence ISS]; go_function: ATP binding [goid 0005524] [evidence NAS] [pmid 10744668]; go_function: catalytic activity [goid 0003824] [evidence IEA];

131 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

go_function: nutrient reservoir activity [goid 0045735] [evidence IEA]; go_function: calcium-independent phospholipase A2 activity [goid 0047499] [evidence ISS]; go_function: calcium- independent phospholipase A2 activity [goid 0047499] [evidence IDA] [pmid 10744668]; go_process: fatty acid metabolism [goid 0006631] [evidence ISS]; go_process: fatty acid metabolism [goid 0006631] [evidence IDA] [pmid 10744668]; Homo sapiens intracellular membrane- associated calcium- independent phospholipase A2 gamma (IPLA2(GAMMA)), mRNA." 58013 MGC15416 NM_138418 0.0367 Hypothetical protein MGC15416 79940 BC015805 0.0367 2944 TBC1D14 NM_020773 0.0367 "TBC1 domain family, member 14" 36417 ACN9 NM_020186 0.0367 ACN9 homolog (S. cerevisiae) 94828 EIF4E NM_001968 0.0367 Eukaryotic translation initiation factor 4E 53832 AF130084 0.0367 "Clone FLB8310 PRO2225

mRNA, complete cds" http://ard.bmj.com/ 88516 TNFSF6 NM_000639 0.0367 "Tumor necrosis factor (ligand) superfamily, member 6" 68726 FLJ22594 AK026247 0.0367 Hypothetical protein FLJ22594

243 KIAA0962 AB023179 0.0367 KIAA0962 protein on October 2, 2021 by guest. Protected copyright. 32621 PRO1855 NM_018509 0.0368 Hypothetical protein PRO1855 15499 TUSC4 NM_006545 0.0368 Tumor suppressor candidate 4 37850 TORC3 NM_022769 0.0368 Transducer of regulated cAMP response element- binding protein (CREB) 3 48720 SYAP1 NM_032796 0.0368 "Synapse associated protein 1, SAP47 homolog (Drosophila)" 60770 DMBX1 NM_147192 0.0368 Diencephalon/mesencephalo n homeobox 1 99391 SLIT3 NM_003062 0.0368 Slit homolog 3 (Drosophila) 186008 LOC374955 XM_351236 0.0368 "go_function: calcium ion binding [goid 0005509] [evidence IEA]; Homo

132 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

sapiens hypothetical protein LOC374955 (LOC374955), mRNA." 13411 ENPP1 NM_006208 0.0369 Ectonucleotide pyrophosphatase/phosphodie sterase 1 114997 VRK1 NM_003384 0.0369 Vaccinia related kinase 1 185616 XM_353028 0.0369 98128 TNNC1 NM_003280 0.0369 "Troponin C, slow" 16160 TRIO NM_007118 0.0369 Triple functional domain (PTPRF interacting) 13128 MTNR1A NM_005958 0.0369 Melatonin receptor 1A 11319 ARPC4 NM_005718 0.0369 "Actin related protein 2/3 complex, subunit 4, 20kDa" 152198 AK001840 0.0369 "CDNA FLJ10978 fis, clone PLACE1001484" 80165 HLA-DOB BC020226 0.0369 "Major histocompatibility complex, class II, DO beta" 156673 AK097894 0.0369 MRNA; cDNA DKFZp761F1212 (from clone DKFZp761F1212) 52141 SS18 AF257501 0.0369 "Synovial sarcoma translocation, chromosome 18" 152570 BC046210 0.0369 "Transcribed locus, weakly similar to XP_375099.1 hypothetical protein LOC283585 [Homo sapiens]" 8816 PRKX NM_005044 0.0369 "Protein kinase, X-linked" 184759 ARP10 NM_181773 0.037 ARP10 protein 98671 NUP88 NM_002532 0.037 Nucleoporin 88kDa 49715 ANKRD32 NM_032290 0.037 Ankyrin repeat domain 32 93990 CLDN4 NM_001305 0.037 Claudin 4 http://ard.bmj.com/ 156883 AK094394 0.037 "CDNA FLJ37075 fis, clone BRACE2015756" 142627 RAB3B NM_002867 0.037 "RAB3B, member RAS oncogene family" 48710 PARP10 NM_032789 0.0371 "Poly (ADP-ribose) polymerase family, member on October 2, 2021 by guest. Protected copyright. 10" 173921 WFDC3 NM_080614 0.0371 WAP four-disulfide core domain 3 45435 FLJ12331 NM_024986 0.0372 Hypothetical protein FLJ12331 164261 SLC30A5 NM_022902 0.0372 "Solute carrier family 30 (zinc transporter), member 5" 122035 DDB2 NM_000107 0.0372 "Damage-specific DNA binding protein 2, 48kDa" 3759 CAPON NM_014697 0.0372 C-terminal PDZ domain ligand of neuronal nitric oxide synthase 89146 ACLY NM_001096 0.0372 ATP citrate lyase 105297 OSBPL3 NM_015550 0.0372 Oxysterol binding protein-like 3 44813 GSG2 NM_031965 0.0372 Haspin

133 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

19222 HSPC117 NM_014306 0.0372 Hypothetical protein HSPC117 139564 UBAP1 AF130079 0.0372 Ubiquitin associated protein 1 58528 MGC29956 NM_144638 0.0372 Hypothetical protein MGC29956 30229 FBXO34 NM_017943 0.0373 F-box protein 34 180965 na XM_087800 0.0373 Similar to RIKEN cDNA 3110050N22 114663 ZNF42 NM_003422 0.0373 Zinc finger protein 42 (myeloid-specific retinoic acid-responsive) 6006 STX3A NM_004177 0.0373 Syntaxin 3A 9241 MOS NM_005372 0.0373 V-mos Moloney murine sarcoma viral oncogene homolog 151240 BC036043 0.0373 Hypothetical LOC255411 80176 SELO NM_031454 0.0373 Selenoprotein O 36749 KIAA1160 NM_020701 0.0373 KIAA1160 protein 183643 XM_352636 0.0373 10219 HNRPF NM_004966 0.0373 Heterogeneous nuclear ribonucleoprotein F 170978 LRRFIP2 NM_006309 0.0373 Leucine rich repeat (in FLII) interacting protein 2 146467 HSU92012 0.0374 62537 MTAC2D1 NM_152332 0.0374 Membrane targeting (tandem) C2 domain containing 1 153984 BC040619 0.0374 "Similar to solute carrier family 16 (monocarboxylic acid transporters), member 14" 97070 IKBKG NM_003639 0.0374 "Inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase gamma" http://ard.bmj.com/ 58156 NDNL2 NM_138704 0.0374 Necdin-like 2 162182 FLJ11142 NM_018338 0.0374 Hypothetical protein FLJ11142 54437 RPL10L NM_080746 0.0375 Ribosomal protein L10-like 76750 XM_069189 0.0376 95373 MCC NM_002387 0.0377 Mutated in colorectal cancers on October 2, 2021 by guest. Protected copyright. 145469 ABCC12 NM_033226 0.0377 "ATP-binding cassette, subfamily C (CFTR/MRP), member 12" 1210 RB1 AF043224 0.0378 Retinoblastoma 1 (including osteosarcoma) 144852 DUX4 NM_033178 0.0378 "double homeobox protein 4; go_component: nucleus [goid 0005634] [evidence IEA]; go_component: nucleus [goid 0005634] [evidence NAS]; go_function: transcription factor activity [goid 0003700] [evidence IEA]; go_function: transcription factor activity [goid 0003700] [evidence NAS]; go_process: regulation

134 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

of transcription, DNA- dependent [goid 0006355] [evidence IEA]; go_process: regulation of transcription, DNA-dependent [goid 0006355] [evidence NAS]; Homo sapiens double homeobox, 4 (DUX4), mRNA." 166210 HOXB13 NM_006361 0.0378 Homeo box B13 43895 TRIM46 NM_025058 0.0378 Tripartite motif-containing 46 16471 GZMA NM_006144 0.0378 "Granzyme A (granzyme 1, cytotoxic T-lymphocyte- associated serine esterase 3)" 7678 HMGN3 NM_004242 0.0378 High mobility group nucleosomal binding domain 3 16734 BASP1 NM_006317 0.0378 "Brain abundant, membrane attached signal protein 1" 89036 RPS13 NM_001017 0.0378 Ribosomal protein S13 45571 NM_025093 0.0379 9563 SGK NM_005627 0.038 Serum/glucocorticoid regulated kinase 164629 C10orf6 NM_018121 0.038 Hypothetical protein LOC143286 154710 AK024545 0.038 "CDNA: FLJ20892 fis, clone ADKA03430" 4607 ARHGAP1 NM_004308 0.038 Rho GTPase activating protein 1 100829 N25338 0.038 "yx55d07.s1 Soares melanocyte 2NbHM Homo sapiens cDNA clone http://ard.bmj.com/ IMAGE:265645 3' similar to contains L1.t1 L1 repetitive element ;, mRNA sequence." 173689 MAPK8IP2 NM_012324 0.038 Mitogen-activated protein kinase 8 interacting protein 2

77759 BC004382 0.0381 Hypothetical LOC388790 on October 2, 2021 by guest. Protected copyright. 99093 PTPRR NM_002849 0.0381 "Protein tyrosine phosphatase, receptor type, R" 4454 SLC1A2 NM_004171 0.0381 "Solute carrier family 1 (glial high affinity glutamate transporter), member 2" 73404 AIG1 AK096129 0.0381 Androgen-induced 1 63501 FLJ36445 NM_153233 0.0381 Hypothetical protein FLJ36445 18800 VCX3 NM_013452 0.0381 "Variable charge, X-linked" 662 FLJ23577 AB051557 0.0381 KPL2 protein 80465 ZNF586 BC027922 0.0381 Zinc finger protein 586 180339 na XM_295062 0.0382 Hypothetical LOC339782 48018 CTMP NM_053055 0.0382 C-terminal modulator protein 150494 STAT1 AK022231 0.0382 "Signal transducer and activator of transcription 1,

135 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

91kDa" 87461 SLC6A2 NM_001043 0.0382 "Solute carrier family 6 (neurotransmitter transporter, noradrenalin), member 2" 32892 UBASH3A NM_018961 0.0383 "Ubiquitin associated and SH3 domain containing, A" 44117 PUS1 NM_025215 0.0383 Pseudouridylate synthase 1 61321 RASGEF1B NM_152545 0.0383 "RasGEF domain family, member 1B" 123154 FOXP4 NM_138457 0.0383 Forkhead box P4 156454 P2RY5 AK097860 0.0383 "Purinergic receptor P2Y, G- protein coupled, 5" 72020 KCNQ1OT1 AK054562 0.0383 "Potassium voltage-gated channel, KQT-like subfamily, member 1" 4980 RPS6KA3 NM_004586 0.0383 "Ribosomal protein S6 kinase, 90kDa, polypeptide 3" 73347 SMARCE1 AK095738 0.0384 "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1" 95786 POLR2E NM_002695 0.0384 "Polymerase (RNA) II (DNA directed) polypeptide E, 25kDa" 5111 ASH2L NM_004674 0.0384 "Ash2 (absent, small, or homeotic)-like (Drosophila)" 47074 MGC10820 NM_032648 0.0384 Hypothetical protein MGC10820 23945 CGI-90 NM_016033 0.0385 CGI-90 protein 107158 HMGA2 H98218 0.0386 High mobility group AT-hook 2 184708 C6orf25 NM_138277 0.0386 Chromosome 6 open reading frame 25 http://ard.bmj.com/ 63065 UBE2E2 NM_152653 0.0386 "Ubiquitin-conjugating enzyme E2E 2 (UBC4/5 homolog, yeast)" 41710 FLJ21125 NM_024627 0.0386 Hypothetical protein FLJ21125

91312 ACP2 NM_001610 0.0386 "Acid phosphatase 2, on October 2, 2021 by guest. Protected copyright. lysosomal" 108149 NRXN2 NM_015080 0.0386 Neurexin 2 20208 BRD7 NM_013263 0.0387 Bromodomain containing 7 80266 BC021561 0.0387 99501 STAC NM_003149 0.0387 SH3 and cysteine rich domain 151392 MGC50372 NM_173566 0.0387 Hypothetical protein MGC50372 22228 RBX1 NM_014248 0.0387 Ring-box 1 39328 MMP25 NM_022718 0.0388 Matrix metalloproteinase-like 1 107668 CLCN6 NM_001286 0.0388 Chloride channel 6 185380 DKFZp451J0118 NM_175852 0.0388 Taxilin 12108 ATP5G1 NM_005175 0.0389 "ATP synthase, H+ transporting, mitochondrial F0 complex, subunit c (subunit 9), isoform 1"

136 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

145649 NEUROD1 NM_002500 0.0389 Neurogenic differentiation 1 69224 FLJ90709 NM_173514 0.0389 Hypothetical protein FLJ90709 40187 PPIA NM_021130 0.0389 Peptidylprolyl isomerase A (cyclophilin A) 44859 FKSG42 NM_032032 0.0389 FKSG42 80522 MGC33530 NM_182546 0.0389 Hypothetical protein LOC285878 82153 FLJ90430 NM_178558 0.0389 Hypothetical protein FLJ90430 146059 XM_353119 0.0389 75018 SFI1 AK097004 0.0389 Homolog of yeast Sfi1 27241 SARA2 NM_016103 0.0389 SAR1a gene homolog 2 (S. cerevisiae) 163217 ABLIM1 NM_002313 0.039 Actin binding LIM protein 1 117166 ICF45 NM_017872 0.039 Interphase cyctoplasmic foci protein 45 180829 OR2A14 XM_069616 0.039 "synonyms: OR2A6, OST182, OR2A14P; olfactory receptor, family 2, subfamily A, member 14 pseudogene; olfactory receptor, family 2, subfamily A, member 6; go_component: integral to membrane [goid 0016021] [evidence IEA]; go_function: receptor activity [goid 0004872] [evidence IEA]; go_function: olfactory receptor activity [goid 0004984] [evidence IEA]; go_process: G-protein coupled receptor protein http://ard.bmj.com/ signaling pathway [goid 0007186] [evidence IEA]; Homo sapiens olfactory receptor, family 2, subfamily A, member 14 (OR2A14),

mRNA." on October 2, 2021 by guest. Protected copyright. 25140 NM_015525 0.039 97200 PBP NM_002567 0.039 Prostatic binding protein 84902 BC032147 0.039 93956 NCBP1 NM_002486 0.039 "Nuclear cap binding protein subunit 1, 80kDa" 76515 C22orf14 AK096976 0.039 Chromosome 22 open reading frame 14 38267 MGC3222 NM_024334 0.0391 Hypothetical protein MGC3222 47581 LOC90355 NM_033211 0.0391 Hypothetical gene supported by AF038182; BC009203 103649 SP2 NM_003110 0.0391 Sp2 transcription factor 12386 NNAT NM_005386 0.0391 Neuronatin 1599 PPM1H AB032983 0.0391 Protein phosphatase 1H (PP2C domain containing) 35953 COG1 NM_018714 0.0391 Component of oligomeric

137 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

golgi complex 1 95583 OGDH NM_002541 0.0392 Oxoglutarate (alpha- ketoglutarate) dehydrogenase (lipoamide) 99302 SET NM_003011 0.0392 SET translocation (myeloid leukemia-associated) 65453 CYLC1 XM_088636 0.0392 "Cylicin, basic protein of sperm head cytoskeleton 1" 146205 FLJ90724 AY188774 0.0392 Hypothetical protein FLJ90724 13481 PPP2R5E NM_006246 0.0392 "Protein phosphatase 2, regulatory subunit B (B56), epsilon isoform" 41586 FOSL2 NM_024530 0.0392 "synonyms: FRA2, FLJ23306; go_component: nucleus [goid 0005634] [evidence TAS] [pmid 8954781]; go_function: transcription factor activity [goid 0003700] [evidence TAS] [pmid 8954781]; go_process: cell death [goid 0008219] [evidence TAS] [pmid 8954781]; go_process: regulation of transcription from Pol II promoter [goid 0006357] [evidence TAS] [pmid 8954781]; Homo sapiens FOS-like antigen 2 (FOSL2), mRNA." 128170 ACCN4 NM_018674 0.0392 "Amiloride-sensitive cation channel 4, pituitary" 75767 ZMAT1 XM_040486 0.0393 "Zinc finger, matrin type 1" 152015 BC038401 0.0393 "Homo sapiens, clone http://ard.bmj.com/ IMAGE:5181355, mRNA" 5264 CNOT8 NM_004779 0.0393 "CCR4-NOT transcription complex, subunit 8" 106198 RPL13 NM_000977 0.0393 Ribosomal protein L13 45580 FLJ22170 NM_025099 0.0393 Hypothetical protein

FLJ22170 on October 2, 2021 by guest. Protected copyright. 92645 ADAM2 NM_001464 0.0393 A disintegrin and metalloproteinase domain 2 (fertilin beta) 58748 MGC26733 NM_144992 0.0393 Hypothetical protein MGC26733 29320 LOC51255 NM_016494 0.0393 Hypothetical protein LOC51255 83400 ASS NM_000050 0.0393 Argininosuccinate synthetase 72794 PSCA AK092432 0.0393 Prostate stem cell antigen 148688 EPAS1 AK023572 0.0393 Endothelial PAS domain protein 1 73606 FLJ20265 AK097244 0.0394 Hypothetical protein FLJ20265 58799 MGC22793 NM_145030 0.0394 Hypothetical protein MGC22793 11945 RORC NM_005060 0.0394 RAR-related orphan receptor

138 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

C 104196 TLE4 M99439 0.0394 "Transducin-like enhancer of split 4 (E(sp1) homolog, Drosophila)" 104799 CD151 NM_004357 0.0394 CD151 antigen 91177 GDI1 NM_001493 0.0394 GDP dissociation inhibitor 1 48460 ABTB1 NM_032548 0.0394 Ankyrin repeat and BTB (POZ) domain containing 1 80912 XM_117044 0.0395 87264 CYP4F3 NM_000896 0.0395 "Cytochrome P450, family 4, subfamily F, polypeptide 3" 68238 NFATC1 AJ276510 0.0395 "Nuclear factor of activated T- cells, cytoplasmic, calcineurin-dependent 1" 48773 PPP1R15B NM_032833 0.0395 "Protein phosphatase 1, regulatory (inhibitor) subunit 15B" 89206 NUDT2 NM_001161 0.0395 Nudix (nucleoside diphosphate linked moiety X)- type motif 2 78614 C20orf82 BC017997 0.0395 Chromosome 20 open reading frame 82 162027 BC041856 0.0395 Hypothetical gene supported by AK022914; AK095211; BC016035; BC041856; BX248778 88570 ADORA2A NM_000675 0.0395 Adenosine A2a receptor 123632 SMARCAL1 NM_014140 0.0395 "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a-like 1" 59423 FLJ30656 NM_152344 0.0395 Hypothetical protein FLJ30656 http://ard.bmj.com/ 93819 MAZ NM_002383 0.0395 MYC-associated zinc finger protein (purine-binding transcription factor) 118657 POLK NM_016218 0.0396 Polymerase (DNA directed) kappa

24558 NM_014838 0.0397 on October 2, 2021 by guest. Protected copyright. 161856 AK093416 0.0397 "CDNA FLJ36097 fis, clone TESTI2020956" 36762 KIAA1287 NM_020748 0.0397 KIAA1287 protein 21918 NFKBIL2 NM_013432 0.0398 Nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor-like 2 180576 XM_353359 0.0398 110058 GOLGA2 NM_004486 0.0398 "Golgi autoantigen, golgin subfamily a, 2" 102174 WBSCR5 NM_014146 0.0398 Williams-Beuren syndrome chromosome region 5 41097 NICAL NM_022765 0.0399 NEDD9 interacting protein with calponin homology and LIM domains 42954 TEX14 NM_031272 0.0399 Testis expressed sequence 14

139 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

24644 RAB11FIP2 NM_014904 0.0399 RAB11 family interacting protein 2 (class I) 146296 HSCTSLL1X_104 0.0399 15148 CNKSR1 NM_006314 0.0399 Connector enhancer of kinase suppressor of Ras 1 107265 NCAM1 AA460849 0.0399 Neural cell adhesion molecule 1 154057 BC031323 0.0399 "CDNA clone IMAGE:5285271, partial cds" 31379 NKIRAS2 NM_017595 0.0399 NFKB inhibitor interacting Ras-like 2 28744 CRTAC1 NM_018058 0.0399 Cartilage acidic protein 1 87617 ARNTL NM_001178 0.04 Aryl hydrocarbon receptor nuclear translocator-like 92882 ARF4L NM_001661 0.04 ADP-ribosylation factor 4-like 161910 URP AK090630 0.04 Urotensin II-related peptide 93835 ME2 NM_002396 0.04 "Malic enzyme 2, NAD(+)- dependent, mitochondrial" 19444 APEX2 NM_014481 0.04 APEX nuclease (apurinic/apyrimidinic endonuclease) 2 49635 FLJ22269 NM_032219 0.04 Hypothetical protein FLJ22269 37048 HAMP NM_021175 0.04 Hepcidin antimicrobial peptide 74645 LOC149603 BC000821 0.04 Hypothetical protein LOC149603 41437 MGC2650 NM_024108 0.0401 Hypothetical protein MGC2650 94194 GAS8 NM_001481 0.0401 Growth arrest-specific 8 144485 FLJ12584 NM_024720 0.0401 "synonym: ARM; Homo sapiens hypothetical protein FLJ12584 (FLJ12584), mRNA." http://ard.bmj.com/ 35863 TREM1 NM_018643 0.0402 Triggering receptor expressed on myeloid cells 1 27869 SLC6A13 NM_016615 0.0402 "Solute carrier family 6 (neurotransmitter transporter, GABA), member 13"

19116 NFYC NM_014223 0.0402 "Nuclear transcription factor on October 2, 2021 by guest. Protected copyright. Y, gamma" 54380 ACY3 NM_080658 0.0403 Aspartoacylase (aminocyclase) 3 149815 AK055589 0.0403 "Homo sapiens cDNA FLJ31027 fis, clone HLUNG2000557." 161061 AK090546 0.0403 "CDNA FLJ33227 fis, clone ASTRO2001088" 161208 AL137346 0.0403 MRNA full length insert cDNA clone EUROIMAGE 1509279 11117 MDFI NM_005586 0.0403 MyoD family inhibitor 46608 CGI-72 XM_352970 0.0403 "synonyms: FLJ13649, FLJ21615, MGC64923; isoform 2 is encoded by transcript variant 3; PHD finger; go_function: nucleic

140 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

acid binding [goid 0003676] [evidence IEA]; Homo sapiens CGI-72 protein (CGI- 72), transcript variant 3, mRNA." 53132 AF258587 0.0403 "PP565 [Homo sapiens], mRNA sequence" 92926 BAI2 NM_001703 0.0403 Brain-specific angiogenesis inhibitor 2 123349 BCDO2 NM_031938 0.0404 Beta-carotene dioxygenase 2 102513 L3MBTL NM_015478 0.0404 L(3)mbt-like (Drosophila) 126654 ADSS NM_001126 0.0404 Adenylosuccinate synthase 2590 PFAS NM_012393 0.0405 Phosphoribosylformylglycina midine synthase (FGAR amidotransferase) 154321 AL832521 0.0405 MRNA; cDNA DKFZp666O071 (from clone DKFZp666O071) 98509 STK24 NM_003576 0.0405 "Serine/threonine kinase 24 (STE20 homolog, yeast)" 93291 EIF4A2 NM_001967 0.0405 "Eukaryotic translation initiation factor 4A, isoform 2" 100523 GOLGA4 AF273047 0.0405 "Golgi autoantigen, golgin subfamily a, 4" 43312 EMILIN2 NM_032048 0.0406 Elastin microfibril interfacer 2 7082 EIF3S5 NM_003754 0.0406 "Eukaryotic translation initiation factor 3, subunit 5 epsilon, 47kDa" 47023 ZNF347 NM_032584 0.0406 Zinc finger protein 347 165688 ITGA3 NM_002204 0.0406 "Integrin, alpha 3 (antigen CD49C, alpha 3 subunit of VLA-3 receptor)" 131536 N4BP3 AB002339 0.0406 Nedd4 binding protein 3 http://ard.bmj.com/ 36972 GCN5L2 NM_021078 0.0406 GCN5 general control of amino-acid synthesis 5-like 2 (yeast) 48763 CIRH1A NM_032830 0.0406 "Cirrhosis, autosomal recessive 1A (cirhin)"

185673 XM_353507 0.0407 on October 2, 2021 by guest. Protected copyright. 151799 BC035396 0.0407 "Homo sapiens, clone IMAGE:4826545, mRNA" 14547 KERA NM_007035 0.0407 Keratocan 161095 PLAGL1 BC021687 0.0407 Pleiomorphic adenoma gene- like 1 180296 XM_353021 0.0407 9337 ARHN NM_005440 0.0407 "Ras homolog gene family, member N" 101430 ELF1 NM_172373 0.0407 E74-like factor 1 (ets domain transcription factor) 115149 NOL5A NM_006392 0.0407 Nucleolar protein 5A (56kDa with KKE/D repeat) 79942 ZNF37A BC015858 0.0407 Zinc finger protein 37a (KOX 21) 130097 XM_351147 0.0407 15173 MCRS1 NM_006337 0.0408 Microspherule protein 1

141 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

140732 NM_015251 0.0408 123984 TSNAX NM_005999 0.0408 Translin-associated factor X 38933 HLA-DRB3 NM_021983 0.0408 "Major histocompatibility complex, class II, DR beta 4" 37622 LRAP NM_022350 0.0408 Leukocyte-derived arginine aminopeptidase 92401 PPP1R12A NM_002480 0.0409 "Protein phosphatase 1, regulatory (inhibitor) subunit 12A" 155580 PGAP1 BX537958 0.0409 GPI deacylase 98371 ZNF207 NM_003457 0.0409 Zinc finger protein 207 41666 FLJ13154 NM_024598 0.0409 Hypothetical protein FLJ13154 146491 NM_007113 0.0409 162067 RNH AK095144 0.0409 Ribonuclease/angiogenin inhibitor 27117 ABHD5 NM_016006 0.041 Abhydrolase domain containing 5 70358 AK027667 0.041 "unnamed protein product; Homo sapiens cDNA FLJ14761 fis, clone NT2RP3003302." 31555 STAP2 NM_017720 0.0411 Signal-transducing adaptor protein-2 54080 ZNF24 AF230200 0.0411 Zinc finger protein 24 (KOX 17) 169143 SLC22A17 NM_016609 0.0411 "Solute carrier family 22 (organic cation transporter), member 17" 90934 CRIP1 NM_001311 0.0412 Cysteine-rich protein 1 (intestinal) 28242 SIDT1 NM_017699 0.0412 "SID1 transmembrane family, member 1" http://ard.bmj.com/ 8564 GPSN2 NM_004868 0.0412 "Glycoprotein, synaptic 2" 47291 C7orf19 NM_032831 0.0412 Chromosome 7 open reading frame 19 38438 EFTUD1 NM_024580 0.0413 Elongation factor Tu GTP binding domain containing 1

153651 LOC147650 AK024362 0.0413 Hypothetical protein on October 2, 2021 by guest. Protected copyright. LOC147650 75792 DKFZp313N0621 NM_173826 0.0413 Hypothetical protein DKFZp313N0621 40055 DHX40 NM_024612 0.0413 DEAH (Asp-Glu-Ala-His) box polypeptide 40 53842 C14orf57 AF130112 0.0414 "predicted protein of HQ1953; Homo sapiens clone FLB7348 PRO1953 mRNA, complete cds." 91017 DNMT1 NM_001379 0.0414 DNA (cytosine-5-)- methyltransferase 1 13163 STK10 NM_005990 0.0414 Serine/threonine kinase 10 23492 DKFZP586L0724 NM_015462 0.0414 DKFZP586L0724 protein 76023 MGC27165 AY039025 0.0414 Hypothetical protein MGC27165 45896 CFHL5 NM_030787 0.0414 Complement factor H-related

142 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

5 30689 NM_018243 0.0414 Septin 11 167200 KIR2DL3 NM_014511 0.0414 "Killer cell immunoglobulin- like receptor, two domains, long cytoplasmic tail, 3" 11558 SMAD2 NM_005901 0.0414 "SMAD, mothers against DPP homolog 2 (Drosophila)" 186380 XM_353037 0.0414 7307 PHOX2B NM_003924 0.0415 Paired-like homeobox 2b 4461 SLC9A3 NM_004174 0.0415 "Solute carrier family 9 (sodium/hydrogen exchanger), isoform 3" 63101 OSTalpha NM_152672 0.0415 Organic solute transporter alpha 23402 TP53TG3 NM_015369 0.0415 TP53TG3 protein 42190 C10orf88 NM_024942 0.0415 Chromosome 10 open reading frame 88 18367 NTSR2 NM_012344 0.0415 Neurotensin receptor 2 129033 POLDIP3 NM_032311 0.0415 "Polymerase (DNA-directed), delta interacting protein 3" 172597 ZFYVE9 NM_004799 0.0415 "Zinc finger, FYVE domain containing 9" 9001 BMI1 NM_005180 0.0415 B lymphoma Mo-MLV insertion region (mouse) 24144 CPSF3 NM_016207 0.0415 "Cleavage and polyadenylation specific factor 3, 73kDa" 135490 SMG1 NM_014006 0.0415 PI-3-kinase-related kinase SMG-1 15436 HIC1 NM_006497 0.0415 Hypermethylated in cancer 1 89830 L1CAM NM_000425 0.0415 "L1 cell adhesion molecule (hydrocephalus, stenosis of aqueduct of Sylvius 1, MASA http://ard.bmj.com/ (mental retardation, aphasia, shuffling gait and adducted thumbs) syndrome, spastic paraplegia 1)" 17429 RY1 NM_006857 0.0415 Putative nucleic acid binding

protein RY-1 on October 2, 2021 by guest. Protected copyright. 15995 UPK3A NM_006953 0.0417 Uroplakin 3A 78268 TNRC15 BC012484 0.0417 "Homo sapiens cDNA clone IMAGE:4472100, partial cds." 128186 XRCC5 NM_021141 0.0417 "X-ray repair complementing defective repair in Chinese hamster cells 5 (double- strand-break rejoining; Ku autoantigen, 80kDa)" 5772 PSTPIP1 NM_003978 0.0417 Proline-serine-threonine phosphatase interacting protein 1 55281 MCFD2 NM_139279 0.0418 Multiple coagulation factor deficiency 2 81235 TOPORS BC013655 0.0418 "Topoisomerase I binding, arginine/serine-rich" 38153 MGC2731 NM_024068 0.0418 Hypothetical protein

143 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

MGC2731 42029 C10orf119 NM_024834 0.0418 Chromosome 10 open reading frame 119 33721 DHX36 NM_020865 0.0418 DEAH (Asp-Glu-Ala-His) box polypeptide 36 70569 AK057787 0.0418 "Transcribed locus, weakly similar to NP_787073.2 hypothetical protein MGC35023 [Homo sapiens]" 155319 LOC283738 AK097486 0.0418 Hypothetical protein LOC283738 185886 XM_353040 0.0418 98696 ORC5L NM_002553 0.0419 "Origin recognition complex, subunit 5-like (yeast)" 48886 PDXK NM_032920 0.0419 "Pyridoxal (pyridoxine, vitamin B6) kinase" 149725 AK000038 0.0419 "CDNA FLJ20031 fis, clone ADSU02180" 46752 MGC4399 NM_032315 0.0419 Mitochondrial carrier protein 77992 PANK2 BC008667 0.0419 Pantothenate kinase 2 (Hallervorden-Spatz syndrome) 13980 ZNF271 NM_006629 0.0419 Zinc finger protein 271 185033 XM_353164 0.0419 159944 BC045564 0.0419 "Homo sapiens, clone IMAGE:5265210, mRNA" 93671 KPNA2 NM_002266 0.0419 "Karyopherin alpha 2 (RAG cohort 1, importin alpha 1)" 82931 KIAA0033 D26067 0.0419 KIAA0033 protein 102782 GPRC5C NM_018653 0.042 "G protein-coupled receptor, family C, group 5, member C" 12846 G3BP NM_005754 0.042 Ras-GTPase-activating protein SH3-domain-binding http://ard.bmj.com/ protein 161378 LOC221272 AK025312 0.0421 Hypothetical protein LOC221272 40965 C14orf173 NM_022489 0.0421 Chromosome 14 open reading frame 173

87599 BIRC3 NM_001165 0.0421 Baculoviral IAP repeat- on October 2, 2021 by guest. Protected copyright. containing 3 69809 LOC377064 AK094187 0.0422 Kruppel-like zinc finger factor X17 40774 POPDC2 NM_022135 0.0422 Popeye domain containing 2 61761 POMZP3 NM_152992 0.0422 "POM (POM121 homolog, rat) and ZP3 fusion" 180660 na XM_211837 0.0422 Hypothetical LOC285307 156363 GPR144 NM_182611 0.0422 G protein-coupled receptor 144 85292 LOC284058 NM_015443 0.0422 Hypothetical protein LOC284058 161473 EXT1 BX537744 0.0422 Exostoses (multiple) 1 74555 LYRIC NM_178812 0.0422 LYRIC/3D3 15239 COVA1 NM_006375 0.0423 Cytosolic ovarian carcinoma antigen 1

144 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

75726 POM121 NM_172020 0.0423 POM121 membrane glycoprotein (rat) 6760 DGKI NM_004717 0.0423 "Diacylglycerol kinase, iota" 51221 AF058068 0.0423 "Homo sapiens clone ASPBLL39 immunoglobulin lambda light chain VJ region mRNA, partial cds." 75716 ZDHHC18 AL512765 0.0423 "Zinc finger, DHHC domain containing 18" 98440 HIST1H2BH NM_003524 0.0423 "Histone 1, H2bh" 47615 ADAM19 NM_033274 0.0423 A disintegrin and metalloproteinase domain 19 (meltrin beta) 149947 BI603295 0.0424 "603245153F1 NIH_MGC_96 Homo sapiens cDNA clone IMAGE:5287404 5', mRNA sequence." 4937 NSEP1 NM_004559 0.0424 Nuclease sensitive element binding protein 1 26818 EPC2 NM_015630 0.0425 Enhancer of polycomb homolog 2 (Drosophila) 36956 LTBP3 NM_021070 0.0425 Latent transforming growth factor beta binding protein 3 35004 PLSCR3 NM_020360 0.0425 Phospholipid scramblase 3 158658 FLJ20259 NM_017730 0.0425 FLJ20259 protein 44662 APG10L NM_031482 0.0425 APG10 autophagy 10-like (S. cerevisiae) 97847 SLC22A4 NM_003059 0.0425 "Solute carrier family 22 (organic cation transporter), member 4" 26527 ADCY6 NM_015270 0.0425 Adenylate cyclase 6 5596 RGS9 NM_003835 0.0425 Regulator of G-protein signalling 9 http://ard.bmj.com/ 110886 PSME1 NM_006263 0.0425 "Proteasome (prosome, macropain) activator subunit 1 (PA28 alpha)" 89266 NM_001208 0.0425 152207 AL049353 0.0425 HSPC082

148918 TJP1 AL109707 0.0425 Tight junction protein 1 (zona on October 2, 2021 by guest. Protected copyright. occludens 1) 151059 AKAP6 BC018078 0.0425 A kinase (PRKA) anchor protein 6 146702 KNDC1 XM_113594 0.0425 "synonyms: RASGEF2, C10orf23, bB439H18.3; isoform b is encoded by transcript variant 2; RasGEF domain family, member 2; chromosome 10 open reading frame 23; go_function: guanyl-nucleotide exchange factor activity [goid 0005085] [evidence IEA]; go_process: small GTPase mediated signal transduction [goid 0007264] [evidence IEA];

145 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Homo sapiens kinase non- catalytic C-lobe domain (KIND) containing 1 (KNDC1), transcript variant 2, mRNA." 40317 ARHGAP22 NM_021226 0.0425 Rho GTPase activating protein 22 7025 STC2 NM_003714 0.0425 Stanniocalcin 2 146133 AY010114 0.0426 Similar to Ribosome biogenesis protein BMS1 homolog 4012 ADAM20 NM_003814 0.0427 A disintegrin and metalloproteinase domain 20 127047 PPAT NM_002703 0.0427 Phosphoribosyl pyrophosphate amidotransferase 144778 DTNA NM_001391 0.0427 "Dystrobrevin, alpha" 110195 NM_024802 0.0427 8732 MMP9 NM_004994 0.0428 "Matrix metalloproteinase 9 (gelatinase B, 92kDa gelatinase, 92kDa type IV collagenase)" 103385 COL5A2 NM_000393 0.0428 "Collagen, type V, alpha 2" 50269 ATAD1 NM_032810 0.0428 "ATPase family, AAA domain containing 1" 31701 ADPRHL2 NM_017825 0.0428 ADP-ribosylhydrolase like 2 16270 HPS5 NM_007216 0.0428 Hermansky-Pudlak syndrome 5 27311 DNCLI1 NM_016141 0.0428 "Dynein, cytoplasmic, light intermediate polypeptide 1" 79500 BC008642 0.0429 "Transcribed locus, moderately similar to NP_976051.1 hypothetical protein MGC39606 [Homo http://ard.bmj.com/ sapiens]" 89378 AP2B1 NM_001282 0.0429 "Adaptor-related protein complex 2, beta 1 subunit" 21464 KCNH4 NM_012285 0.0429 "Potassium voltage-gated channel, subfamily H (eag-

related), member 4" on October 2, 2021 by guest. Protected copyright. 80170 BLOC1S2 NM_173809 0.0429 "Biogenesis of lysosome- related organelles complex-1, subunit 2" 28153 FAM29A NM_017645 0.043 "Family with sequence similarity 29, member A" 58531 FLJ32332 NM_144641 0.043 Likely ortholog of mouse protein phosphatase 2C eta 4448 RAB5A NM_004162 0.043 "RAB5A, member RAS oncogene family" 21595 PTPN22 NM_012411 0.043 "Protein tyrosine phosphatase, non-receptor type 22 (lymphoid)" 128305 C6orf62 NM_030939 0.043 Chromosome 6 open reading frame 62 87938 MYH7 NM_000257 0.043 "Myosin, heavy polypeptide 7, cardiac muscle, beta"

146 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

17685 CDC37 NM_007065 0.043 CDC37 cell division cycle 37 homolog (S. cerevisiae) 156117 XM_298601 0.0431 84658 IGLV M99606 0.0431 "IgG to Puumala virus G2, light chain variable region" 24980 PANX1 NM_015368 0.0431 Pannexin 1 34227 THEM2 NM_018473 0.0431 Thioesterase superfamily member 2 99532 STXBP1 NM_003165 0.0431 Syntaxin binding protein 1 127016 CPOX NM_000097 0.0432 Coproporphyrinogen oxidase 61847 AMICA NM_153206 0.0432 Adhesion molecule AMICA 9031 MAP3K8 NM_005204 0.0432 Mitogen-activated protein kinase kinase kinase 8 32443 RIF1 NM_018372 0.0432 Receptor-interacting factor 1 55211 STARD4 NM_139164 0.0432 "START domain containing 4, sterol regulated" 141965 MCLC NM_015127 0.0432 Mid-1-related chloride channel 1 36722 CYP20A1 NM_020674 0.0432 "Cytochrome P450, family 20, subfamily A, polypeptide 1" 108885 SNX14 NM_020468 0.0433 Sorting nexin 14 112603 RPN2 NM_002951 0.0433 Ribophorin II 145967 MBL1P1 AF019382 0.0433 "Mannose-binding lectin (protein A) 1, pseudogene 1" 61704 PIGO NM_152850 0.0433 "Phosphatidylinositol glycan, class O" 30511 FLJ10504 NM_018116 0.0433 Misato 17076 CCT8 NM_006585 0.0433 "Chaperonin containing TCP1, subunit 8 (theta)" 184223 XM_353401 0.0434 87408 RPL38 NM_000999 0.0434 Ribosomal protein L38

10743 HCCS NM_005333 0.0434 Holocytochrome c synthase http://ard.bmj.com/ (cytochrome c heme-lyase) 181766 XM_350936 0.0434 55499 MGC23911 NM_144676 0.0434 Hypothetical protein MGC23911 94387 ARCN1 NM_001655 0.0434 Archain 1 89315 TNFSF8 NM_001244 0.0435 "Tumor necrosis factor (ligand) superfamily, member on October 2, 2021 by guest. Protected copyright. 8" 82532 HEXA BC034424 0.0435 Hexosaminidase A (alpha polypeptide) 41639 GALNT14 NM_024572 0.0435 UDP-N-acetyl-alpha-D- galactosamine:polypeptide N- acetylgalactosaminyltransfera se 14 (GalNAc-T14) 10585 E2F1 NM_005225 0.0435 E2F transcription factor 1 7580 PSMB8 NM_004159 0.0435 "Proteasome (prosome, macropain) subunit, beta type, 8 (large multifunctional protease 7)" 59393 BTBD11 NM_152322 0.0435 BTB (POZ) domain containing 11 30524 PNPO NM_018129 0.0435 Pyridoxine-5'-phosphate

147 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

oxidase 48641 INA NM_032727 0.0435 "Internexin neuronal intermediate filament protein, alpha" 181490 XM_351860 0.0435 36452 ZA20D1 NM_020205 0.0435 "Zinc finger, A20 domain containing 1" 169260 ADAMTSL1 NM_052866 0.0435 ADAMTS-like 1 136159 C21orf45 NM_018944 0.0435 Chromosome 21 open reading frame 45 97678 RGS2 NM_002923 0.0435 "Regulator of G-protein signalling 2, 24kDa" 11612 MLLT7 NM_005938 0.0435 "Myeloid/lymphoid or mixed- lineage leukemia (trithorax homolog, Drosophila); translocated to, 7" 76858 MGC57211 NM_175878 0.0435 Hypothetical protein MGC57211 159909 TMC3 NM_181841 0.0436 Transmembrane channel-like 3 96721 USP1 NM_003368 0.0436 Ubiquitin specific protease 1 61873 CILP2 NM_153221 0.0436 Cartilage intermediate layer protein 2 13964 AHCYL1 NM_006621 0.0436 S-adenosylhomocysteine hydrolase-like 1 24944 FEM1B NM_015322 0.0436 Fem-1 homolog b (C. elegans) 87454 SI NM_001041 0.0436 Sucrase-isomaltase (alpha- glucosidase) 66920 AF462683 0.0436 Isolate TASS immunoglobulin light chain variable region 103881 ERF W86216 0.0436 Ets2 repressor factor 99297 SECTM1 NM_003004 0.0436 Secreted and transmembrane http://ard.bmj.com/ 1 58589 ZNF480 NM_144684 0.0436 Zinc finger protein 480 14032 RAI NM_006663 0.0436 RelA-associated inhibitor 32586 FAM45B NM_018472 0.0436 "Family with sequence similarity 45, member B" 93553 IFNA5 NM_002169 0.0436 "Interferon, alpha 5" on October 2, 2021 by guest. Protected copyright. 84167 LOC126731 BC039241 0.0437 LOC126731 62564 FLJ25414 NM_152343 0.0437 Hypothetical protein FLJ25414 96193 XCL1 NM_002995 0.0437 Chemokine (C motif) ligand 1 175502 ARNT NM_178426 0.0437 Aryl hydrocarbon receptor nuclear translocator 71725 KIAA1404 NM_021035 0.0437 KIAA1404 protein 129170 SYCP3 NM_153694 0.0438 Synaptonemal complex protein 3 83639 CLASP1 NM_015282 0.0438 Cytoplasmic linker associated protein 1 17570 SLC39A7 NM_006979 0.0438 "Solute carrier family 39 (zinc transporter), member 7" 118869 FKSG14 NM_022145 0.0439 Leucine zipper protein FKSG14

148 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

52057 MTAP AF216650 0.0439 Methylthioadenosine phosphorylase 21616 RSU1 NM_012425 0.0439 Ras suppressor protein 1 20528 AD-003 NM_014064 0.0439 AD-003 protein 137965 LOC151534 NM_138482 0.0439 Hypothetical protein BC009264 60632 RYD5 NM_145651 0.0439 Ligand binding protein RYD5 64730 C10orf67 NM_153714 0.044 Chromosome 10 open reading frame 67 103931 AA496792 0.044 "ae33f09.s1 Gessler Wilms tumor Homo sapiens cDNA clone IMAGE:897641 3', mRNA sequence." 10224 IDE NM_004969 0.044 Insulin-degrading enzyme 3026 KIAA1458 AB040891 0.044 KIAA1458 protein 95758 PLRG1 NM_002669 0.044 "Pleiotropic regulator 1 (PRL1homolog, Arabidopsis)" 76916 STX12 NM_177424 0.044 Syntaxin 12 139000 ENPP6 NM_153343 0.0441 Ectonucleotide pyrophosphatase/phosphodie sterase 6 49977 SPRL6A NM_032563 0.0441 Small proline rich-like (epidermal differentiation complex) 6A 128793 RAB18 NM_021252 0.0441 "RAB18, member RAS oncogene family" 36844 PLEKHA4 NM_020904 0.0442 "Pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 4" 93459 GPX3 NM_002084 0.0442 Glutathione peroxidase 3 (plasma) 96643 TTC1 NM_003314 0.0442 Tetratricopeptide repeat http://ard.bmj.com/ domain 1 65577 AF304443 0.0442 "Homo sapiens B lymphocyte activation-related protein BC- 2048 mRNA, complete cds." 73770 LOC286359 NM_182600 0.0442 Hypothetical protein

LOC286359 on October 2, 2021 by guest. Protected copyright. 165733 HSHIN1 NM_014928 0.0442 "synonyms: HIN1, KIAA1046, DKFZp434I0721; isoform 2 is encoded by transcript variant 2; go_component: cellular_component unknown [goid 0008372] [evidence ND]; go_function: molecular_function unknown [goid 0005554] [evidence ND]; go_process: biological_process unknown [goid 0000004] [evidence ND]; Homo sapiens HIV-1 induced protein HIN-1 (HSHIN1), transcript variant 2, mRNA."

149 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

61522 FLJ33641 NM_152687 0.0442 Hypothetical protein FLJ33641 151203 EIF3S8 BC000533 0.0442 "Eukaryotic translation initiation factor 3, subunit 8, 110kDa" 68729 RAB11FIP1 AK026275 0.0442 RAB11 family interacting protein 1 (class I) 172818 TXNDC5 NM_022085 0.0442 Thioredoxin domain containing 5 127096 SMC4L1 NM_005496 0.0442 SMC4 structural maintenance of chromosomes 4-like 1 (yeast) 136405 WHSC1 NM_014919 0.0443 Wolf-Hirschhorn syndrome candidate 1 129890 PHF12 NM_020889 0.0443 PHD finger protein 12 45157 XM_352890 0.0443 116043 WASL NM_003941 0.0443 Wiskott-Aldrich syndrome-like 78881 MGC26717 NM_173824 0.0443 Hypothetical protein MGC26717 30214 FLJ20701 NM_017933 0.0443 Hypothetical protein FLJ20701 39175 LHX5 NM_022363 0.0444 LIM homeobox 5 111943 TIGD1 NM_145702 0.0444 Tigger transposable element derived 1 29805 ZNF562 NM_017656 0.0444 Zinc finger protein 562 102121 MRPL27 NM_016504 0.0445 Mitochondrial ribosomal protein L27 146931 AY245869 0.0445 MRNA sequence 87519 AADAC NM_001086 0.0445 Arylacetamide deacetylase (esterase) 80282 C10orf83 BC022054 0.0446 Chromosome 10 open reading frame 83 http://ard.bmj.com/ 158356 PIP5K2B AK095097 0.0446 "Phosphatidylinositol-4- phosphate 5-kinase, type II, beta" 34491 TAS2R5 NM_018980 0.0446 "Taste receptor, type 2, member 5" 156606 AK055320 0.0446 Hypothetical gene supported by AK055320 on October 2, 2021 by guest. Protected copyright. 91464 CA1 NM_001738 0.0446 Carbonic anhydrase I 182885 XM_352237 0.0448 77065 FBXO31 AL136762 0.0448 F-box protein 31 11683 RPL10 NM_006013 0.0448 Ribosomal protein L10 180814 XM_353808 0.0448 110109 XM_352893 0.0448 45498 FLJ20972 NM_025030 0.0448 Hypothetical protein FLJ20972 15460 SLC2A1 NM_006516 0.0448 "Solute carrier family 2 (facilitated glucose transporter), member 1" 74125 DKFZp434H0512 AL137620 0.0448 NAG11 (NAG11) 72242 VGLL4 AK058041 0.0448 Vestigial like 4 (Drosophila) 49598 FLJ13291 NM_032178 0.0449 Hypothetical protein FLJ13291

150 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

110987 NM_031407 0.0449 2902 KIAA1223 XM_048747 0.0449 KIAA1223 protein 73631 AK097358 0.045 "CDNA FLJ40039 fis, clone SYNOV2000397" 6670 PABPN1 NM_004643 0.0451 "Poly(A) binding protein, nuclear 1" 75774 DKFZp761D1918 AL831916 0.0451 Similar to hypothetical protein 46987 FLJ14753 NM_032558 0.0451 Hypothetical protein FLJ14753 47 RBM5 NM_005778 0.0451 RNA binding motif protein 5 7520 FKBP5 NM_004117 0.0452 FK506 binding protein 5 186406 KRTAP10-10 NM_181688 0.0452 Keratin associated protein 10- 10 7487 DUSP3 NM_004090 0.0452 Dual specificity phosphatase 3 (vaccinia virus phosphatase VH1-related) 12715 TCEB1 NM_005648 0.0452 "Transcription elongation factor B (SIII), polypeptide 1 (15kDa, elongin C)" 58174 LOC91137 NM_138773 0.0453 Hypothetical protein BC017169 62776 NM_152469 0.0454 33257 OLFML3 NM_020190 0.0454 Olfactomedin-like 3 157498 XM_290557 0.0454 74210 KIAA1632 XM_038864 0.0454 "Homo sapiens KIAA1632 protein (KIAA1632), mRNA." 11297 ERAL1 NM_005702 0.0454 Era G-protein-like 1 (E. coli) 93298 EMR1 NM_001974 0.0454 "Egf-like module containing, mucin-like, hormone receptor- like 1" 86750 LDLR NM_000527 0.0455 Low density lipoprotein receptor (familial http://ard.bmj.com/ hypercholesterolemia) 99621 TGM3 NM_003245 0.0455 "Transglutaminase 3 (E polypeptide, protein- glutamine-gamma- glutamyltransferase)" 3262 RKHD1 AB062435 0.0455 Ring finger and KH domain containing 1 on October 2, 2021 by guest. Protected copyright. 21759 MAT2B NM_013283 0.0455 "Methionine adenosyltransferase II, beta" 91247 IGSF3 NM_001542 0.0455 "Immunoglobulin superfamily, member 3" 88023 PROS1 NM_000313 0.0455 Protein S (alpha) 99060 PSMD13 NM_002817 0.0455 "Proteasome (prosome, macropain) 26S subunit, non- ATPase, 13" 62441 PSMA3 NM_152132 0.0455 "Proteasome (prosome, macropain) subunit, alpha type, 3" 150015 AF075063 0.0455 Full length insert cDNA YP99D02 181673 XM_353327 0.0456 145230 DPH2L1 NM_001383 0.0456 Candidate tumor suppressor in ovarian cancer 2

151 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

9609 TRAF1 NM_005658 0.0456 TNF receptor-associated factor 1 78143 BICD2 BC010428 0.0456 Bicaudal D homolog 2 (Drosophila) 98382 CXCR4 NM_003467 0.0456 Chemokine (C-X-C motif) receptor 4 177799 MAGEA2 NM_005361 0.0456 "Melanoma antigen, family A, 2" 75671 LOC58489 XM_051862 0.0457 Hypothetical protein from EUROIMAGE 588495 15231 MUF1 NM_006369 0.0457 MUF1 protein 170270 HSPDP3 M34661 0.0457 Human chaperonin (HSP60) non-functional pseudogene 3. 13225 DSCR3 NM_006052 0.0457 Down syndrome critical region gene 3 93821 MCM3 NM_002388 0.0457 MCM3 minichromosome maintenance deficient 3 (S. cerevisiae) 62699 FRMPD2 NM_152428 0.0458 FERM and PDZ domain containing 2 2762 KIAA0882 XM_093895 0.0458 KIAA0882 protein 157892 AK057579 0.0458 "CDNA FLJ33017 fis, clone THYMU1000440" 95615 PABPC1 NM_002568 0.0458 "Poly(A) binding protein, cytoplasmic 1" 25716 TAO1 NM_016151 0.0458 Thousand and one amino acid protein kinase 43029 MARK4 NM_031417 0.0458 MAP/microtubule affinity- regulating kinase 4 49857 HOOK3 NM_032410 0.0459 Hook homolog 3 (Drosophila) 68704 AK024684 0.0459 "unnamed protein product; Homo sapiens cDNA: FLJ21031 fis, clone http://ard.bmj.com/ CAE07336." 27099 ADIPOR1 NM_015999 0.0459 Adiponectin receptor 1 104037 C9orf88 N34466 0.046 Chromosome 9 open reading frame 88 101077 SLC25A6 NM_001636 0.046 "Solute carrier family 25

(mitochondrial carrier; on October 2, 2021 by guest. Protected copyright. adenine nucleotide translocator), member 6" 27871 FAM49B NM_016623 0.046 "Family with sequence similarity 49, member B" 103637 ZNF3 NM_032924 0.046 Zinc finger protein 3 (A8-51) 70506 UNQ5783 AK057142 0.046 DTFT5783 113099 LTB4DH NM_012212 0.046 Leukotriene B4 12- hydroxydehydrogenase 136775 UBE2Q NM_017582 0.046 Ubiquitin-conjugating enzyme E2Q (putative) 32796 DKFZp762O076 NM_018710 0.046 Hypothetical protein DKFZp762O076 91445 POLR3D NM_001722 0.046 "Polymerase (RNA) III (DNA directed) polypeptide D, 44kDa" 31988 FLJ10246 NM_018038 0.046 Hypothetical protein

152 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

FLJ10246 11474 TIMM17B NM_005834 0.046 Translocase of inner mitochondrial membrane 17 homolog B (yeast) 72290 FLJ00254 AK074181 0.046 FLJ00254 protein. 91932 GYPA NM_002099 0.0461 Glycophorin A (includes MN blood group) 63684 CPNE8 NM_153634 0.0461 Copine VIII 45596 C13orf18 NM_025113 0.0461 Chromosome 13 open reading frame 18 149098 INHBA AK001903 0.0461 "Inhibin, beta A (activin A, activin AB alpha polypeptide)" 41468 MGC2941 NM_024297 0.0461 Hypothetical protein MGC2941 182321 XM_353367 0.0461 159597 RAD54B AK074272 0.0462 Fibrinogen silencer binding protein 163631 TBX3 NM_016569 0.0462 T-box 3 (ulnar mammary syndrome) 50741 MAPK8IP3 NM_033392 0.0463 Mitogen-activated protein kinase 8 interacting protein 3 39267 SUSD1 NM_022486 0.0463 Sushi domain containing 1 62598 FLJ38984 NM_152374 0.0463 Hypothetical protein FLJ38984 154728 BC035876 0.0464 "Homo sapiens, clone IMAGE:4513167, mRNA" 19851 SCAP NM_012235 0.0464 SREBP CLEAVAGE- ACTIVATING PROTEIN 102908 CSHL1 NM_022578 0.0464 "synonyms: CSL, CS-5, CSHP1, hCS-L; isoform 3 is encoded by transcript variant 3; chorionic somatomammotropin CS-5; http://ard.bmj.com/ go_component: extracellular [goid 0005576] [evidence IEA]; go_function: hormone activity [goid 0005179] [evidence IEA]; go_function:

hormone activity [goid on October 2, 2021 by guest. Protected copyright. 0005179] [evidence NAS] [pmid 2744760]; go_function: structural constituent of chorion (sensu Insecta) [goid 0005213] [evidence IEA]; go_process: biological_process unknown [goid 0000004] [evidence ND]; Homo sapiens chorionic somatomammotropin hormone-like 1 (CSHL1), transcript variant 3, mRNA." 167594 APEX1 NM_001641 0.0465 APEX nuclease (multifunctional DNA repair enzyme) 1 23469 NICE-3 NM_015449 0.0465 NICE-3 protein

153 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

181933 XM_352048 0.0465 121641 SEC14L4 NM_174977 0.0465 SEC14-like 4 (S. cerevisiae) 33696 WDFY1 NM_020830 0.0465 WD repeat and FYVE domain containing 1 14822 SIRPB1 NM_006065 0.0466 Signal-regulatory protein beta 1 98265 VDAC1 NM_003374 0.0466 Voltage-dependent anion channel 1 96932 HIST1H3B NM_003537 0.0467 "Histone 1, H3b" 96862 KCNAB1 NM_003471 0.0467 "Potassium voltage-gated channel, shaker-related subfamily, beta member 1" 59160 EVC2 NM_147127 0.0467 Ellis van Creveld syndrome 2 (limbin) 38673 ZF NM_021212 0.0467 HCF-binding transcription factor Zhangfei 17996 KLRK1 NM_007360 0.0467 "Killer cell lectin-like receptor subfamily K, member 1" 30656 PANK4 NM_018216 0.0467 Pantothenate kinase 4 135574 ARMCX4 NM_152583 0.0467 "Armadillo repeat containing, X-linked 4" 153678 AL049986 0.0467 "Transcribed locus, weakly similar to XP_375099.1 hypothetical protein LOC283585 [Homo sapiens]" 22147 C6orf66 NM_014165 0.0467 Chromosome 6 open reading frame 66 60166 LOC129285 NM_152994 0.0467 Smooth muscle myosin heavy chain 11 isoform SM1-like 45889 SYNCOILIN NM_030786 0.0467 Intermediate filament protein syncoilin 37575 XYLT2 NM_022167 0.0467 Xylosyltransferase II 7298 TIMELESS NM_003920 0.0467 Timeless homolog http://ard.bmj.com/ (Drosophila) 5660 DDEF2 NM_003887 0.0467 Development and differentiation enhancing factor 2 79477 CDAN1 NM_138477 0.0467 "Congenital dyserythropoietic

anemia, type I" on October 2, 2021 by guest. Protected copyright. 88152 FLJ38564 NM_000390 0.0467 Hypothetical protein FLJ38564 185945 XM_352807 0.0467 184771 XM_353374 0.0467 48185 ZMYND15 NM_032265 0.0467 "Zinc finger, MYND domain containing 15" 46032 PPP1R14C NM_030949 0.0467 "Protein phosphatase 1, regulatory (inhibitor) subunit 14C" 111218 CCT2 NM_006431 0.0467 "Chaperonin containing TCP1, subunit 2 (beta)" 92770 IL13RA1 NM_001560 0.0468 "Interleukin 13 receptor, alpha 1" 27408 SNX9 NM_016224 0.0468 Sorting nexin 9 147412 MGC33094 NM_152585 0.0468 "RNA binding motif protein, Y- linked, family 1"

154 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

163486 ATXN2L NM_007245 0.0468 Ataxin 2-like 96396 SSR1 NM_003144 0.0468 "Signal sequence receptor, alpha (translocon-associated protein alpha)" 21222 DDX42 NM_007372 0.0468 DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 149208 LOC256273 AK000908 0.0469 Hypothetical protein LOC256273 2507 TCRBV2S1- AF043182 0.0469 T cell receptor beta chain TCRBJ2S5 BV20S1 BJ1-5 BC1 164576 MAP3K4 NM_005922 0.0469 Mitogen-activated protein kinase kinase kinase 4 44237 KIAA1720 NM_030645 0.0469 KIAA1720 protein 78915 C1orf31 BC025793 0.0469 Chromosome 1 open reading frame 31 9557 RTN2 NM_005619 0.0469 Reticulon 2 59058 NM_145661 0.047 93760 LTB NM_002341 0.047 "Lymphotoxin beta (TNF superfamily, member 3)" 41622 FLJ21103 NM_024556 0.047 Hypothetical protein FLJ21103 136749 DKFZP547E1010 NM_015607 0.047 DKFZP547E1010 protein 181703 XM_067193 0.047 25287 NM_015699 0.047 34417 MYO5C NM_018728 0.0471 Myosin VC 27288 COPS4 NM_016129 0.0471 COP9 constitutive photomorphogenic homolog subunit 4 (Arabidopsis) 52339 AF063719 0.0471 "Transcribed locus, weakly similar to XP_231999.2 similar to Ig variable region, light chain [Rattus norvegicus]" http://ard.bmj.com/ 36504 NPD014 NM_020317 0.0471 NPD014 protein 28410 CXorf17 NM_017848 0.0471 Chromosome X open reading frame 17 156242 BC040576 0.0471 Hypothetical gene supported by BC040576 152376 BC008503 0.0471 LOC439964 on October 2, 2021 by guest. Protected copyright. 97305 PLD1 NM_002662 0.0471 "Phospholipase D1, phophatidylcholine-specific" 137795 LOC84661 NM_032574 0.0471 Dpy-30-like protein 8638 SEC24C NM_004922 0.0472 FLJ44715 gene product 110409 Y10529 0.0473 "Transcribed locus, moderately similar to XP_497371.1 olfactory receptor, family 7, subfamily E, member 31 pseudogene [Homo sapiens]" 39226 COP1 NM_022457 0.0473 Constitutive photomorphogenic protein 158616 LOC90246 AK023635 0.0473 Hypothetical protein LOC90246 155334 LOC92270 AK094973 0.0473 Hypothetical protein LOC92270

155 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

20165 AGC1 NM_013227 0.0474 "Aggrecan 1 (chondroitin sulfate proteoglycan 1, large aggregating proteoglycan, antigen identified by monoclonal antibody A0122)" 35394 IFNA6 NM_021002 0.0474 "Interferon, alpha 6" 1427 PPFIA3 NM_003660 0.0474 "Protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 3" 27730 SCLY NM_016510 0.0474 Selenocysteine lyase 80285 NM_178511 0.0475 154387 AK021754 0.0475 "CDNA FLJ11692 fis, clone HEMBA1004983" 7760 NFE2L3 NM_004289 0.0475 Nuclear factor (erythroid- derived 2)-like 3 66935 CKLFSF8 NM_178868 0.0475 Chemokine-like factor super family 8 97790 SFTPC NM_003018 0.0476 "Surfactant, pulmonary- associated protein C" 132870 ZSWIM1 NM_080603 0.0476 "Zinc finger, SWIM domain containing 1" 158111 BC034811 0.0477 "Homo sapiens, clone IMAGE:4822062, mRNA" 121545 RFC3 NM_002915 0.0477 "Replication factor C (activator 1) 3, 38kDa" 48856 APG4D NM_032885 0.0477 APG4 autophagy 4 homolog D (S. cerevisiae) 185569 XM_353032 0.0477 104498 AKAP1 NM_003488 0.0477 A kinase (PRKA) anchor protein 1 30955 GLTP NM_016433 0.0477 Glycolipid transfer protein http://ard.bmj.com/ 153320 BC009060 0.0477 Similar to F4N2.10 50930 MGC17330 NM_052880 0.0477 HGFL gene 69247 SIMP AK075380 0.0477 Source of immunodominant MHC-associated peptides 107452 R85840 0.0477 Transcribed locus

178966 TRAF6 NM_004620 0.0477 TNF receptor-associated on October 2, 2021 by guest. Protected copyright. factor 6 85105 C22orf1 BC034024 0.0477 Chromosome 22 open reading frame 1 153524 AK093984 0.0478 "Homo sapiens cDNA FLJ36665 fis, clone UTERU2003035." 158016 TTC15 AK094194 0.0478 Tetratricopeptide repeat domain 15 86099 AVPR2 NM_000054 0.0478 Arginine vasopressin receptor 2 (nephrogenic diabetes insipidus) 53801 POLE1 AF128541 0.0478 DNA polymerase epsilon catalytic subunit isoform a (POLE1) 6065 STK17B NM_004226 0.0478 Serine/threonine kinase 17b (apoptosis-inducing)

156 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

88905 NPR1 NM_000906 0.0478 Natriuretic peptide receptor A/guanylate cyclase A (atrionatriuretic peptide receptor A) 31053 VPS54 NM_016516 0.0479 Vacuolar protein sorting 54 (yeast) 54406 SPAG4L NM_080675 0.0479 Sperm associated antigen 4- like 29642 OR7A5 NM_017506 0.048 "Olfactory receptor, family 7, subfamily A, member 5" 186679 KIAA1609 NM_020947 0.048 KIAA1609 protein 5563 MYH13 NM_003802 0.048 "Myosin, heavy polypeptide 13, skeletal muscle" 41661 FLJ13352 NM_024592 0.0482 Hypothetical protein FLJ13352 63362 STEAP2 NM_152999 0.0482 Six transmembrane epithelial antigen of prostate 2 87803 GALK1 NM_000154 0.0482 Galactokinase 1 45865 NSBP1 NM_030763 0.0482 Nucleosomal binding protein 1 182972 na XM_086308 0.0482 Hypothetical LOC148766 38940 ZNF277 NM_021994 0.0482 Zinc finger protein (C2H2 type) 277 11634 MYH1 NM_005963 0.0482 "Myosin, heavy polypeptide 1, skeletal muscle, adult" 44953 ANKRD27 NM_032139 0.0482 Ankyrin repeat domain 27 (VPS9 domain) 82558 FLJ31306 BC034618 0.0482 Hypothetical protein FLJ31306 93034 CD2 NM_001767 0.0482 "CD2 antigen (p50), sheep red blood cell receptor" 25876 S100A6 NM_014624 0.0482 S100 calcium binding protein A6 (calcyclin) http://ard.bmj.com/ 98847 PLCG2 NM_002661 0.0482 "Phospholipase C, gamma 2 (phosphatidylinositol- specific)" 50213 MINA NM_032778 0.0482 MYC induced nuclear antigen 171 NY-REN-7 AB018295 0.0482 NY-REN-7 antigen

156129 AK056780 0.0482 Hypothetical LOC255187 on October 2, 2021 by guest. Protected copyright. 13601 TIMM23 NM_006327 0.0482 Translocase of inner mitochondrial membrane 23 homolog (yeast) 150735 POLR1B AL355692 0.0482 "Polymerase (RNA) I polypeptide B, 128kDa" 61611 NM_152746 0.0482 184613 XM_353180 0.0482 7493 EIF4EBP2 NM_004096 0.0482 Eukaryotic translation initiation factor 4E binding protein 2 74397 KIAA1219 XM_028835 0.0483 "Homo sapiens KIAA1219 protein (KIAA1219), mRNA." 63707 FLJ90724 NM_153692 0.0483 Hypothetical protein FLJ90724 85213 MGC33211 BC034999 0.0483 Similar to RIKEN cDNA 4933439B08 gene

157 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

98323 ZNF43 NM_003423 0.0483 Zinc finger protein 43 (HTF6) 101550 CREB1 NM_004379 0.0483 CAMP responsive element binding protein 1 97198 P2RY11 NM_002566 0.0483 "Purinergic receptor P2Y, G- protein coupled, 11" 99468 SPTAN1 NM_003127 0.0483 "Spectrin, alpha, non- erythrocytic 1 (alpha-fodrin)" 159152 AK094727 0.0483 "CDNA FLJ37408 fis, clone BRAMY2028491" 162579 LOC145678 AL109682 0.0483 Hypothetical protein LOC145678 80513 ZBP1 BC028218 0.0484 Z-DNA binding protein 1 70283 PPP1R3E AK024489 0.0484 "Protein phosphatase 1, regulatory (inhibitor) subunit 3E" 140947 RTN4RL2 NM_178570 0.0484 Reticulon 4 receptor-like 2 43008 SCRT1 NM_031309 0.0484 "Scratch homolog 1, zinc finger protein (Drosophila)" 4136 APPBP1 NM_003905 0.0484 "Amyloid beta precursor protein binding protein 1, 59kDa" 4864 IDI1 NM_004508 0.0484 Isopentenyl-diphosphate delta isomerase 26156 TOMM70A NM_014820 0.0484 Translocase of outer mitochondrial membrane 70 homolog A (yeast) 110157 PCDHB10 NM_018930 0.0484 Protocadherin beta 10 108904 ATP6V0A4 NM_020632 0.0484 "ATPase, H+ transporting, lysosomal V0 subunit a isoform 4" 14051 CMRF35 NM_006678 0.0485 CMRF35 leukocyte immunoglobulin-like receptor 90841 SIGLEC6 NM_001245 0.0485 Sialic acid binding Ig-like http://ard.bmj.com/ lectin 6 18950 NM_014099 0.0485 107224 KIAA0423 H17020 0.0486 KIAA0423 51059 ZFP91 NM_053023 0.0487 Zinc finger protein 91 homolog (mouse)

49395 SIGLEC11 NM_052884 0.0487 Sialic acid binding Ig-like on October 2, 2021 by guest. Protected copyright. lectin 11 120760 C7orf13 NM_032625 0.0487 Chromosome 7 open reading frame 13 157480 LOC158434 AK055173 0.0487 Hypothetical protein LOC158434 119131 DDX3X NM_001356 0.0487 "DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, X-linked" 81781 KIAA0553 BC024147 0.0487 KIAA0553 protein 137765 FLJ32312 NM_144709 0.0487 Hypothetical protein FLJ32312 61698 LOC149420 NM_152835 0.0487 Casein kinase 68447 ZNF248 NM_021045 0.0488 Zinc finger protein 248 114212 ACTR2 NM_005722 0.0488 ARP2 actin-related protein 2 homolog (yeast) 153085 BC052596 0.0489 Hypothetical gene supported by BC052596

158 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

104580 CTSC NM_001814 0.0489 Cathepsin C 43250 KRTAP9-3 NM_031962 0.0489 Keratin associated protein 9-3 11231 TIEG NM_005655 0.0489 TGFB inducible early growth response 149584 NCAM1 AL050053 0.0489 Neural cell adhesion molecule 1 76967 ZNF364 NM_014455 0.0489 Zinc finger protein 364 44553 MXD3 NM_031300 0.0489 MAX dimerization protein 3 14480 NPM3 NM_006993 0.0489 "Nucleophosmin/nucleoplasmi n, 3" 162679 LOC388389 AK023156 0.049 Similar to RIKEN 4933439F11 71547 LOC284296 NM_175908 0.049 Hypothetical protein LOC284296 72449 WNT11 AK075540 0.049 "Wingless-type MMTV integration site family, member 11" 93324 EVX1 NM_001989 0.049 "Eve, even-skipped homeo box homolog 1 (Drosophila)" 84664 ACADM NM_000016 0.049 "Acyl-Coenzyme A dehydrogenase, C-4 to C-12 straight chain" 97617 RASA1 NM_002890 0.049 RAS p21 protein activator (GTPase activating protein) 1 14313 TDRKH NM_006862 0.0491 Tudor and KH domain containing 156164 LOC285908 AL833527 0.0492 Hypothetical protein LOC285908 47558 KRTAP9-4 NM_033191 0.0492 Keratin associated protein 9-4 109989 BC015333 0.0492 716 SH3MD2 AB062480 0.0492 SH3 multiple domains 2 27766 MST4 NM_016542 0.0492 Mst3 and SOK1-related http://ard.bmj.com/ kinase 149752 LOC199800 AL359598 0.0493 Hypothetical protein LOC199800 11650 SPRR1A NM_005987 0.0493 Small proline-rich protein 1A 113714 XM_351933 0.0493 43744 NM_024916 0.0493 150703 BC017428 0.0493 "Homo sapiens, clone on October 2, 2021 by guest. Protected copyright. IMAGE:4703783, mRNA" 122340 FLJ10774 NM_024662 0.0493 N-acetyltransferase-like protein 37831 C9orf12 NM_022755 0.0493 Chromosome 9 open reading frame 12 87218 HMGCR NM_000859 0.0493 3-hydroxy-3-methylglutaryl- Coenzyme A reductase 102839 BVES NM_007073 0.0493 Blood vessel epicardial substance 1494 PLEKHM2 AB020649 0.0493 "Pleckstrin homology domain containing, family M (with RUN domain) member 2" 93689 KRTHB1 NM_002281 0.0493 "Keratin, hair, basic, 1" 112531 OK/SW-cl.56 NM_178014 0.0494 Beta 5-tubulin 32957 FLJ20152 NM_019000 0.0494 Hypothetical protein

159 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

FLJ20152 126152 HEAB NM_006831 0.0494 ATP/GTP-binding protein 87897 SGCG NM_000231 0.0494 "Sarcoglycan, gamma (35kDa dystrophin-associated glycoprotein)" 45730 NM_025226 0.0494 7037 SCAP1 NM_003726 0.0495 Src family associated phosphoprotein 1 40281 MASA NM_021204 0.0495 E-1 enzyme 4226 CCRL2 NM_003965 0.0496 Chemokine (C-C motif) receptor-like 2 1615 PLEKHG1 XM_027307 0.0496 "Pleckstrin homology domain containing, family G (with RhoGef domain) member 1" 14716 CEP2 NM_007186 0.0496 Centrosomal protein 2 23343 FNBP4 NM_015308 0.0496 Formin binding protein 4 40882 FLJ12541 NM_022369 0.0496 Stimulated by retinoic acid gene 6 53409 AF085351 0.0497 ELISC-1 93619 ITPR1 NM_002222 0.0497 "Inositol 1,4,5-triphosphate receptor, type 1" 52691 C15orf20 AF108138 0.0497 Chromosome 15 open reading frame 20 98053 TFRC NM_003234 0.0497 "Transferrin receptor (p90, CD71)" 55649 U2AF1L3 NM_144987 0.0497 U2(RNU2) small nuclear RNA auxiliary factor 1-like 3 146784 SRC AF272982 0.0497 V-src sarcoma (Schmidt- Ruppin A-2) viral oncogene homolog (avian) 63232 FLJ30313 NM_152757 0.0497 Hypothetical protein FLJ30313 http://ard.bmj.com/ 115463 HXMA NM_182617 0.0497 Xenobiotic/medium-chain fatty acid:CoA ligase 28469 NM_017892 0.0497 42512 pp9099 NM_025201 0.0497 PH domain-containing protein 104364 GAS6 NM_000820 0.0497 Growth arrest-specific 6 36592 GPR92 NM_020400 0.0497 G protein-coupled receptor 92 71824 FLJ13305 AK023367 0.0497 Hypothetical protein on October 2, 2021 by guest. Protected copyright. FLJ13305 171284 FLJ20433 AB061798 0.0498 Hypothetical protein FLJ20433 185729 XM_352451 0.0498 19948 FAIM2 NM_012306 0.0498 Fas apoptotic inhibitory molecule 2 92577 EIF4B NM_001417 0.0498 Eukaryotic translation initiation factor 4B 59139 KLK3 NM_145864 0.0499 "Kallikrein 3, (prostate specific antigen)" 19601 C15orf22 NM_007364 0.05 Chromosome 15 open reading frame 22 133282 PTK9 NM_002822 0.05 PTK9 protein tyrosine kinase 9

160 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Supplementary Table 4: Differentially expressed probes from PBMC analysis discriminating SLE from control Probe GenBank Gene Name Log2 Signature Description ID Acc Fold Change 6231 NM_004345 CAMP 2.62 Granulocyte Cathelicidin antimicrobial peptide 9107 NM_005265 GGT1 1.25 Granulocyte Gamma-glutamyltransferase 1 12617 NM_005564 LCN2 1.99 Granulocyte Lipocalin 2 (oncogene 24p3) 12678 NM_005621 S100A12 1.13 Granulocyte S100 calcium binding protein A12 (calgranulin C) 12680 NM_005621 S100A12 1.25 Granulocyte S100 calcium binding protein A12 (calgranulin C) 21380 NM_012198 GCA 1.24 Granulocyte "Grancalcin, EF-hand calcium binding protein" 23797 NM_015907 LAP3 1.80 Granulocyte Leucine aminopeptidase 3 55874 NM_080387 CLECSF8 1.44 Granulocyte "C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 8" 89097 NM_001062 TCN1 1.41 Granulocyte "Transcobalamin I (vitamin B12 binding protein, R binder family)" 90146 NM_000712 BLVRA 1.33 Granulocyte Biliverdin reductase A 91464 NM_001738 CA1 1.47 Granulocyte Carbonic anhydrase I 92408 NM_002483 CEACAM6 1.07 Granulocyte Carcinoembryonic antigen- related cell adhesion molecule 6 (non-specific cross reacting antigen) 93085 NM_001816 CEACAM8 1.75 Granulocyte Carcinoembryonic antigen- related cell adhesion molecule 8 93235 NM_001925 DEFA4 1.65 Granulocyte "Defensin, alpha 4, http://ard.bmj.com/ corticostatin" 94169 NM_001462 FPRL1 1.51 Granulocyte Formyl peptide receptor-like 1 94491 NM_001725 BPI 1.90 Granulocyte Bactericidal/permeability- increasing protein 95900 NM_002781 PSG5 1.16 Granulocyte Pregnancy specific beta-1-

glycoprotein 5 on October 2, 2021 by guest. Protected copyright. 106635 NM_133277 FCAR 1.61 Granulocyte "Fc fragment of IgA, receptor for" 107814 NM_002000 FCAR 1.47 Granulocyte "Fc fragment of IgA, receptor for" 136299 NM_012387 PADI4 1.04 Granulocyte "Peptidyl arginine deiminase, type IV" 142959 NM_004084 DEFA1 1.78 Granulocyte "Defensin, alpha 1, myeloid- related sequence" 167088 NM_005143 HP 2.30 Granulocyte Haptoglobin 172152 NM_000607 ORM1 2.03 Granulocyte Orosomucoid 1 12577 NM_005532 IFI27 2.21 Interferon "Interferon, alpha-inducible protein 27" 13248 NM_006074 TRIM22 1.27 Interferon Tripartite motif-containing 22 14976 NM_006187 OAS3 1.93 Interferon "2'-5'-oligoadenylate synthetase 3, 100kDa" 15307 NM_006417 IFI44 2.59 Interferon Interferon-induced protein 44

161 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

15844 NM_006820 C1orf29 2.99 Interferon Chromosome 1 open reading frame 29 27967 NM_017414 USP18 2.19 Interferon Ubiquitin specific protease 18 29530 NM_016817 OAS2 1.46 Interferon "2'-5'-oligoadenylate synthetase 2, 69/71kDa" 31209 NM_016816 OAS1 1.74 Interferon "2',5'-oligoadenylate synthetase 1, 40/46kDa" 36692 NM_020640 RP42 3.12 Interferon RP42 homolog 43072 NM_031458 BAL 1.52 Interferon B aggressive lymphoma gene 78816 BC022317 TRD@ -1.56 Interferon T cell receptor delta locus 91276 NM_001565 CXCL10 1.36 Interferon Chemokine (C-X-C motif) ligand 10 93924 NM_002462 MX1 2.54 Interferon "Myxovirus (influenza virus) resistance 1, interferon- inducible protein p78 (mouse)" 94284 NM_001548 IFIT1; G10P1; 2.13 Interferon "synonyms: G10P1, IFI56, IFI- IFI56; IFI-56; 56, IFNAI1, RNM561, GARG- IFNAI1; 16; isoform 2 is encoded by RNM561; transcript variant 2; Interferon, GARG-16 alpha-inducible protein (MW 56kD); interferon-induced protein 56; go_component: cytoplasm [goid 0005737] [evidence NAS] [pmid 3753936]; go_function: molecular_function unknown [goid 0005554] [evidence ND] [pmid 3753936]; go_process: immune response [goid 0006955] [evidence IEA]; Homo sapiens interferon- induced protein with tetratricopeptide repeats 1 http://ard.bmj.com/ (IFIT1), transcript variant 2, mRNA." 95874 NM_002759 PRKR 1.73 Interferon "Protein kinase, interferon- inducible double stranded RNA dependent"

100978 AA353152 IFIT1 2.03 Interferon Interferon-induced protein with on October 2, 2021 by guest. Protected copyright. tetratricopeptide repeats 1 105669 NM_007315 STAT1 1.22 Interferon "Signal transducer and activator of transcription 1, 91kDa" 116787 NM_002535 OAS2 1.74 Interferon "2'-5'-oligoadenylate synthetase 2, 69/71kDa" 118241 NM_001549 IFIT3 1.62 Interferon Interferon-induced protein with tetratricopeptide repeats 3 138469 NM_021105 PLSCR1 2.09 Interferon Phospholipid scramblase 1 141980 NM_000566 FCGR1A 1.79 Interferon "Fc fragment of IgG, high affinity Ia, receptor for (CD64)" 142472 NM_021122 ACSL1 1.29 Interferon "synonyms: ACS1, LACS, FACL1, FACL2, LACS1, LACS2; long-chain acyl-CoA synthetase 2; fatty-acid- Coenzyme A ligase, long-

162 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

chain 2; palmitoyl-CoA ligase 2; long-chain acyl-CoA synthetase 1; paltimoyl-CoA ligase 1; fatty-acid-Coenzyme A ligase, long-chain 1; lignoceroyl-CoA synthase; go_function: ligase activity [goid 0016874] [evidence IEA]; go_function: magnesium ion binding [goid 0000287] [evidence IEA]; go_function: long-chain-fatty-acid-CoA ligase activity [goid 0004467] [evidence TAS] [pmid 1531127]; go_process: metabolism [goid 0008152] [evidence IEA]; go_process: digestion [goid 0007586] [evidence TAS] [pmid 1531127]; go_process: fatty acid metabolism [goid 0006631] [evidence NR]; Homo sapiens acyl-CoA synthetase long-chain family member 1 (ACSL1), mRNA." 145970 AF026943 IFIT3 1.32 Interferon Interferon-induced protein with tetratricopeptide repeats 3 172026 NM_002534 OAS1 1.70 Interferon "2',5'-oligoadenylate synthetase 1, 40/46kDa"

51221 AF058068 1.61 Plasmablast "Homo sapiens clone ASPBLL39 immunoglobulin

lambda light chain VJ region http://ard.bmj.com/ mRNA, partial cds."

51239 AF060132 1.47 Plasmablast "Vlambda-Jlambda; Homo sapiens clone ASSynL209 immunoglobulin lambda light chain variable region mRNA, on October 2, 2021 by guest. Protected copyright. partial cds."

4986 NM_004589 SCO1 1.31 Undefined SCO cytochrome oxidase deficient homolog 1 (yeast)

5050 NM_004633 IL1R2 1.20 Undefined "Interleukin 1 receptor, type II"

5838 NM_004054 C3AR1 2.04 Undefined Complement component 3a receptor 1

6324 NM_004417 DUSP1 1.91 Undefined Dual specificity phosphatase 1

6705 NM_004681 EIF1AY -1.55 Undefined "Eukaryotic translation initiation factor 1A, Y-linked"

7679 NM_004244 CD163 1.61 Undefined CD163 antigen

163 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

12822 NM_005738 ARL4A 1.45 Undefined ADP-ribosylation factor-like 4A

14724 NM_007199 IRAK3 1.24 Undefined Interleukin-1 receptor- associated kinase 3

27866 NM_016613 DKFZp434L142 1.29 Undefined Hypothetical protein DKFZp434L142

29774 NM_017631 FLJ20035 1.16 Undefined Hypothetical protein FLJ20035

34915 NM_020221 -1.04 Undefined

37546 NM_022136 SAMSN1 1.51 Undefined "SAM domain, SH3 domain and nuclear localisation signals, 1"

47500 NM_033109 PNPT1 1.20 Undefined Polyribonucleotide nucleotidyltransferase 1

47607 NM_033255 EPSTI1 1.96 Undefined Epithelial stromal interaction 1 (breast) 49867 NM_032412 ORF1-FL49 1.40 Undefined Putative nuclear protein ORF1-FL49 56026 NM_080792 PTPNS1 1.25 Undefined "Protein tyrosine phosphatase, non-receptor type substrate 1" 59983 NM_152703 C7orf6 1.59 Undefined Chromosome 7 open reading frame 6 68854 XM_037817 FLJ31033 1.33 Undefined Hypothetical protein FLJ31033 71749 AK001649 FLJ20035 1.39 Undefined Hypothetical protein FLJ20035 79995 XM_059368 1.62 Undefined

89023 NM_001008 RPS4Y1 -1.40 Undefined "Ribosomal protein S4, Y- http://ard.bmj.com/ linked 1" 90093 NM_000677 ADORA3 1.27 Undefined Adenosine A3 receptor 91079 NM_001425 EMP3 -1.36 Undefined Epithelial membrane protein 3 93339 NM_001995 ACSL1 1.42 Undefined Acyl-CoA synthetase long- chain family member 1 97716 NM_002952 RPS2 -1.32 Undefined Ribosomal protein S2 98099 NM_003264 TLR2 1.26 Undefined Toll-like receptor 2 on October 2, 2021 by guest. Protected copyright. 98808 NM_002631 PGD 1.65 Undefined Phosphogluconate dehydrogenase 100453 NM_015870 -1.25 Undefined 104180 AA361448 IFNGR1 1.25 Undefined Interferon gamma receptor 1 106354 NM_173705 -1.40 Undefined

109521 NM_173714 -1.34 Undefined

110063 NM_004863 SPTLC2 1.58 Undefined "Serine palmitoyltransferase, long chain base subunit 2"

127784 NM_012214 MGAT4A 2.16 Undefined "Mannosyl (alpha-1,3-)- glycoprotein beta-1,4-N- acetylglucosaminyltransferase, isoenzyme A"

164 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

128305 NM_030939 C6orf62 -1.11 Undefined Chromosome 6 open reading frame 62

146961 HS586621 -1.70 Undefined

155271 AL832756 C10orf39 -1.79 Undefined Chromosome 10 open reading frame 39

180612 XM_351958 -2.74 Undefined

185216 NM_182658 C20orf185 2.20 Undefined Chromosome 20 open reading frame 185

83596 XM_290768 C17orf27; 1.02 Undefined "synonym: KIAA1554; Homo KIAA1554 sapiens chromosome 17 open reading frame 27 (C17orf27), mRNA."

107477 M97168 XIST; XCE; 2.35 Undefined Homo sapiens X (inactive)- XIC; SXI1; specific transcript (XIST) swd66; complete exon. DXS1089; DXS399E

165 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Supplementary Table 5: PBMC differentially expressed genes discriminating AAV from control Probe GenBank Gene Log2 Fold Signature Description ID Acc Name Change 6231 NM_004345 CAMP 2.59812696 Granulocyte Cathelicidin antimicrobial peptide 9107 NM_005265 GGT1 1.42867841 Granulocyte Gamma-glutamyltransferase 1 11641 NM_005980 S100P 0.982582947 Granulocyte S100 calcium binding protein P 12617 NM_005564 LCN2 2.152507948 Granulocyte Lipocalin 2 (oncogene 24p3) 12678 NM_005621 S100A12 1.224657734 Granulocyte S100 calcium binding protein A12 (calgranulin C) 12680 NM_005621 S100A12 0.937344392 Granulocyte S100 calcium binding protein A12 (calgranulin C) 18516 NM_013230 CD24 1.03562391 Granulocyte CD24 antigen (small cell lung carcinoma cluster 4 antigen) 21380 NM_012198 GCA 0.938850337 Granulocyte "Grancalcin, EF-hand calcium binding protein" 46110 NM_031246 PSG2 1.14404637 Granulocyte Pregnancy specific beta-1- glycoprotein 2 55874 NM_080387 CLECSF8 1.055195654 Granulocyte "C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 8" 89097 NM_001062 TCN1 1.540027269 Granulocyte "Transcobalamin I (vitamin B12 binding protein, R binder family)" 91833 NM_002029 FPR1 1.14404637 Granulocyte Formyl peptide receptor 1 92408 NM_002483 CEACAM6 1.183327706 Granulocyte Carcinoembryonic antigen- related cell adhesion molecule 6 (non-specific cross reacting antigen) 93085 NM_001816 CEACAM8 1.89219671 Granulocyte Carcinoembryonic antigen- http://ard.bmj.com/ related cell adhesion molecule 8 93235 NM_001925 DEFA4 2.1567202 Granulocyte "Defensin, alpha 4, corticostatin" 94169 NM_001462 FPRL1 1.055195654 Granulocyte Formyl peptide receptor-like 1

94491 NM_001725 BPI 1.616828167 Granulocyte Bactericidal/permeability- on October 2, 2021 by guest. Protected copyright. increasing protein 95900 NM_002781 PSG5 1.209765266 Granulocyte Pregnancy specific beta-1- glycoprotein 5 99209 NM_002934 RNASE2 0.974529312 Granulocyte "Ribonuclease, RNase A family, 2 (liver, eosinophil- derived neurotoxin)" 106635 NM_133277 FCAR 1.206018004 Granulocyte "Fc fragment of IgA, receptor for" 107814 NM_002000 FCAR 1.255802837 Granulocyte "Fc fragment of IgA, receptor for" 136299 NM_012387 PADI4 1.065572312 Granulocyte "Peptidyl arginine deiminase, type IV" 142959 NM_004084 DEFA1 2.494927567 Granulocyte "Defensin, alpha 1, myeloid- related sequence" 163007 NM_003816 ADAM9 0.827819025 Granulocyte A disintegrin and metalloproteinase domain 9

166 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

(meltrin gamma) 167088 NM_005143 HP 2.068326861 Granulocyte Haptoglobin 172152 NM_000607 ORM1 2.127303106 Granulocyte Orosomucoid 1 78816 BC022317 TRD@ -1.15521265 Interferon T cell receptor delta locus 138469 NM_021105 PLSCR1 0.832687516 Interferon Phospholipid scramblase 1 141980 NM_000566 FCGR1A 1.113700499 Interferon "Fc fragment of IgG, high affinity Ia, receptor for (CD64)" 16471 NM_006144 GZMA - T cell "Granzyme A (granzyme 1, 0.836501268 cytotoxic T-lymphocyte- associated serine esterase 3)" 5050 NM_004633 IL1R2 1.211012193 Undefined "Interleukin 1 receptor, type II" 5091 NM_004666 VNN1 0.940354712 Undefined Vanin 1 5838 NM_004054 C3AR1 1.191562651 Undefined Complement component 3a receptor 1 7679 NM_004244 CD163 0.978927776 Undefined CD163 antigen 8867 NM_005091 PGLYRP1 0.997111721 Undefined Peptidoglycan recognition protein 1 13327 NM_006138 MS4A3 1.010779839 Undefined "Membrane-spanning 4- domains, subfamily A, member 3 (hematopoietic cell- specific)" 16152 NM_007115 TNFAIP6 1.121015401 Undefined "Tumor necrosis factor, alpha- induced protein 6" 16881 NM_006418 OLFM4 1.01720929 Undefined Olfactomedin 4 32068 NM_018099 MLSTD1 0.925999419 Undefined Male sterility domain containing 1 33475 NM_020415 RETN 0.979659552 Undefined Resistin 34915 NM_020221 - Undefined 1.161653263 38502 NM_024636 TNFAIP9 0.863145543 Undefined "Tumor necrosis factor, alpha- induced protein 9" 42685 NM_030769 NPL 1.04194383 Undefined N-acetylneuraminate pyruvate http://ard.bmj.com/ lyase (dihydrodipicolinate synthase) 49867 NM_032412 ORF1- 1.169283661 Undefined Putative nuclear protein FL49 ORF1-FL49 64304 XM_353694 - Undefined 1.126580497 85042 NM_178460 PTPNS1L2 0.871055075 Undefined "Protein tyrosine phosphatase, on October 2, 2021 by guest. Protected copyright. non-receptor type substrate 1- like 2" 90872 NM_001266 CES1 0.855192408 Undefined Carboxylesterase 1 (monocyte/macrophage serine esterase 1) 93339 NM_001995 ACSL1 0.847195187 Undefined Acyl-CoA synthetase long- chain family member 1 97716 NM_002952 RPS2 - Undefined Ribosomal protein S2 0.988504361 98808 NM_002631 PGD 1.126972856 Undefined Phosphogluconate dehydrogenase 100453 NM_015870 - Undefined 0.878321443 107066 U90305 - Undefined "Human iroquois-class 0.991369695 homeodomain protein IRX-3 mRNA, partial cds."

167 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

110025 NM_000952 PTAFR 0.99494171 Undefined Platelet-activating factor receptor 114574 NM_078625 VNN3 0.84478735 Undefined Vanin 3 115605 NM_020980 AQP9 1.227741076 Undefined Aquaporin 9 127784 NM_012214 MGAT4A 1.964213778 Undefined "Mannosyl (alpha-1,3-)- glycoprotein beta-1,4-N- acetylglucosaminyltransferase, isoenzyme A" 136331 NM_153449 SLC2A14 0.849599011 Undefined "Solute carrier family 2 (facilitated glucose transporter), member 14" 146286 HSBILGLYD 1.039138394 Undefined 146961 HS586621 - Undefined 1.461958547 170491 NM_003266 TLR4 0.831877241 Undefined Toll-like receptor 4 180612 XM_351958 - Undefined 0.836501268

168 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Supplementary Table 6: PBMC differentially expressed genes discriminating AAV from SLE Probe ID GenBank Gene Name Log2 Fold Signature Description Acc Change 12577 NM_005532 IFI27 2.143393419 Interferon "Interferon, alpha- inducible protein 27" 13248 NM_006074 TRIM22 1.305678743 Interferon Tripartite motif- containing 22 14976 NM_006187 OAS3 2.138486844 Interferon "2'-5'-oligoadenylate synthetase 3, 100kDa" 15307 NM_006417 IFI44 2.593831801 Interferon Interferon-induced protein 44 15844 NM_006820 C1orf29 3.302757716 Interferon Chromosome 1 open reading frame 29 27967 NM_017414 USP18 2.177279996 Interferon Ubiquitin specific protease 18 29530 NM_016817 OAS2 1.377401431 Interferon "2'-5'-oligoadenylate synthetase 2, 69/71kDa" 31209 NM_016816 OAS1 1.575312331 Interferon "2',5'-oligoadenylate synthetase 1, 40/46kDa" 36692 NM_020640 RP42 3.140124224 Interferon RP42 homolog 43072 NM_031458 BAL 1.365132593 Interferon B aggressive lymphoma gene 91276 NM_001565 CXCL10 1.393965276 Interferon Chemokine (C-X-C motif) ligand 10 93924 NM_002462 MX1 2.757236647 Interferon "Myxovirus (influenza virus) resistance 1, interferon-inducible protein p78 (mouse)" 94284 NM_001548 IFIT1; 2.418729677 Interferon "synonyms: G10P1, http://ard.bmj.com/ G10P1; IFI56, IFI-56, IFNAI1, IFI56; IFI- RNM561, GARG-16; 56; IFNAI1; isoform 2 is encoded RNM561; by transcript variant GARG-16 2; Interferon, alpha-

inducible protein (MW on October 2, 2021 by guest. Protected copyright. 56kD); interferon- induced protein 56; go_component: cytoplasm [goid 0005737] [evidence NAS] [pmid 3753936]; go_function: molecular_function unknown [goid 0005554] [evidence ND] [pmid 3753936]; go_process: immune response [goid 0006955] [evidence IEA]; Homo sapiens

169 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

interferon-induced protein with tetratricopeptide repeats 1 (IFIT1), transcript variant 2, mRNA." 95874 NM_002759 PRKR 1.761285273 Interferon "Protein kinase, interferon-inducible double stranded RNA dependent" 100978 AA353152 IFIT1 2.341131829 Interferon Interferon-induced protein with tetratricopeptide repeats 1 105669 NM_007315 STAT1 1.435095152 Interferon "Signal transducer and activator of transcription 1, 91kDa" 116787 NM_002535 OAS2 1.724650272 Interferon "2'-5'-oligoadenylate synthetase 2, 69/71kDa" 118241 NM_001549 IFIT3 1.685715936 Interferon Interferon-induced protein with tetratricopeptide repeats 3 138469 NM_021105 PLSCR1 1.258820397 Interferon Phospholipid scramblase 1 145970 AF026943 IFIT3 1.480782124 Interferon Interferon-induced protein with tetratricopeptide repeats 3 172026 NM_002534 OAS1 1.576280258 Interferon "2',5'-oligoadenylate

synthetase 1, http://ard.bmj.com/ 40/46kDa" 51221 AF058068 1.147957881 Plasmablast "Homo sapiens clone ASPBLL39 immunoglobulin lambda light chain VJ

region mRNA, partial on October 2, 2021 by guest. Protected copyright. cds." 51239 AF060132 1.005759269 Plasmablast "Vlambda-Jlambda; Homo sapiens clone ASSynL209 immunoglobulin lambda light chain variable region mRNA, partial cds." 6324 NM_004417 DUSP1 1.335140206 Undefined Dual specificity phosphatase 1 6705 NM_004681 EIF1AY -1.531156057 Undefined "Eukaryotic translation initiation factor 1A, Y-linked" 23797 NM_015907 LAP3 1.482332021 Undefined Leucine aminopeptidase 3 29774 NM_017631 FLJ20035 1.206018004 Undefined Hypothetical protein

170 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

FLJ20035 47500 NM_033109 PNPT1 1.209765266 Undefined Polyribonucleotide nucleotidyltransferase 1 47607 NM_033255 EPSTI1 2.002882509 Undefined Epithelial stromal interaction 1 (breast) 59983 NM_152703 C7orf6 1.504366151 Undefined Chromosome 7 open reading frame 6 68854 XM_037817 FLJ31033 1.188400925 Undefined Hypothetical protein FLJ31033 71749 AK001649 FLJ20035 1.365692537 Undefined Hypothetical protein FLJ20035 79995 XM_059368 1.626205483 Undefined 91079 NM_001425 EMP3 -1.123433941 Undefined Epithelial membrane protein 3 107066 U90305 1.511973982 Undefined "Human iroquois- class homeodomain protein IRX-3 mRNA, partial cds." 107477 M97168 XIST; XCE; 2.521302056 Undefined Homo sapiens X XIC; SXI1; (inactive)-specific swd66; transcript (XIST) DXS1089; complete exon. DXS399E 128305 NM_030939 C6orf62 -1.265344567 Undefined Chromosome 6 open reading frame 62 155271 AL832756 C10orf39 -1.289827252 Undefined Chromosome 10 open reading frame 39 180612 XM_351958 -1.905088353 Undefined 185216 NM_182658 C20orf185 1.633663697 Undefined Chromosome 20 open reading frame 185 http://ard.bmj.com/ 83596 XM_290768 C17orf27; 1.455228571 Undefined "synonym: KIAA1554; KIAA1554 Homo sapiens chromosome 17 open reading frame 27 (C17orf27), mRNA."

171 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Supplementary Table 7: CD8 T cell genes differentially expressed in PBMC samples between AAV and controls Probe ID GenBank Acc Gene Name Log2 Fold Description Change 78816 BC022317 TRD@ -1.15521265 T cell receptor delta locus 169194 NM_006433 GNLY -0.968604804 Granulysin 84203 BC039725 TRGC2 -0.915935735 T cell receptor gamma constant 2 16471 NM_006144 GZMA -0.836501268 "Granzyme A (granzyme 1, cytotoxic T- lymphocyte- associated serine esterase 3)" 16474 NM_006144 GZMA -0.826232932 "Granzyme A (granzyme 1, cytotoxic T- lymphocyte- associated serine esterase 3)" 11930 NM_005041 PRF1 -0.816037165 Perforin 1 (pore forming protein) 93660 NM_002258 KLRB1 -0.808437349 "Killer cell lectin- like receptor subfamily B, member 1" 2507 AF043182 TCRBV2S1- -0.798366139 T cell receptor TCRBJ2S5 beta chain BV20S1 BJ1-5 BC1 17996 NM_007360 KLRK1 -0.785875195 "Killer cell lectin- like receptor http://ard.bmj.com/ subfamily K, member 1" 94563 NM_001768 CD8A -0.746615764 "CD8 antigen, alpha polypeptide (p32)"

99583 NM_003202 TCF7 -0.739372092 "Transcription on October 2, 2021 by guest. Protected copyright. factor 7 (T-cell specific, HMG- box)" 103766 X02592 TRA@ -0.734563104 T cell receptor alpha locus 90173 NM_000732 CD3D -0.729770093 "CD3D antigen, delta polypeptide (TiT3 complex)" 9828 NM_005810 KLRG1 -0.717856771 "Killer cell lectin- like receptor subfamily G, member 1" 167200 NM_014511 KIR2DL3 -0.696657606 "Killer cell immunoglobulin- like receptor, two domains, long

172 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

cytoplasmic tail, 3" 86125 NM_000073 CD3G -0.579921884 "CD3G antigen, gamma polypeptide (TiT3 complex)" 18579 NM_013269 OCIL -0.575615328 Lectin-like NK cell receptor 9222 NM_005356 LCK -0.560642822 Lymphocyte- specific protein tyrosine kinase 93034 NM_001767 CD2 -0.53951953 "CD2 antigen (p50), sheep red blood cell receptor" 94025 NM_001335 CTSW -0.518701058 Cathepsin W (lymphopain) 93120 NM_001838 CCR7 -0.516635639 Chemokine (C-C motif) receptor 7 90177 NM_000733 CD3E -0.514573173 "CD3E antigen, epsilon polypeptide (TiT3 complex)" 100225 NM_003650 CST7 -0.465938398 Cystatin F (leukocystatin) 17669 NM_007053 CD160 -0.440263476 CD160 antigen 8655 NM_004931 CD8B1 -0.413115187 "CD8 antigen, beta polypeptide 1 (p37)" 9221 NM_005356 LCK -0.286304185 Lymphocyte- specific protein tyrosine kinase 13293 NM_006110 CD2BP2 0.117695043 CD2 antigen (cytoplasmic tail) http://ard.bmj.com/ binding protein 2

173 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Supplementary Table 8: Genes differentially expressed in CD4 T cells from SLE patients compared to controls Probe GenBank Acc No Gene ID Log2 Fold Description ID Change(Sle v Control) 93772 NM_002346 LY6E 1.799501814 "Lymphocyte antigen 6 complex, locus E" 15844 NM_006820 C1orf29 1.730748629 Chromosome 1 open reading frame 29 12577 NM_005532 IFI27 1.690193578 "Interferon, alpha-inducible protein 27" 36692 NM_020640 RP42 1.598841578 RP42 homolog 15307 NM_006417 IFI44 1.453122447 Interferon-induced protein 44 93924 NM_002462 MX1 1.283329168 "Myxovirus (influenza virus) resistance 1, interferon- inducible protein p78 (mouse)" 28035 NM_017523 HSXIAPAF1 1.206018004 XIAP associated factor-1 95874 NM_002759 PRKR 1.176322773 "Protein kinase, interferon- inducible double stranded RNA dependent" 8896 NM_005101 G1P2 1.12035194 "Interferon, alpha-inducible protein (clone IFI-15K)" 11 Y16240 rpk 1.12035194 Ripped pocket 100432 NM_003113 SP100 1.068326861 Nuclear antigen Sp100 29774 NM_017631 FLJ20035 1.037030731 Hypothetical protein FLJ20035 116787 NM_002535 OAS2 1.006477564 "2'-5'-oligoadenylate synthetase 2, 69/71kDa" 93760 NM_002341 LTB 1.002162421 "Lymphotoxin beta (TNF superfamily, member 3)" 10681 NM_005290 GPR15 0.998556583 G protein-coupled receptor http://ard.bmj.com/ 15 27967 NM_017414 USP18 0.992043276 Ubiquitin specific protease 18 20935 NM_014387 LAT 0.976730221 Linker for activation of T cells

87351 NM_000956 PTGER2 0.961252884 "Prostaglandin E receptor 2 on October 2, 2021 by guest. Protected copyright. (subtype EP2), 53kDa" 145587 NM_002922 RGS1 0.942608336 Regulator of G-protein signalling 1 47607 NM_033255 EPSTI1 0.935836874 Epithelial stromal interaction 1 (breast) 1181 AF034187 STK38 0.927517246 Serine/threonine kinase 38 91124 NM_001459 FLT3LG 0.922197848 Fms-related tyrosine kinase 3 ligand 83596 XM_290768 C17orf27; 0.906890596 "synonym: KIAA1554; KIAA1554 Homo sapiens chromosome 17 open reading frame 27 (C17orf27), mRNA." 100978 AA353152 IFIT1 0.904580435 Interferon-induced protein with tetratricopeptide repeats 1

174 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

94586 NM_001781 CD69 0.904580435 "CD69 antigen (p60, early T-cell activation antigen)" 93502 NM_002116 HLA-A 0.89840186 "Major histocompatibility complex, class I, A" 71749 AK001649 FLJ20035 0.89219671 Hypothetical protein FLJ20035 105669 NM_007315 STAT1 0.890641244 "Signal transducer and activator of transcription 1, 91kDa" 21792 NM_013308 GPR171 0.887525271 G protein-coupled receptor 171 59983 NM_152703 C7orf6 0.887525271 Chromosome 7 open reading frame 6 94438 NM_001686 ATP5B 0.876566059 "ATP synthase, H+ transporting, mitochondrial F1 complex, beta polypeptide" 107066 U90305 0.858378925 "Human iroquois-class homeodomain protein IRX- 3 mRNA, partial cds." 11414 NM_005787 ALG3 0.855192408 "Asparagine-linked glycosylation 3 homolog (yeast, alpha-1,3- mannosyltransferase)" 92081 NM_002201 ISG20 0.854394678 Interferon stimulated gene 20kDa 62422 NM_148954 PSMB9 0.853596506 "Proteasome (prosome, macropain) subunit, beta type, 9 (large multifunctional protease 2)" 137348 NM_016258 YTHDF2 0.851998837 YTH domain family 2 313569 NM_001686 ATP5B 0.843983844 "ATP synthase, H+ transporting, mitochondrial http://ard.bmj.com/ F1 complex, beta polypeptide" 93857 NM_002415 MIF 0.84317989 Macrophage migration inhibitory factor (glycosylation-inhibiting

factor) on October 2, 2021 by guest. Protected copyright. 137589 NM_052931 SLAMF6 0.835924074 SLAM family member 6 25009 NM_015388 C6orf109 0.82374936 Chromosome 6 open reading frame 109 31209 NM_016816 OAS1 0.822934048 "2',5'-oligoadenylate synthetase 1, 40/46kDa" 43072 NM_031458 BAL 0.822934048 B aggressive lymphoma gene 169229 NM_000897 LTC4S 0.811471031 Leukotriene C4 synthase 97600 NM_002872 RAC2 0.806530289 "Ras-related C3 botulinum toxin substrate 2 (rho family, small GTP binding protein Rac2)" 94284 NM_001548 IFIT1; G10P1; 0.803227036 "synonyms: G10P1, IFI56, IFI56; IFI-56; IFI-56, IFNAI1, RNM561, IFNAI1; RNM561; GARG-16; isoform 2 is GARG-16 encoded by transcript

175 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

variant 2; Interferon, alpha- inducible protein (MW 56kD); interferon-induced protein 56; go_component: cytoplasm [goid 0005737] [evidence NAS] [pmid 3753936]; go_function: molecular_function unknown [goid 0005554] [evidence ND] [pmid 3753936]; go_process: immune response [goid 0006955] [evidence IEA]; Homo sapiens interferon- induced protein with tetratricopeptide repeats 1 (IFIT1), transcript variant 2, mRNA." 112302 XM_018216 PPP1R2P3 0.803227036 "synonym: MGC87149; Homo sapiens protein phosphatase 1, regulatory (inhibitor) subunit 2 pseudogene 3 (PPP1R2P3) on chromosome 5." 172026 NM_002534 OAS1 0.800744624 "2',5'-oligoadenylate synthetase 1, 40/46kDa" 27086 NM_015984 UCHL5 0.796597754 Ubiquitin carboxyl-terminal hydrolase L5 10162 NM_004925 AQP3 0.793271654 Aquaporin 3 29530 NM_016817 OAS2 0.79243893 "2'-5'-oligoadenylate synthetase 2, 69/71kDa" 34938 NM_020239 CDC42SE1 0.790772038 CDC42 small effector 1

145970 AF026943 IFIT3 0.782408565 Interferon-induced protein http://ard.bmj.com/ with tetratricopeptide repeats 3 14867 NM_006098 GNB2L1 0.78 "Guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1"

7486 NM_004089 DSIPI 0.779049553 "Delta sleep inducing on October 2, 2021 by guest. Protected copyright. peptide, immunoreactor" 106219 NM_002038 G1P3 0.779049553 "Interferon, alpha-inducible protein (clone IFI-6-16)" 117357 NM_003879 CFLAR 0.777367109 CASP8 and FADD-like apoptosis regulator 33080 NM_019555 ARHGEF3 0.77483976 Rho guanine nucleotide exchange factor (GEF) 3 98307 NM_003406 YWHAZ 0.772307975 "Tyrosine 3- monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide" 5425 NM_003670 BHLHB2 0.767231037 "Basic helix-loop-helix domain containing, class B, 2" 184253 NM_176827 0.762986565

176 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

47500 NM_033109 PNPT1 0.761285273 Polyribonucleotide nucleotidyltransferase 1 76563 NM_173799 FLJ39873 0.751892138 Hypothetical protein FLJ39873 99048 NM_002812 PSMD8 0.750177706 "Proteasome (prosome, macropain) 26S subunit, non-ATPase, 8" 9595 NM_005647 TBL1X 0.750177706 Transducin (beta)-like 1X- linked 45990 NM_030917 FIP1L1 0.734655433 FIP1 like 1 (S. cerevisiae) 33326 NM_020240 CDC42SE2 0.734655433 CDC42 small effector 2 6504 NM_004548 NDUFB10 0.733788169 "NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 10, 22kDa" 31753 NM_017860 FLJ20519 0.733788169 Hypothetical protein FLJ20519 91079 NM_001425 EMP3 0.732052073 Epithelial membrane protein 3 14976 NM_006187 OAS3 0.732052073 "2'-5'-oligoadenylate synthetase 3, 100kDa" 13248 NM_006074 TRIM22 0.727702673 Tripartite motif-containing 22 91223 NM_001527 HDAC2 0.725086725 Histone deacetylase 2 118869 NM_022145 FKSG14 0.719840555 Leucine zipper protein FKSG14 58721 NM_144975 MGC19764 0.71633248 Hypothetical protein MGC19764 54774 NM_138287 BBAP 0.715454127 Rhysin 2 136331 NM_153449 SLC2A14 0.712815854 "Solute carrier family 2 (facilitated glucose transporter), member 14" 182583 NM_178587 PPP2R5C 0.709290636 "Protein phosphatase 2, regulatory subunit B (B56), http://ard.bmj.com/ gamma isoform" 39371 NM_022754 SFXN1 0.707524791 Sideroflexin 1 15070 NM_006257 PRKCQ 0.7031007 "Protein kinase C, theta" 27366 NM_016185 HN1 0.700439718 Hematological and neurological expressed 1

166669 NM_003915 RBM12 0.693319679 RNA binding motif protein on October 2, 2021 by guest. Protected copyright. 12 133876 NM_052932 PORIMIN 0.692427198 Pro-oncosis receptor inducing membrane injury gene 112967 NM_005668 SIAT8D 0.687060688 "Sialyltransferase 8D (alpha-2, 8- polysialyltransferase)" 90837 NM_001242 TNFRSF7 0.685267407 "Tumor necrosis factor receptor superfamily, member 7" 12915 NM_005801 SUI1 0.683471893 Putative translation initiation factor 71793 XM_291055 PARP14; 0.681674142 "synonym: KIAA1268; KIAA1268 Homo sapiens poly (ADP- ribose) polymerase family, member 14 (PARP14),

177 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

mRNA." 26844 NM_015646 RAP1B 0.680774425 "RAP1B, member of RAS oncogene family" 98835 NM_002648 PIM1 0.678973308 Pim-1 oncogene 16113 NM_007074 CORO1A 0.678071905 "Coronin, actin binding protein, 1A" 56611 NM_138701 C7orf11 0.676267408 Chromosome 7 open reading frame 11 4921 NM_004544 NDUFA10 0.674460652 "NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 10, 42kDa" 17035 NM_006556 PMVK 0.673556424 Phosphomevalonate kinase 64367 X62947 trk-T1 0.673556424 H.sapiens mRNA (TRK-T1) for 55 KD protein. 104747 NM_004763 ITGB1BP1 0.671746267 Integrin beta 1 binding protein 1 68854 XM_037817 FLJ31033 0.669933836 Hypothetical protein FLJ31033 55550 NM_144716 MGC23918 0.669933836 Hypothetical protein MGC23918 118231 NM_176792 MRPL43 0.667210912 Mitochondrial ribosomal protein L43 106605 NM_016583 PLUNC 0.660837368 "Palate, lung and nasal epithelium carcinoma associated" 61318 NM_152542 DKFZp761G058 0.660837368 Hypothetical protein DKFZp761G058 46245 NM_031465 MGC13204 0.659924558 Hypothetical protein MGC13204 124717 NM_001686 ATP5B 0.659924558 "ATP synthase, H+ transporting, mitochondrial F1 complex, beta polypeptide" http://ard.bmj.com/ 95416 NM_002414 CD99 0.65718266 CD99 antigen 175149 NM_148970 TNFRSF25 0.655351829 "Tumor necrosis factor receptor superfamily, member 25" 15196 NM_006353 HMGN4 0.653518671 High mobility group

nucleosomal binding on October 2, 2021 by guest. Protected copyright. domain 4 35932 XM_352942 0.652601218 90020 NM_000593 TAP1 0.651683181 "Transporter 1, ATP- binding cassette, sub-family B (MDR/TAP)" 110063 NM_004863 SPTLC2 0.651683181 "Serine palmitoyltransferase, long chain base subunit 2" 38420 NM_024570 FLJ11712 0.650764559 Hypothetical protein FLJ11712 110886 NM_006263 PSME1 0.650764559 "Proteasome (prosome, macropain) activator subunit 1 (PA28 alpha)" 115553 NM_003345 UBE2I 0.648925559 "Ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast)"

178 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

24417 NM_014727 MLL4 0.648925559 Myeloid/lymphoid or mixed- lineage leukemia 4 11245 NM_005659 UFD1L 0.647084213 Ubiquitin fusion degradation 1-like 40623 NM_021980 OPTN 0.646162657 Optineurin 90934 NM_001311 CRIP1 0.644317778 Cysteine-rich protein 1 (intestinal) 149011 AY007155 0.643394453 Hypothetical gene supported by AY007155 93546 NM_002166 ID2 0.643394453 "Inhibitor of DNA binding 2, dominant negative helix- loop-helix protein" 93984 NM_001300 COPEB 0.640620928 Core promoter element binding protein 7580 NM_004159 PSMB8 0.63691458 "Proteasome (prosome, macropain) subunit, beta type, 8 (large multifunctional protease 7)" 91960 NM_002117 HLA-C 0.63691458 "Major histocompatibility complex, class I, C" 10991 NM_005507 CFL1 0.633198686 Cofilin 1 (non-muscle) 27684 NM_016479 SCOTIN 0.633198686 Scotin 95474 NM_002463 MX2 0.632268215 Myxovirus (influenza virus) resistance 2 (mouse) 93019 NM_001760 CCND3 0.631337144 Cyclin D3 138536 XM_087089 WDR43 0.631337144 WD repeat domain 43 116948 NM_007271 STK38 0.631337144 Serine/threonine kinase 38 173295 NM_020119 ZC3HAV1 0.630405471 "Zinc finger CCCH type, antiviral 1" 86327 NM_000206 IL2RG 0.629473197 "Interleukin 2 receptor, gamma (severe combined immunodeficiency)" 28452 NM_017875 FLJ20551 0.627606838 Hypothetical protein http://ard.bmj.com/ FLJ20551 58378 NM_139266 STAT1 0.627606838 "Signal transducer and activator of transcription 1, 91kDa" 88233 NM_000436 OXCT1 0.625738062 3-oxoacid CoA transferase

1 on October 2, 2021 by guest. Protected copyright. 142694 HSM804727 0.621993232 21427 NM_012247 SEPHS1 0.621055503 Selenophosphate synthetase 1 30791 NM_016286 DCXR 0.621055503 Dicarbonyl/L-xylulose reductase 17015 NM_006541 TXNL2 0.619178216 Thioredoxin-like 2 134289 NM_005531 IFI16 0.616357697 "Interferon, gamma- inducible protein 16" 124704 NM_001345 DGKA 0.615416297 "Diacylglycerol kinase, alpha 80kDa" 67377 AJ310892 SCN5A 0.615416297 "Sodium channel, voltage- gated, type V, alpha (long QT syndrome 3)" 163108 NM_004180 TANK 0.614474283 TRAF family member- associated NFKB activator 137097 NM_001686 ATP5B 0.613531653 "ATP synthase, H+

179 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

transporting, mitochondrial F1 complex, beta polypeptide" 2507 AF043182 TCRBV2S1- 0.612588407 T cell receptor beta chain TCRBJ2S5 BV20S1 BJ1-5 BC1 63240 NM_152760 FLJ30934 0.612588407 Hypothetical protein FLJ30934 140461 NM_032112 MRPL43 0.612588407 Mitochondrial ribosomal protein L43 98901 NM_002708 PPP1CA 0.611644543 "Protein phosphatase 1, catalytic subunit, alpha isoform" 30965 NM_016454 LOC51234 0.609754962 Hypothetical protein LOC51234 4640 NM_004335 BST2 0.609754962 Bone marrow stromal cell antigen 2 23797 NM_015907 LAP3 0.607862903 Leucine aminopeptidase 3 36634 NM_020428 CTL2 0.607862903 CTL2 gene 18640 NM_013324 CISH 0.605020153 Cytokine inducible SH2- containing protein 11071 NM_005548 KARS 0.604071324 Lysyl-tRNA synthetase 91519 NM_001777 CD47 0.604071324 "CD47 antigen (Rh-related antigen, integrin-associated signal transducer)" 30981 NM_016467 ORMDL1 0.60312187 ORM1-like 1 (S. cerevisiae) 17049 NM_006564 CXCR6 0.602171791 Chemokine (C-X-C motif) receptor 6 31180 NM_016632 LOC51326 0.601221086 ARF protein 68489 XM_090970 FLJ20582 0.601221086 "synonym: PRO1914; go_component: nucleus [goid 0005634] [evidence IEA]; go_function: zinc ion binding [goid 0008270] http://ard.bmj.com/ [evidence IEA]; go_function: nucleic acid binding [goid 0003676] [evidence IEA]; Homo sapiens hypothetical

protein FLJ20582 on October 2, 2021 by guest. Protected copyright. (FLJ20582), mRNA." 166781 NM_033666 ITGB1 0.599317794 "Integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)" 6585 NM_004595 SMS 0.597411988 Spermine synthase 4920 NM_004544 NDUFA10 0.595503661 "NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 10, 42kDa" 43254 NM_031968 NARF 0.595503661 Nuclear prelamin A recognition factor 33210 NM_020154 C15orf24 0.595503661 Chromosome 15 open reading frame 24 115449 AF445026 FAM48A 0.595503661 "Family with sequence similarity 48, member A" 34309 NM_018590 GALNACT-2 0.59454855 Chondroitin sulfate

180 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

GalNAcT-2 108372 NM_006427 SIVA 0.59454855 CD27-binding (Siva) protein 9917 NM_005888;NM_002635 SLC25A3 0.593592806 "Solute carrier family 25 (mitochondrial carrier; phosphate carrier), member 3; synonyms: PHC, OK/SW-cl.48; isoform b precursor is encoded by transcript variant 2; mitochondrial phosphate carrier protein; go_component: mitochondrion [goid 0005739] [evidence TAS] [pmid 8168843]; go_component: integral to plasma membrane [goid 0005887] [evidence TAS] [pmid 8144629]; go_component: mitochondrial inner membrane [goid 0005743] [evidence TAS] [pmid 8144629]; go_function: binding [goid 0005488] [evidence IEA]; go_function: symporter activity [goid 0015293] [evidence IEA]; go_function: phosphate carrier activity [goid 0015320] [evidence TAS]

[pmid 8144629]; http://ard.bmj.com/ go_process: transport [goid 0006810] [evidence TAS] [pmid 1777677]; go_process: transport [goid 0006810] [evidence TAS] [pmid 8144629]; go_process: energy on October 2, 2021 by guest. Protected copyright. pathways [goid 0006091] [evidence TAS] [pmid 8168843]; Homo sapiens solute carrier family 25 (mitochondrial carrier; phosphate carrier), member 3 (SLC25A3), nuclear gene encoding mitochondrial protein, transcript variant 2, mRNA." 18063 NM_012103 AUP1 0.592636429 Ancient ubiquitous protein 1 116076 NM_018374 FLJ11273 0.591679417 Hypothetical protein FLJ11273 31133 NM_016594 FKBP11 0.591679417 "FK506 binding protein 11, 19 kDa" 91105 NM_001444 FABP5 0.591679417 Fatty acid binding protein 5

181 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

(psoriasis-associated) 29216 NM_016388 TRIM 0.59072177 T-cell receptor interacting molecule 15251 NM_006384 CIB1 0.588804567 Calcium and integrin binding 1 (calmyrin) 105511 NM_032466 ASPH 0.586884813 Aspartate beta-hydroxylase 91229 NM_001533 HNRPL 0.586884813 Heterogeneous nuclear ribonucleoprotein L 118241 NM_001549 IFIT3 0.585923977 Interferon-induced protein with tetratricopeptide repeats 3 126654 NM_001126 ADSS 0.584962501 Adenylosuccinate synthase 156477 XM_038788 0.584962501 90231 NM_000778 CYP4A11 - "Cytochrome P450, family 0.586405918 4, subfamily A, polypeptide 11" 70317 NM_017602 DKFZp761A052 - Hypothetical protein 0.586405918 DKFZp761A052 56483 NM_138431 LOC113655 - Hypothetical protein 0.595096878 BC011982 10004 NM_005967 NAB2 - NGFI-A binding protein 2 0.595096878 (EGR1 binding protein 2) 150897 AF339803 ERCC5 - "Excision repair cross- 0.603840511 complementing rodent repair deficiency, complementation group 5 (xeroderma pigmentosum, complementation group G (Cockayne syndrome))" 74122 AL137562 DKFZp434O0320 -0.60823228 Hypothetical protein DKFZp434O0320 155052 AK021981 - "CDNA FLJ11919 fis, clone 0.614845103 HEMBB1000274" http://ard.bmj.com/ 44935 NM_032129 DKFZP434H2010 - Hypothetical protein 0.621488377 DKFZp434H2010 67068 AJ130894 FAM48A - "Family with sequence 0.625934282 similarity 48, member A" 15789 NM_006779 CDC42EP2 -0.64385619 CDC42 effector protein

(Rho GTPase binding) 2 on October 2, 2021 by guest. Protected copyright. 36602 NM_020404 CD164L1 - CD164 sialomucin-like 1 0.648371671 100453 NM_015870 - 0.657445255 75497 AL117661 TAF3 - "TAF3 RNA polymerase II, 0.659722595 TATA box binding protein (TBP)-associated factor, 140kDa" 146637 X58235 ATP8B2 -0.66428809 "ATPase, Class I, type 8B, member 2" 151602 AF086519 FLJ35258 -0.66428809 Hypothetical protein FLJ35258 10837 NM_005411 SFTPA1 - "Surfactant, pulmonary- 0.673462652 associated protein A1" 82791 NM_182556 LOC283130 - Hypothetical protein 0.675765438 LOC283130

182 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

106414 NM_032655 - 0.685013515 39028 NM_022097 LOC63928 - Hepatocellular carcinoma 0.685013515 antigen gene 520 62146 NM_145288 ZNF342 - Zinc finger protein 342 0.687334826 16604 NM_006236 POU3F3 - "POU domain, class 3, 0.694321257 transcription factor 3" 186223 XM_060309 OR2T34 - "go_component: integral to 0.703689439 membrane [goid 0016021] [evidence IEA]; go_function: olfactory receptor activity [goid 0004984] [evidence IEA]; go_process: perception of smell [goid 0007608] [evidence IEA]; go_process: G-protein coupled receptor protein signaling pathway [goid 0007186] [evidence IEA]; Homo sapiens olfactory receptor, family 2, subfamily T, member 34 (OR2T34), mRNA." 36037 NM_018955 UBB - Ubiquitin B 0.722610301 50 XM_208766;NM_007108 KIAA0284; -0.74 "KIAA0284; Transcription TCEB2 elongation factor B (SIII), polypeptide 2 (18kDa, elongin B)" 45742 NM_025232 C8orf20 - Chromosome 8 open

0.768567592 reading frame 20 http://ard.bmj.com/ 47768 NM_033557 LOC90522 - Similar to putative 0.768567592 transmembrane protein; homolog of yeast Golgi membrane protein Yif1p (Yip1p-interacting factor)

7993 NM_004457 ACSL3 - Acyl-CoA synthetase long- on October 2, 2021 by guest. Protected copyright. 0.844250767 chain family member 3 144471 AK021798 - "unnamed protein product; 0.862496476 Homo sapiens cDNA FLJ11736 fis, clone HEMBA1005468." 163013 AF370457 BNIP3L - BCL2/adenovirus E1B 0.929610672 19kDa interacting protein 3- like 7423 NM_004048 B2M - Beta-2-microglobulin 0.951763814 3799 AF047253 IGL - "VJ region; Homo sapiens 0.954557029 clone ESMneg6-2 immunoglobulin lambda light chain VJ region, (IGL) mRNA, partial cds." 89289 NM_001220 CAMK2B - Calcium/calmodulin-

183 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

0.991369695 dependent protein kinase (CaM kinase) II beta 94021 NM_001330 CTF1 - Cardiotrophin 1 1.061902439 103097 NM_173713 - 1.104697379 29989 NM_017791 C14orf58 - Chromosome 14 open 1.158429363 reading frame 58 78672 BC019340 MGC12965 - "Similar to Cytochrome c, 1.926865295 somatic"

184 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Supplementary Table 9: Interferon response factor 3 and -7 binding sites pattern sequence name start stop score p-value matched sequence name IRF7 ACSL3:ENST00000357430 187 176 10.19 0.000117 GAATGGAAAAGT IRF3 ACSL3:ENST00000357430 509 520 11.6963 3.99E-05 GAAAGAGAAAGG IRF3 ACSL3:ENST00000357430 689 678 6.83505 0.000498 AAAACTGAAGCT IRF3 ACSL3:ENST00000357430 1165 1154 9.05032 0.000176 AAAATAGAAAGT IRF7 ACSL3:ENST00000357430 1321 1310 8.37185 0.000344 GAAAGTAACAGT IRF7 ACSL3:ENST00000357430 1458 1469 11.5368 4.27E-05 GAAAATGAATTT IRF3 ACSL3:ENST00000357430 1950 1939 9.66568 0.000121 GAAAAAGAAAGG IRF7 B2M:ENST00000349264 218 207 8.30451 0.000357 GAAAACCAATTT IRF3 B2M:ENST00000349264 1582 1571 13.5424 1.19E-05 AAAACGGAAACC IRF7 B2M:ENST00000349264 1582 1571 8.57387 0.000306 AAAACGGAAACC IRF3 B2M:ENST00000349264 1583 1572 7.26579 0.000397 GAAAACGGAAAC IRF3 B2M:ENST00000349264 1827 1838 14.4039 6.77E-06 GAAAAGGAAACT IRF7 B2M:ENST00000349264 1827 1838 13.0857 1.33E-05 GAAAAGGAAACT IRF3 B2M:ENST00000349264 1833 1844 13.6039 1.16E-05 GAAACTGAAAAC IRF7 B2M:ENST00000349264 1833 1844 12.2776 2.42E-05 GAAACTGAAAAC IRF3 CAMK2B:ENST00000258682 87 98 13.8501 9.71E-06 GAAAGGGAAAAT IRF7 CAMK2B:ENST00000258682 87 98 12.8163 1.60E-05 GAAAGGGAAAAT IRF3 CAMK2B:ENST00000258682 1176 1165 12.4963 2.38E-05 GAAAGTGAAAGG IRF7 CAMK2B:ENST00000258682 1176 1165 11.7389 3.70E-05 GAAAGTGAAAGG IRF3 CCND3:ENST00000372987 397 408 9.66568 0.000121 CAAACAGAAACT IRF7 CD27:ENST00000266557 1400 1411 9.38195 0.000193 GAATTCCAAAAC IRF3 CD99:ENST00000381177 194 205 7.32733 0.000383 GAAAAAGAAAAG IRF7 CD99:ENST00000381177 431 420 10.1227 0.000122 GAATTGGAAACG IRF3 CD99:ENST00000381177 431 420 9.17339 0.000165 GAATTGGAAACG IRF3 CD99:ENST00000381177 875 886 6.89658 0.000485 GGAATGGAAACA IRF7 CD99:ENST00000381177 1643 1632 7.76578 0.000485 AAATACAAAAGT IRF7 CD99:ENST00000381177 1915 1926 10.9308 6.91E-05 GAAAATGAAGCT

IRF3 CD99:ENST00000381177 1915 1926 7.57347 0.000345 GAAAATGAAGCT http://ard.bmj.com/ IRF3 CD99:ENST00000381180 337 326 7.81961 0.000316 AAAAGAGAAAGG IRF3 CFL1:ENST00000308162 960 949 7.51194 0.000356 GAAAGGGAACTG IRF3 CFL1:ENST00000308162 1187 1176 8.74265 0.000204 GAAATAGATATT IRF7 CFL1:ENST00000308162 1458 1447 9.24727 0.000209 GAAATCACAAGT IRF3 CFL1:ENST00000308162 1464 1453 7.81961 0.000316 GCAAAGGAAATC

IRF7 CFL1:ENST00000308162 1464 1453 7.90047 0.000449 GCAAAGGAAATC on October 2, 2021 by guest. Protected copyright. IRF7 CFL1:ENST00000308162 1508 1519 8.16983 0.000386 GAAATGCAAAAC IRF3 CFL1:ENST00000308162 1993 1982 8.68111 0.000211 GAAACGAAAAGG IRF7 CTF1:ENST00000279804 220 231 9.44929 0.000186 GAAAATGAATGA IRF3 CTF1:ENST00000395019 557 568 11.881 3.45E-05 GAAATGGAAATG IRF7 CTF1:ENST00000395019 557 568 10.6614 8.47E-05 GAAATGGAAATG IRF7 CTF1:ENST00000395019 563 574 10.19 0.000117 GAAATGGAAGTC IRF3 CTF1:ENST00000395019 563 574 8.61957 0.000218 GAAATGGAAGTC IRF3 CTF1:ENST00000395019 1094 1105 8.12729 0.000273 GAAAGAGCAAGA IRF3 CTF1:ENST00000395019 1138 1127 7.57347 0.000345 AAAAGAGAAAGA IRF3 CTF1:ENST00000395020 232 243 9.41954 0.00014 GAAACCCCAACT IRF3 CTF1:ENST00000395020 389 400 8.06576 0.000282 AAGAGCGAAACT IRF3 CTF1:ENST00000395020 1274 1285 7.4504 0.000365 GAAACTGACATG IRF3 CTF1:ENST00000395020 1296 1307 8.25036 0.000256 GAAAGATAAACT IRF7 CXCR6:ENST00000304552 64 75 8.10249 0.0004 GAAAACAAAATA IRF3 CXCR6:ENST00000304552 1239 1250 10.6502 6.97E-05 GAAGGGGAAAGT IRF7 CXCR6:ENST00000304552 1239 1250 8.84323 0.000261 GAAGGGGAAAGT

185 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

IRF3 CXCR6:ENST00000304552 1506 1495 11.0195 5.80E-05 GAAAGCTAAAGC IRF7 CXCR6:ENST00000304552 1506 1495 10.7288 8.03E-05 GAAAGCTAAAGC IRF7 CXCR6:ENST00000304552 1685 1674 12.3449 2.29E-05 GAAACCAAAAGT IRF3 CXCR6:ENST00000304552 1685 1674 12.2502 2.71E-05 GAAACCAAAAGT IRF7 DTX3L:ENST00000296161 533 544 9.38195 0.000193 GAAATGGAACTC IRF3 DTX3L:ENST00000296161 533 544 8.61957 0.000218 GAAATGGAACTC IRF7 DTX3L:ENST00000296161 943 954 9.31461 0.000201 GAATGTAAAAAT IRF7 DTX3L:ENST00000296161 1570 1559 9.38195 0.000193 AAATTTGAATGT IRF7 DTX3L:ENST00000296161 1601 1612 8.43919 0.000332 GAATGTGAATTA IRF3 DTX3L:ENST00000296161 1900 1911 11.9425 3.31E-05 GGAAGCGAAACT IRF7 DTX3L:ENST00000296161 1900 1911 11.4022 4.81E-05 GGAAGCGAAACT IRF3 DTX3L:ENST00000296161 1906 1917 16.3115 1.50E-06 GAAACTGAAACT IRF7 DTX3L:ENST00000296161 1906 1917 14.1631 5.66E-06 GAAACTGAAACT IRF3 FLT3LG:ENST00000204637 419 430 7.51194 0.000356 GGAAGGGAAATG IRF3 FLT3LG:ENST00000204637 1587 1576 12.4963 2.38E-05 GAAAGTGAAAGG IRF7 FLT3LG:ENST00000204637 1587 1576 11.7389 3.70E-05 GAAAGTGAAAGG IRF3 FLT3LG:ENST00000204637 1593 1582 12.804 1.85E-05 GAGACCGAAAGT IRF7 FLT3LG:ENST00000204637 1593 1582 9.65131 0.000164 GAGACCGAAAGT IRF7 HLA-A:ENST00000355767 226 237 7.76578 0.000485 CAAAATGAAAAC IRF7 HLA-A:ENST00000355767 790 801 14.2978 5.05E-06 GAATTTGAAAGC IRF3 HLA-A:ENST00000355767 790 801 10.0349 9.96E-05 GAATTTGAAAGC IRF3 HLA-A:ENST00000355767 1225 1236 11.881 3.45E-05 GAAAGTGCAACT IRF7 HLA-A:ENST00000355767 1225 1236 10.3921 0.000102 GAAAGTGCAACT IRF3 HLA-A:ENST00000355767 1595 1606 8.61957 0.000218 AAAAGTGAAAGG IRF7 HLA-A:ENST00000355767 1595 1606 8.03515 0.000416 AAAAGTGAAAGG IRF3 HLA-B:ENST00000376228 166 177 9.60414 0.000125 GAAAATGATACT IRF3 HLA-B:ENST00000376228 575 586 7.20426 0.000411 GGAACAGAAACA IRF7 HLA-B:ENST00000376228 600 611 8.97791 0.000244 CAAATTGAAAAC IRF7 HLA-B:ENST00000376228 859 870 10.7961 7.63E-05 GAATTCTAAAGC IRF7 HLA-B:ENST00000376228 1252 1263 10.7288 8.03E-05 GAAAGTAAAACT IRF3 HLA-B:ENST00000376228 1252 1263 9.05032 0.000176 GAAAGTAAAACT

IRF7 HLA-B:ENST00000376228 1326 1315 8.91057 0.000252 GAATTCCAATTT http://ard.bmj.com/ IRF3 HLA-B:ENST00000376228 1376 1387 10.5272 7.48E-05 AAAAAGGAAACT IRF7 HLA-B:ENST00000376228 1376 1387 9.38195 0.000193 AAAAAGGAAACT IRF3 HLA-B:ENST00000376235 518 529 7.20426 0.000411 GGAACAGAAACA IRF7 HLA-B:ENST00000376235 543 554 8.97791 0.000244 CAAATTGAAAAC IRF7 HLA-B:ENST00000376235 803 814 10.7961 7.63E-05 GAATTCTAAAGC

IRF7 HLA-B:ENST00000376235 1270 1259 8.97791 0.000244 GAATTCCAATCT on October 2, 2021 by guest. Protected copyright. IRF3 HLA-B:ENST00000376235 1320 1331 10.5272 7.48E-05 AAAAAGGAAACT IRF7 HLA-B:ENST00000376235 1320 1331 9.38195 0.000193 AAAAAGGAAACT IRF3 HLA-B:ENST00000376235 1915 1904 7.4504 0.000365 GAACCCGACACC IRF7 HLA-G:ENST00000360323 807 818 11.0655 6.26E-05 GAATTCCAAAGC IRF3 HLA-G:ENST00000360323 1247 1258 15.2039 3.79E-06 GAAAGTGAAACT IRF7 HLA-G:ENST00000360323 1247 1258 14.4325 4.23E-06 GAAAGTGAAACT IRF7 HLA-G:ENST00000376828 210 199 12.0756 2.83E-05 GAAATTGAAGTT IRF3 HLA-G:ENST00000376828 210 199 7.51194 0.000356 GAAATTGAAGTT IRF7 HLA-G:ENST00000376828 521 532 8.23717 0.000371 GAAAATGAAGGG IRF7 HLA-G:ENST00000376828 683 694 7.76578 0.000485 CAAAATGAAAAC IRF7 HLA-G:ENST00000376828 1613 1624 11.0655 6.26E-05 GAATTCCAAAGC IRF7 IL2RG:ENST00000276110 1252 1263 12.1429 2.67E-05 GAAATTGAAGCT IRF3 IL2RG:ENST00000276110 1252 1263 8.37343 0.000243 GAAATTGAAGCT IRF3 IL2RG:ENST00000276110 1791 1780 9.41954 0.00014 TAAACAGAAACT IRF3 IL2RG:ENST00000374191 187 176 11.081 5.64E-05 GAAAGAGAAATG

186 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

IRF7 IL2RG:ENST00000374191 206 195 10.7288 8.03E-05 GAAAATGAAGGC IRF3 IL2RG:ENST00000374191 206 195 7.20426 0.000411 GAAAATGAAGGC IRF3 IL2RG:ENST00000374191 1767 1778 8.80418 0.000199 GAGAGAGAAACT IRF3 IL2RG:ENST00000374191 1954 1943 7.51194 0.000356 GAACACGAAACG IRF3 LAT:ENST00000354453 267 256 7.88115 0.000307 GAAAGGGAAGGA IRF7 LAT:ENST00000354453 267 256 8.50653 0.000319 GAAAGGGAAGGA IRF7 LTB:ENST00000376115 306 295 9.65131 0.000164 GAATTTGAACCC IRF3 LTB:ENST00000376115 1458 1447 8.18883 0.000262 GAAAGGGAGAGG IRF3 LTB:ENST00000376115 1748 1737 8.80418 0.000199 GAGAGAGAAACT IRF7 PIM1:ENST00000373507 236 225 10.8634 7.24E-05 GAAAATGAAACA IRF3 PIM1:ENST00000373507 236 225 10.4656 7.87E-05 GAAAATGAAACA IRF7 PIM1:ENST00000373507 322 333 8.03515 0.000416 CAAAAGGAAAAT IRF7 PIM1:ENST00000373507 434 423 9.38195 0.000193 GAATTTAAATGT IRF3 PIM1:ENST00000373507 523 512 7.75808 0.000325 GTAATTGAAAGC IRF7 PIM1:ENST00000373507 523 512 8.37185 0.000344 GTAATTGAAAGC IRF3 PIM1:ENST00000373507 1356 1367 11.6348 4.19E-05 GAAACGGAGAGC IRF7 PPP1CA:ENST00000312989 1283 1294 8.97791 0.000244 GGAAGTGAATGT IRF3 PPP1CA:ENST00000312989 1561 1550 8.80418 0.000199 GGAAAGGAAACT IRF7 PPP1CA:ENST00000312989 1561 1550 9.04525 0.000234 GGAAAGGAAACT IRF3 PPP1CA:ENST00000312989 1663 1674 9.11186 0.00017 GAAAGAGAAAAA IRF7 PRKCQ:ENST00000263125 148 159 8.10249 0.0004 GCAAGTGAATCT IRF7 PRKCQ:ENST00000263125 640 651 10.9981 6.61E-05 GAATTCTAAACT IRF7 PRKCQ:ENST00000263125 1150 1139 9.04525 0.000234 TAATCTGAAACT IRF7 PRKCQ:ENST00000263125 1845 1856 8.50653 0.000319 GGAAGTGAAAAC IRF3 PRKCQ:ENST00000263125 1845 1856 6.89658 0.000485 GGAAGTGAAAAC IRF7 PSME1:ENST00000206451 403 414 10.7961 7.63E-05 GAAATTCAAATT IRF3 PSME1:ENST00000206451 403 414 7.20426 0.000411 GAAATTCAAATT IRF7 PSME1:ENST00000206451 415 404 12.1429 2.67E-05 GAATTTGAATTT IRF3 PSME1:ENST00000206451 1196 1207 7.20426 0.000411 GAAGGGGCAAGC IRF3 PSME1:ENST00000206451 1946 1935 17.173 9.00E-07 GAAAGCGAAAGC IRF7 PSME1:ENST00000206451 1946 1935 15.2406 1.63E-06 GAAAGCGAAAGC

IRF3 RAC2:ENST00000249071 278 267 8.37343 0.000243 GAAAGAGTAAGT http://ard.bmj.com/ IRF3 RAC2:ENST00000249071 410 421 9.66568 0.000121 GAAAAAGAAAGG IRF3 RAC2:ENST00000249071 619 608 13.1117 1.40E-05 GAAAGGGAAATG IRF7 RAC2:ENST00000249071 619 608 9.98801 0.000134 GAAAGGGAAATG IRF3 RAC2:ENST00000249071 1879 1868 9.23493 0.00016 GAAACGGAAGGG IRF7 RAC2:ENST00000406508 355 366 8.37185 0.000344 AAAAGTGACAGT

IRF3 RAC2:ENST00000406508 543 532 8.12729 0.000273 GGAAGGGAAAAC on October 2, 2021 by guest. Protected copyright. IRF7 RAC2:ENST00000406508 1593 1582 8.97791 0.000244 GAAATGGAATCA IRF7 RAP1B:ENST00000250559 210 199 9.78599 0.000151 AAAATGGAAAAT IRF3 RAP1B:ENST00000250559 210 199 8.74265 0.000204 AAAATGGAAAAT IRF3 RAP1B:ENST00000250559 217 206 9.91182 0.000105 GAAACCTAAAAT IRF7 RAP1B:ENST00000250559 217 206 9.85333 0.000144 GAAACCTAAAAT IRF3 RAP1B:ENST00000250559 223 212 6.83505 0.000498 AAATAGGAAACC IRF3 RAP1B:ENST00000250559 853 842 7.26579 0.000397 AAAAGGGAAAAA IRF7 RAP1B:ENST00000250559 1743 1732 8.10249 0.0004 GAAATCCAACCT IRF7 TAP1:ENST00000354258 6 17 9.58397 0.00017 GCAAGTGAAAAT IRF3 TAP1:ENST00000354258 6 17 7.01965 0.00045 GCAAGTGAAAAT IRF7 TAP1:ENST00000354258 272 283 11.0655 6.26E-05 GAAAATAAAAGT IRF3 TAP1:ENST00000354258 504 515 7.14272 0.000426 GAAAATGCAAAC IRF7 TAP1:ENST00000354258 504 515 7.96781 0.000433 GAAAATGCAAAC IRF3 TAP1:ENST00000354258 596 585 6.95812 0.000466 GAAGTGGAAACA IRF3 TAP1:ENST00000354258 1236 1247 17.173 9.00E-07 GAAAGCGAAAGC

187 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

IRF7 TAP1:ENST00000354258 1236 1247 15.2406 1.63E-06 GAAAGCGAAAGC IRF7 TAP1:ENST00000354258 1988 1977 15.914 6.59E-07 GAAATCGAAAGC IRF3 TAP1:ENST00000354258 1988 1977 15.9423 2.39E-06 GAAATCGAAAGC IRF3 TAP1:ENST00000354258 1994 1983 16.5577 1.20E-06 GAAAGCGAAATC IRF7 TAP1:ENST00000354258 1994 1983 14.2978 5.05E-06 GAAAGCGAAATC IRF7 TBL1X:ENST00000217964 169 158 8.43919 0.000332 AAATTTGACAGT IRF7 TBL1X:ENST00000380961 1575 1564 11.2001 5.64E-05 GAATCCCAAAGT IRF3 TBL1X:ENST00000380961 1575 1564 8.92725 0.000189 GAATCCCAAAGT IRF3 YWHAZ:ENST00000353245 460 449 8.92725 0.000189 GAAACGAAAACG IRF3 YWHAZ:ENST00000353245 1062 1073 6.83505 0.000498 GAAACTAAAATG IRF3 YWHAZ:ENST00000353245 1827 1816 7.26579 0.000397 AAAAGGGAAAAA

188 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

189 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

190 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

191 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

192 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Supplementary Figure 1. The granulopoiesis signature seen in SLE and AAV patients correlates with increased numbers of immature granulocytes. (A) Flow cytometry reveals cells with the forward (FSC) and side scatter (SSC) characteristics of immature granulocytes in the PBMC samples from AAV and SLE patients. (B) PBMC samples from SLE and AAV patients contain significantly more immature granulocytes (gated cells in panel A) than those from controls. Horizontal bars denote the mean, statistical significance was determined by ANOVA, ** p < 0.01, *** p < 0.001. (C) The expression

level as determined by microarray analysis of three genes expressed in immature

granulocytes, DEFA1, LCN2, and BPI, correlates with immature granulocyte number.

Supplementary Figure 2. The plasmablast signature, autoantibodies, and flare-free

survival in SLE. (A) ANA (left panel) and dsDNA (right panel) titres in SLE patients

with or without the plasmablast signature (PB sig). Although it failed to reach statistical

significance there was a trend towards increased antibodies in patients with the http://ard.bmj.com/ plasmablast signature. Statistical significance was assessed using a Mann Whitney test.

(B) The presence or absence of the plasmablast signature does not influence flare-free

survival in SLE patients following induction therapy. Differences in flare-free survival on October 2, 2021 by guest. Protected copyright. were assessed using the Kaplan-Meier Log Rank Test.

Supplementary Figure 3. The majority of differentially expressed genes identified in the analysis of PBMC from SLE and AAV patients and normal controls reflect genes differentially expressed in the lymphoid and myeloid lineages. (A) Hierarchical clustering of CD4 and CD8 T cell, CD19 B cell, and CD14 monocyte data from 10

193 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from normal controls using expression data from the genes comprising the lymphoid signature

(orange bar in Figure 1A) reveals these genes are expressed at a higher level in cells of the lymphoid lineage compared to the myeloid lineage. (B) Hierarchical clustering of

CD4 and CD8 T cell, CD19 B cell, and CD14 monocyte data from 10 normal controls using expression data from the genes comprising the myeloid signature (yellow bar in

Figure 1A) reveals these genes are expressed at a higher level in cells of the myeloid lineage compared to the lymphoid lineage. Hierarchical clustering was performed using the Pearson correlation coefficient as distance metric and average-linkage clustering.

Supplementary Figure 4. The majority of expression changes seen in purified cells are not visible in unseparated PBMC. (A-F) Differential gene expression in PBMC (pink shading) and purified cells from SLE patients (blue circles), AAV patients (green circles), and normal controls (red circles. (A) The interferon inducible genes IFI27, STAT1, MX1, and LY6E are up-regulated in SLE patients in most cell types, and this differential http://ard.bmj.com/ expression is clearly visible in unseparated PBMC. Genes differentially regulated in different leukocyte subsets are often not seen in arrays of unseparated PBMC. Examples

included (B) GPR15 and FLT3LG in CD4 and CD8 T cells of SLE patients, (C) CD3G in on October 2, 2021 by guest. Protected copyright.

CD4 T cells of AAV patients , (D) POU3F3 in CD19 B cells of SLE patients, (E) CLU in

CD14 monocytes of SLE patients, (F) C5AR in CD14 monocytes of AAV patients. In each panel horizontal bars denote the mean, statistical significance between differences in the means was determined using a t test, * p < 0.05, ** p < 0.01, *** p < 0.001. ND, not detected.

194 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

Supplementary Figure 5. Expression data generated by qPCR strongly correlates with

that obtained from the microarray analysis. A highly significant correlation between

qPCR and array-based measures of expression level was obtained for IL7R (A, B), CD69

(C, D), CD40L (E), and CD25 (F) mRNA in CD4 (A, C, E, F) and CD8 (B, F) T cells.

Supplementary Figure 6. Steroid usage at enrolment does not dampen interferon inducible gene expression. Expression levels of the interferon inducible genes STAT1 and OAS3 do not differ between patients on steroids at enrolment and those not.

Supplementary Figure 7. CD4 T cell restricted differential gene expression in SLE patients. Differential expression of genes involved in cell cycle (A), cell adhesion (B), and cellular activation (C) was visible in purified CD4 T cells, but not unseparated

PBMC (pink shading), of SLE patients (blue circles) compared to controls (red circles).

Horizontal bars denote the mean, statistical significance was determined by t test, * p < http://ard.bmj.com/ 0.05.

Supplementary Figure 8. Hierarchical clustering of PBMC samples using the genes that on October 2, 2021 by guest. Protected copyright. best discriminate SLE and AAV patients from each other and from controls. Hierarchical clustering of PBMC samples from 28 AAV and 12 SLE patients together with 21 controls using expression data from 115 genes broadly separates the samples into three groups.

The numbers below the heatmap show the distribution of AAV, SLE and control samples between the three groups. Hierarchical clustering was performed using the Pearson correlation coefficient as distance metric and average-linkage clustering.

195 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

196 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

197 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

198 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

199 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

200 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

201 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from http://ard.bmj.com/ on October 2, 2021 by guest. Protected copyright.

202 Ann Rheum Dis: first published as 10.1136/ard.2009.108043 on 7 October 2009. Downloaded from

203