Characterization of Gene Expression Patterns in the Wild Pacific Salmon

by

Evan Morien

B.Sc., State University of New York at Buffalo, 2007

A THESIS SUBMITTED IN PARTIAL FULFILLMENT OF THE REQUIREMENTS FOR THE DEGREE OF

MASTER OF SCIENCE

in

The Faculty of Graduate Studies

(Bioinformatics)

THE UNIVERSITY OF BRITISH COLUMBIA (Vancouver) December 2012 c Evan Morien 2012 Abstract

Declines in Pacific salmon stocks in recent decades have spurred much re- search into their physiology and survivorship, but comparatively little into their genomics. Sockeye salmon in particular are experiencing high levels of mortality during their migration upriver, and the numbers of returning sockeye have fluxuated wildly with respect to predictions in recent years.

The goal of my project is to gain insight into the basic genomics of Pacific salmon stocks, including the sockeye, through bioinformatic approaches to gene expression profiling. Using microarray technology, I have conducted a large-scale analysis of over 1,000 samples from multiple tissues, stocks, and species of salmon.

I identified tissue-specific and housekeeping genes and compared them to orthologs in mouse and human, respectively. I have also classified a number of microarray samples with a support vector machine (SVM) using qPCR data showing the presence of several common pathogens affecting Pacific salmon populations. Using identified housekeeping genes as normalizing factors, I modeled in silico a qPCR assay designed to identify salmon as infected or uninfected with a particular pathogen. With these data I hope to increase basic knowledge of the genomics of the Pacific salmon.

ii Preface

Contributions

The data used in this thesis were generated at the Department of Fish- eries and Oceans Pacific Biological Station in Nanaimo, British Columbia by Kristina M. Miller, Ph.D., Molecular Genetics Section Head, and mem- bers of her lab. Shaorong Li is responsible for the generation of the qPCR data. Angela D. Schulze and Karia H. Kaukinen are responsible for the gen- eration of the microarray data. Paul Pavlidis, Ph.D., Associate Professor,

University of British Columbia, supervised and directed my contributions to the project. I conducted the computational research detailed below, and wrote this thesis.

iii Table of Contents

Abstract ...... ii

Preface ...... iii

Table of Contents ...... iv

List of Tables ...... viii

List of Figures ...... x

List of Abbreviations ...... xii

Acknowledgements ...... xiii

1 Introduction ...... 1

1.1 Consider the Salmon ...... 1

1.2 FishManOmics - Genomic Tools for Fisheries Management . 3

1.3 Thesis Overview ...... 4

1.4 Literature Review ...... 6

1.4.1 Genomics Research on Salmonids ...... 7

1.4.2 Genomics Research on Non-Salmonid Teleost Fish . . 9

iv 1.4.3 Housekeeping and Tissue-Specific Gene Research in

Other Organisms ...... 13

1.4.4 Pathogen Types and Host-Pathogen Interactions . . . 15

1.4.5 Supervised Machine Learning ...... 16

1.4.6 Using ROC Curves and AUC Values ...... 19

2 Methods ...... 21

2.1 Biological Methods ...... 21

2.1.1 Introduction ...... 21

2.1.2 Data Collection ...... 21

2.1.3 Array Sample Preparation ...... 22

2.1.4 Arrays ...... 22

2.1.5 qRT-PCR ...... 23

2.2 Computational Methods ...... 23

2.2.1 Array Data Preparation ...... 23

2.2.2 Identifying Housekeeping Genes ...... 24

2.2.3 Identifying Tissue-Specific Genes ...... 25

2.2.4 Comparison of TS Genes to Mouse Counterparts . . . 26

2.2.5 qRT-PCR Data Prep ...... 26

2.2.6 Functional Enrichment Analysis ...... 27

2.2.7 SVM Classification ...... 28

2.2.8 Using Control Probes to Normalize Data ...... 28

3 Results ...... 30

3.1 Housekeeping Gene Identification ...... 30

3.2 Comparison of Housekeeping Genes to Human Counterparts 30

v 3.3 Tissue Specific/Selective Gene Identification ...... 31

3.4 Comparison of TS Genes to Murine Counterparts ...... 33

3.5 Functional Enrichment of TS Genes ...... 35

3.6 SVM Classification and Prediction of Pathogen States . . . . 35

3.6.1 Functional Enrichment Analysis of Pathogen-specific

Probes ...... 44

3.6.2 Differences Between Pathogen Datasets ...... 45

3.6.3 Classification of Fish Infected with Parvovirus Alone,

or No Pathogens ...... 50

3.6.4 Fish Infected with Multiple Pathogens ...... 51

3.7 Using Control Probes to Normalize Data ...... 52

4 Discussion ...... 55

4.1 What is an appropriate reference gene? ...... 55

4.2 Comparison of Salmon to Mouse and Human Genes . . . . . 57

4.2.1 Biological Implications of Overlap ...... 57

4.2.2 Functional Enrichment of TS Genes ...... 59

4.3 SVM Classification ...... 59

4.4 Functional Enrichment of Pathogen-Specific Signals, and Infection-

Type-Specific Responses ...... 61

4.5 Using Control Genes to Normalize Data ...... 62

4.6 Conclusion ...... 63

Bibliography ...... 64

vi Appendices

A Reference Gene Candidates ...... 77

B Tissue-Specific Probes ...... 219

B.1 Brain-Specific Probes ...... 219

B.2 Gill-Specific Probes ...... 297

B.3 Liver-Specific Probes ...... 338

B.4 Muscle-Specific Probes ...... 400

C Tissue-Specific Functional Enrichment ...... 448

C.1 Brain-Specific Enrichment ...... 448

C.2 Gill-Specific Enrichment ...... 451

C.3 Liver-Specific Enrichment ...... 451

C.4 Muscle-Specific Enrichment ...... 453

D Pathogen-Specific Functional Enrichment ...... 455

D.1 Microsporidia-Specific Enrichment ...... 455

D.2 Gill Chlamydia-Specific Enrichment ...... 455

D.3 Parvovirus-Specific Enrichment ...... 458

vii List of Tables

2.1 Tissue and species data sources. Fish were harvested from 2007-2010 in the Fraser River, Straight of Georgia, and sur- rounding ocean waters. All fish are smolts (juveniles). . . . . 24

3.1 Expected and observed overlap between the human house- keeping and salmon housekeeping genes...... 31 3.2 Expected vs observed overlap between mouse and salmon tissue-specific genes. p-values calculated using the hypergeo- metric test...... 34 3.3 Microsporidia training AUC values using the full dataset of 141 gill samples...... 36 3.4 Training and test AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for microsporidia data. . 37 3.5 Training and test AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for gill chlamydia data. . 42 3.6 Classification performance using gill chlamydia pathogen qPCR data with linear and radial basis kernel functions...... 42 3.7 Numbers of significantly differentially expressed probes and genes for fish infected with each pathogen alone and fish in- fected with all pathogens compared to pathogen-free fish. . . 43 3.8 Training AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for parvovirus-only data. . . . . 50 3.9 Training AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for classification of microsporidia- only fish, fish infected with more than one pathogen, fish in- fected with all three pathogens, and gill chlamydia-only fish. . 52

viii 3.10 Full dataset microsporidia training AUCs from non-normalized (NN) and quantile-normalized (QN) data that has been con- trol corrected (CC) using the ten control probes selected. Alongside are shown the ratios of support vectors to total vectors (SVs/TVs) for each of the four sets of results. . . . . 54

ix List of Figures

2.1 Binarized qPCR data for three pathogens in gill samples. The data has been sorted in ascending order according to the num- ber of positive data points present. Dark boxes indicate the presence of a pathogen, light boxes indicate no pathogen was detected. This was the only pathogen data used...... 27

3.1 Heatmap showing tissue specific/selective probes found in each of the four tissues assayed. Expression level increases from orange to white. The 1,086 samples are organized in tis- sue groups, while probes are sorted by p-value. p-values calcu- lated using t-tests for differential expression between tissues. 3,238 probes are represented, corresponding to 977 genes. Nu- meric labels show the number of unique genes associated with each group of TS probes...... 32 3.2 The degree of overlap between murine and salmonid TS genes in brain, liver, and muscle...... 34 3.3 Training and test ROC curves from classification of fish using microsporidia labels...... 38 3.4 Training ROC curves from gill chlamydia (top) at 15 features and parvovirus (bottom) at 50 features...... 40 3.5 Test ROC curves from gill chlamydia (top) at 15 features and parvovirus (bottom) at 50 features...... 41

x 3.6 CT values for fish testing positive for microsporidia, gill chlamy- dia, and parvovirus. Red points represent individual CT val- ues. Low CT values indicate the presence of more pathogen DNA in the qPCR sample. A CT value of 38 indicates that there was no pathogen DNA present in the sample...... 46 3.7 Histograms of CT values for microsporidia (top left), gill chlamydia (top right), and parvovirus (bottom)...... 47 3.8 CT values for fish testing positive for microsporidia, gill chlamy- dia, and parvovirus. Red points represent individual CT val- ues. Low CT values indicate the presence of more pathogen DNA in the qPCR sample. A CT value of 38 indicates that there was no pathogen DNA present in the sample. True posi- tive fish (n=58, mean CT=28.3) are those which are identified correctly as infected by the classifier, and false negative fish (n=12, mean CT=29.7) are those which are infected but are misclassified as uninfected. Remaining fish are either false positives or true negatives and have scores of 38 (not shown). 49 3.9 Heatmap showing the expression of the nine control probes alongside the expression from selected experimental probes. . 53

xi List of Abbreviations

AUC - area under the (ROC) curve cDNA - complementary DNA cGRASP - Consortium for Genomic Research on All Salmonids Project DFO - Department of Fisheries and Oceans FC - fold change q(RT)PCR - quantitative (real-time) polymerase chain reaction ROC - receiver operating characteristic SVM - support vector machine TS - tissue-specific and tissue-selective

xii Acknowledgements

I wish to thank Paul Pavlidis, my supervisor, for his guidance, advice, and patience throughout my time in the lab; Kristina M. Miller, the project head, my co-supervisor, a member of my committee, and without whom we would not have our data; Scott G. Hinch and Jeorg Gsponer, my commit- tee members; Thomas Sierocinski, who was a post-doctoral student working on the project when I joined and to whom I owe great thanks for his ad- vice and guidance; Willie Kwok, Celia Siu, and Artemis Lai, who curated our data; Shaorong Li, who produced the qPCR pathogen data; Angela D.

Schulze and Karia H. Kaukinen, who generated the microarray data; Norma

Ginther, for her help with the biological methods; Emma Lawson, Leon

French, and Ellyce Eddy, for reading my thesis and giving helpful advice;

Eloi Mercier, Jesse Gillis, Meeta Mistry, Raymond Lim, Louise Donnison, and Hugh Brown for all of their help while I was learning R and improving my coding skills, looking for feedback on ideas, and their advice while I was working on this project; and the rest of the Pavlidis and Miller labs for all of their help and contributions to the FishManOmics project.

xiii Chapter 1

Introduction

1.1 Consider the Salmon

Worldwide, salmon species are both ecologically and economically important organisms. Both Atlantic (Salmo salar) and Pacific salmon (Oncorhynchus spp.) stocks have been fished for centuries, and S. salar is farmed throughout northern Europe and America, but also in places as far from that species’ native range as Australia and Chile (Gross 1998). Pacific salmon are not farmed in large numbers except for coho salmon (Foran et al. 2005, Kocik and Brown 2002, Araneda et al. 2008), but in British Columbia, the wild sockeye run has been historically profitable, with the average run of 8 million

fish being worth over $1 billion (Miller et al. 2011). Salmon are a keystone species in the ecosystems they are part of, bringing nutrients from the marine environment back to nutrient-poor freshwater systems and providing food for a varienty of animals including bears, otters, eagles, and gulls (Helfield and Naiman 2006).

Pacific salmon and trout are teleost fishes belonging to the genus On- corhynchus. They form - along with Atlantic salmon, other species of trout, char, graylings, and whitefishes - the family Salmonidae. There are six species of Pacific salmon: sockeye (O. nerka), coho (O. kisutch), pink (O.

1 gorbuscha), chum (O. keta), chinook (O. tshawytschai), and masu (O. ma- sou). The salmonid genome is pseudo-tetraploid, with an ancestral dupli- cation having occured between 25 and 100 million years ago (reviewed in de Boer et al. 2007), and the re-diploidization of the genome still ongoing

(reviewed in Wolfe 2001, Davidson et al. 2010). This duplication makes the structure of their genome distinct from other tetrapods, and indeed from other teleost fish lineages.

Salmon are anadromous - they migrate between fresh and salt water during their life cycle, with much of the time being spent in salt water. The details vary between species and individuals, but broadly, salmon hatch in rivers, then live as juveniles in freshwater for 1-2 years before migrating downstream to the ocean where they mature for a further 1-5 years. Once mature, they migrate back upriver to the natal streams where they hatched to spawn (Quinn 2005). Genus Oncorhynchus generally die after spawning, while Salmo spp. can survive for repeated spawnings (Araneda et al. 2008).

As adult salmon travel upriver, a variety of stressors may influence their suc- cess. River temperature and conditions, the change from salt to freshwater and the physiological change which accompanies it, pathogens, pollutants, and the timing of the migration all have the potential to adversely affect the salmon’s chance of spawning (Cooke et al. 2004, Mathes et al. 2010).

In recent decades, numbers of returning sockeye have fluxuated wildly while declining throughout their range in BC (Miller et al. 2011, Cooke et al. 2004) and elsewhere (Kaeriyama et al. 2009). Pre-spawning mortality has also been high during this time, ranging from 40-95% of the returning adults (Cooke et al. 2004). Declines in salmon stocks have not been specific

2 to sockeye, with a recent large-scale survey finding 23% of Oncorhynchus spp. populations to be at moderate or high risk of extinction (Augerot and

Foley 2005). These trends are worrying for both commercial and governmen- tal bodies in Canada, and the project my work contributes to was created with the intent of addressing the Canadian goverment’s concern over the situation.

1.2 FishManOmics - Genomic Tools for Fisheries

Management

The FishManOmics project is a Department of Fisheries and Oceans (DFO),

NSERC, and GenomeBC-funded investigation of the recent declines and increased variability in salmon returns in British Columbia. The goal of the project - of which my own work is a part - is to assess the overall health of salmon stocks using biomarkers, and to inform salmon management through studies of their genomics.

In a paper published last year, a mortality-associated biological signature was identified by FishManOmics researchers (Miller et al. 2011). The func- tional genomics study examined several hundred salmon which were sampled and tagged as they prepared to migrate up the Fraser River to spawn. Cus- tom microarrays were used to probe the gene expression of the fish (Koop et al. 2008). Fish which died before reaching the spawning grounds were found to share a set of biomarkers which suggested they were under some sort of immune stress. Miller et al. hypothesize that the mortality-related signature is the result of a pathogen which is adversely affecting the salmon, possibly

3 from a virus, but stops short of any further biological conclusions. This high- lights an important problem when conducting research using a non-model organism: often, very little is known about their genetics and genomics, so interpretations of functional genomics studies like this one must be cautious.

Indeed, despite the wealth of research on many species of salmon, we know very little about their genomics.

I propose that a large-scale analysis of the Pacific salmon transcriptome could 1) provide insight into salmon genomics, an area which is currently understudied 2) give invaluable information to those who wish to study the genomics of the salmon, and 3) add to the knowledge base which currently informs fish management in British Columbia.

1.3 Thesis Overview

The need for basic information about broad-scale variation in the salmon genome and the dearth of knowledge of Pacific salmon genomics is what motivates the work in the first part of this thesis. With a wide variety of microarray data at my disposal, I wanted to ask questions that would increase and supplement our knowledge of salmon genomics and genetics.

I began by asking some basic questions which had not been addressed yet with respect to salmon, namely: 1) What genes are tissue-specific (TS)?, 2)

What genes are least variable in their expression patterns?, and further, 3)

How conserved are these genes in their expression patterns when compared to other more well-understood organisms?

These questions are motivated, as mentioned previously, by a critical

4 lack of knowledge. But rather more importantly they are movtivated by the potential benefits of the answers they will yield. The most obvious bene-

fit from knowing more about salmon genomics is to researchers who wish to interpret the results of functional genomics studies on salmon and their close relatives. Additionally, both commercial and governmental interests will be able to benefit from newly-discovered information about salmon, and methods of fish management may be improved as a result. For example, in

British Columbia, none of the models used to forecast the numbers of re- turning salmon include information on salmon health or condition, and few of them use any environmental variables. Perhaps because of this, the fore- casts are generally “highly uncertain” (DFO Fraser River Sockeye Forecasts

2012). The use of biomarkers to assess salmon health could help directly to improve forecasting of salmon runs, and in turn inform limits imposed on salmon catches for commercial and sport fishing (DFO Integrated Fisheries

Management Plan 2012). Experiments that could be used to assess popula- tion health, such as qPCR, require controls as well. It is no doubt better to identify these controls directly using data from salmon, rather than to rely on homology data.

To assess the conservation of TS and housekeeping genes in salmon we compared them to counterparts in mouse (Su et al. 2004) and human (Eisen- berg and Levanon 2003, Chang et al. 2011). This comparison was in part motivated by the annotations of the custom microarray used to produce our data. Because the salmon genome has not been sequenced, and the lack of knowledge regarding the genetics of Pacific salmon, the annotations on the array were created almost entirely from homology to other organisms. Com-

5 paring TS and housekeeping genes with counterparts in more well annotated organisms not only demonstrates the validity of our methods, it gives us a measure of the accuracy of our annotations.

The work in this thesis is also motivated by the desire to identify pathogen or infection-specific biomarkers. Using data available to me, I sought biomark- ers which could identify salmon as infected or uninfected with several com- mon pathogens already detected in many of the fish assayed in the microar- ray experiment. I hypothesize that there are pathogen-specific biomarkers which may themselves serve as indicators of overall fish health. These could be assayed in tandem with other biomarkers as part of a test of overall population health in returning salmon each year. I first identified pathogen- specific biomarkers, then modeled a qPCR assay in silico, classifying samples using these biomarkers while employing previously identified housekeeping genes as controls.

1.4 Literature Review

In the past, research on Salmonids and other fish has been crucial to the field of evolutionary biology, and to the development of commercial aquaculture.

In the last decade, much preliminary work has been done on the genetics and genomics of the salmon and other closely related species (reviewed in

Araneda et al. 2008). In the following sections I summarzie current re- search and resources in the field of Salmonid genomics, as well as similar research being conducted on other species of fish. My goal here is not a com- prehensive review of fish genomics, but a summary which highlights major

6 accomplishments with respect to Salmonids, and relevant feats for other teleost lineages.

Additionally, I discuss established techniques for the discovery of tissue- specific and housekeeping genes using microarray technology by highlighting some landmark studies done using more well-researched organims such as mouse and human, as well as any relevant studies done using teleost fish.

Finally, I discuss relevant literature on the use of Support Vector Ma- chines (SVMs) to classify microarray samples, and the use of receiver op- erating characteristic (ROC) curves to evaluate the performance of SVM classification.

1.4.1 Genomics Research on Salmonids

Salmonids - rainbow trout (O. mykiss) in particular - are some of the best- studied fish in terms of their ecology, biochemistry, and physiology, but comparatively little research has been done on their genomics (Thorgaard et al. 2002), especially with respect to Pacific salmon. Sequencing of the

Atlantic salmon genome began in 2010 (Davidson et al. 2010), but no draft sequence has been published at the time of writing. There are some existing genomics resources for Atlantic salmon (reviewed in Quinn et al. 2008), but no such resources are available for Pacific salmon species.

Large-scale genomics projects focused on Salmonids have been initiated by groups in Canada, Norway, France, and the United States. As a re- sult, there exist several low-resolution genetic maps for salmonid species:

O. mykiss (Guyomard et al. 2006, Rexroad et al. 2008, Palti et al. 2011),

S. salar (Moen et al. 2004, Ng et al. 2005, Moen et al. 2008), and for

7 related species Arctic charr (Salvelinus alpinus), lake whitefish (Coregonus clupeaformis), and brown trout (Salmo trutta) (reviewed in Araneda et al.

2008). One preliminary linkage map exists for pink salmon (O. gorbuscha), but it has not yet been published as a genetic map (Araneda et al. 2008).

There has also been extensive work on quantitative trait loci mapping in salmonids, O. mykiss in particular (reviewed in Araneda et al. 2008).

There are published EST and BAC libraries for S. salar (Martin et al.

2002, Rise et al. 2004, Thorsen et al. 2005, Adzhubei et al. 2007, Koop et al. 2008), and O. mykiss (Rexroad et al. 2003, Govoroun et al. 2006).

These libraries, with the exception of one created from liver alone (Martin et al 2002) and one created from spermatazoa (Thorsen et al. 2005) were created from multiple tissues of either adult or juvenile salmon or trout.

The EST libraries have facilitated the development of several salmon- specific microarray platforms (Rise et al. 2004, von Schalburg et al. 2005,

Koop et al. 2008, von Schalburg et al. 2008, Taggart et al. 2008) which have been used in large-scale aquaculture and Salmonid functional genomics studies (reviewed in Rise et al. 2007, Krasnov et al. 2010). Additionally, an online bioinformatics resource for Atlantic salmon and rainbow trout,

SalmonDB, was launched last year (Di Genova et al. 2011).

Many of the currently available Salmonid microarray platforms use EST libraries from multiple species. In fact the array used to produce my data is one of these, with probes derived from 500K S. salar and 250K O. mykiss

ESTs (Koop et al. 2008, cGRASP microarray page). Homologous tran- scripts have been demonstrated to hybridize between salmonid species, but how precise these cross-species hybridizations are, and to what degree this

8 may affect quantitative measures of expression with microarray technology is unclear (von Schalburg et al. 2008). The recent genome duplication in the Salmonid line also presents problems, as different gene duplicates may be active in different species. Sequence differences between duplicates would in turn affect quantitative measures of expression. At the time of writing, no array designs are available specifically for the six Pacific salmon species.

Studies using microarray technology to identify differentially expressed genes in Salmonids are few, and much of the work has been done with cDNA arrays of 16,000 probes or fewer (Bobe et al. 2006, Salem et al. 2006,

MacKenzie et al. 2006, reviewed in Krasnov et al. 2010). More recently, larger oligonucleotide Salmon arrays have become available (Jantzen et al.

2011, cGRASP microarray page). These oligonucleotide arrays have several advantages over cDNA arrays, such as greater hybridization efficiency and consistency, and more consistent spots (reviewed in Barrett and Kawasaki

2003). The data used in this thesis was produced using the cGRASP 44K

Salmonid Oligo Array.

1.4.2 Genomics Research on Non-Salmonid Teleost Fish

Eight fish species have had their genomes sequenced1, but all belong to lin- eages which diverged from salmonids at least 200 million years ago (Steinke et al. 2006), and therefore do not share the same recent genome duplication of salmonids. 1Takifugu rubripes (tiger pufferfish), Tetraodon nigriviridis (green spotted pufferfish), Danio rerio (zebrafish), Oryzias latipes (medaka), Gadus morhua (Atlantic cod), Gas- terosteus aculeatus (three-spined stickleback), Latimeria chalumnae (West Indian Ocean coelacanth), and Oreochromis niloticus (Nile tilapia) have full draft sequences available at Ensembl (accessed July 2012).

9 A variety of published studies have examined the transcriptomes of teleost fish (reviewed extensively in Douglas 2006, Miller and Maclean 2008, and Hook 2010). The bulk of this work examines fish under different states of stress (e.g. abnormal environmental conditions or toxins), or in various stages of development. Sample sizes and arrays are often quite small. I aim here not to give an exhaustive review, but to summarize work relevant to this thesis. In the following paragraphs I discuss recent bioinformatic anal- yses of teleost fish transcriptomes, focusing on studies which examine either housekeeping or tissue-specific genes using microarray technology, and those which are larger in scale.

Studies of Housekeeping Genes in Teleost Fish

Housekeeping genes are so-called because when discovered, they were found to be expressed in every tissue or cell-type examined, and were judged as being necessary in some way for cellular survival. These genes (for example, beta-actin) were used as controls in laboratory experiments such as PCR.

The qualitatitve nature of these experiments meant that the variability that some of these genes exhibited was not a concern. As newer, more quanti- tative molecular assays such as qPCR were developed, it became clear that many housekeeping genes were no longer suitable as controls (Tricario et al. 2002, Rubie et al. 2005). As with experiments of a qualitative nature, quantitative assays require controls that are always expressed, but also as invariant in their expression as possible across the tissues and experimental conditions being assayed. This is true for any organism.

qPCR assays need controls that fit these criteria because due to the

10 nature of the experiment, in which the starting material is amplified multiple times. This amplification makes individual assays sensitive to the amount of starting material present as well as its condition, and any differences in sample prep due to human error (reviewed in Radonic et al. 2004, Fedrigo et al. 2010). Reference genes will have been through the same preparatory steps, and have experienced the same level of degradation as experimental targets in each sample, and serve as a normalizing factor which will allow direct comparison of samples.

Indeed, a recent qPCR study of zebrafish (D. rerio) found that some housekeeping genes commonly used as controls were not suitably invariant

(McCurley and Callard 2008). The authors highlight the importance of validating control genes on a variety of experimental conditions. This study was small in scale, with only 8 genes surveyed. While examining the existing literature, I have been unable to find any genome or transcriptome-wide analyses of housekeeping or control genes in any species of teleost fish. The study I have conducted appears to be the first of its kind.

Studies of Tissue-Specific Genes in Teleost Fish

A 2005 study of killifish (Fundulus heteroclitus) on the Atlantic coast sought to uncover population and tissue-specific differences in gene expression be- tween three geographically distant populations (Whitehead and Crawford

2005). The authors used a small custom microarray, with only 192 metabolism- related genes assayed, but found significant differential expression between and among tissues. A microarray study of turbot (Scophthalmus maximus) found a variety of differentially expressed genes in several tissues after ex-

11 posing fry to a bacterial pathogen (Milln et al. 2006). Other larger-scale studies found differential expression of genes within or between tissues due to environmental conditions (Gracey et al. 2004), domestication (Tymchuk et al. 2009), or age and sex-specific differences (Guiry et al. 2010, Seear et al. 2010, Hale et al. 2011). These studies were mainly motivated by the desire to discover differential expression within tissues and between life- stages or conditions. Only the Whitehead and Crawford paper examined tissue-specific differences in adult fish alone.

Comparisons to well-studied organisms have shown that homologous gene expression in fish shows similarities to but is distinct from expres- sion levels in mammals (Gracey et al. 2001, Knoll-Gellida et al. 2006).

Gracey and co-authors found that hypoxia-induced gene expression changes in longjaw mudsuckers (Gillichthys mirabilis) did not reflect hypoxia-related expression changes observed in mammals. Knoll-Gellida et al. highlighted similarities and differences in oocyte gene expression between zebrafish and seven other vertebrates, including human, dog, and salmon. The identified differences illustrate the utility of examining teleost genomes as if no prior knowledge of gene function was available.

There remains a need for studies of larger scale in teleost fish. In all the studies I found, none had more than 200 samples, and few were focused on simply characterizing the transcriptome or genome of the organisms being studied.

12 1.4.3 Housekeeping and Tissue-Specific Gene Research in Other Organisms

The lack of studies evaluating housekeeping genes in teleost fish gives us cause to search the literature for the treatment of this subject in more well- researched organisms, such as mouse and human. In this section I give a brief overview of established standards for finding housekeeping and tissue- specific genes using microarray technology.

Identifying Reference Genes

Traditional reference genes were referred to as housekeeping genes, and were so-called because they are essential for cellular function (reviewed in Tricario et al. 2002), and were valued as controls for qualitative experiments such as

PCR because their expression was observed in every cell. I am also interested in identifying genes for use as controls for our experiments, but the definition for what an appropriate control gene is differs due to the quantitative nature of our assays. Genes such as beta-actin and GAPDH, traditionally valued as reference genes, have recently been found to be unsuitable for use as controls due to their levels of variability under certain conditions (Tricario et al. 2002, Rubie et al. 2005, Fedrigo, et al. 2010).

Because we are interested in reference genes as quantitative and not qualitative controls, we would like their expression to vary as little as possible across a variety of environmental conditions, developmental stages, tissues, etc. We also desire controls that are expressed at a level which is comparable to the genes we may be interested in assaying at a later point. Therefore, our

13 ideal control gene is one which is expressed ubiquitously, has an expression level which falls within mid-high levels of expression, and has low variance.

Previous studies using microarray technology to discover reference genes have typically used a measure of consistency of expression level across sam- ples (de Jonge et al. 2007, Shulzhenko et al. 2005, Narsai et al. 2010,

Fedrigo et al. 2010), as well as filtering out genes which show expression levels that are too low or high (Lee et al. 2006, Popovici et al. 2009, She et al. 2009, Cheng et al. 2011, Chang et al. 2011).

Identifying Tissue-Specific Genes

Tissue-specific and tissue-selective genes are defined as being differentially expressed between tissues. These genes may be expressed in all tissues, but at a much higher level of expression in a single tissue (tissue-selective), or they may be expressed only in a single tissue (tissue-specific). Expression patterns of genes which are tissue-specific or selective suggest that they play a role in tissue-specific functions, and can open the door to more detailed functional analysis and characterization (Dezoso et al. 2008, Liang et al.

2006).

The transcriptomes of a variety of tissues have been well-characterized by large-scale studies in mouse and human (Hsiao et al. 2001, Saito-Hisaminato et al. 2002, Su et al. 2004, Greco et al. 2008, She et al. 2009, Chang et al. 2011). Typically, TS genes are found by their differential expression between the tissue(s) of interest and other tissues (Hsiao et al. 2001, Liang et al. 2006, Greco et al. 2008, Wang et al. 2010, Chang et al. 2011), by the degree of that differential expression (or fold change) (Saito-Hisaminato et

14 al. 2002), or by some combination of the two (She et al. 2009).

1.4.4 Pathogen Types and Host-Pathogen Interactions

One of the major goals of the FishManOmics project is to determine if

Pacific salmon are being adversely affected by any pathogens. Quantitative

PCR data is available along with microarray data for a number of fish, and with this data I attempt to identify gene expression patterns which are indicative of infection by one of three pathogens using supervised machine learning techniques. Details on this experiment and the specific pathogens can be found in the methods. Here I present a brief review of several studies examining the effects of the relevant pathogens in salmonids, as well as the differences and similarities in infection response between the three pathogen types.

Different pathogen types are proven to provoke different responses from their hosts (reviewed in Medzhitov 2007). However, an analysis of 785 tran- scriptional profiles from 32 independent studies of infection of a variety of pathogen types, including bacteria, viruses, and fungi revealed a core set of transcriptional changes which were common to all infections (Jenner and

Young 2005).

Two of the three pathogens surveyed by our collaborators have been previously identified in salmonids. First, Paranucleospora theridion, a mi- crosporidian, was identified and characterized by Nylund et al. in 2010. A gill chlamydia is a new species identified by Duesund et al. in 2010, but its relationship with fish mortality has not been investigated. Finally, a parvovirus strain was identified by our collaborators at the DFO Pacific Bi-

15 ological Research Station in Nanaimo. Its pathogenicity in salmon has not yet been investigated.

The salmon’s response to P. theridion infection is the best-studied of the three. In Atlantic salmon where P. theridion was found, Nylund and co-authors observed inflammation of the gills, kidney, heart, spleen, gut, and pancreas, as well as loss of scales, and pale gill color and excess mucous production compared to uninfected fish. The microsporidian develops in the cytoplasm of its host’s cells, has three distinct life stages, and infects both

S. salar and the sea lice which live on it.

Infection of the gills by chlamydia and chlamydia-like organisms has been reported previously in Pacific salmon, but the authors report that the symptoms were usually minor (Kent et al. 1998). Based on this, and the inability to accurately classify our fish using gill chlamydia data, I hypoth- esize that the observed infections are not severe enough to illicit a strong transcriptional response.

Response to viral infection has been characterized in Atlantic salmon

(Krasnov et al. 2011). 117 genes which are involved in early response to vi- ral pathogens were identified by the group using microarray analysis. These genes were associated with a variety of functions, including immune response and more specialized antiviral response, as well as many non-immune func- tions.

1.4.5 Supervised Machine Learning

The goal of any supervised machine learning experiment is to predict the outcome or class of a test sample or samples based on a set of training exam-

16 ples. The method finds features that identify the classes being distinguished using the training data, and attempts to apply what it has learned to the test data (Hastie et al. 2003).

Support Vector Machines

A support vector machine (SVM) is a machine learning algorithm which classifies objects based on an optimal boundary - or margin - drawn between two classes or groups present in the data. This is accomplished by plotting the data in n-dimensional space, where n is the number of features being used to classify each sample (Boser et al. 1992).

Support vectors are those data points which lie closest to the decision boundary. Due to their positions, they determine the width of the margin between the boundary and the classes being separated. SVMs use the sup- port vectors to optimize the boundary between classes of objects (Boser et al. 1992). Algorithms that use a ’soft margin’ to penalize solutions that allow some examples to be mislabeled can also be used if no boundary can be drawn that fully separates the classes (Cortes and Vapnik 1995).

SVMs have been used to successfully classify everything from handwrit- ing (Boser et al. 1992) to microarray samples (Mukherjee et al. 1999, Furey et al. 2000) and genes (Brown et al. 2000).

Alternative Methods

With respect to the classification of microarray data, SVMs have been demonstrated to outperform a variety of other methods of classification

(Brown et al. 2000). However, similarly sophisticated methods such as ar-

17 tificial neural networks or Bayesian networks are just as flexible and robust as SVMs, and will behave comparably under similar conditions (Byvatov et al. 2003, Jayasurya et al. 2010). In our lab’s experience, the input data and feature selection are more important considerations than the method of classification.

Feature Selection

The selection of features is crucial to the accurate classification of data with any machine learning method. Features (or in the case of microarray data, probes) are numerous and irrelevant or redundant with respect to the learning process. Removing useless features will improve the performance of the classifier, and purposefully adding them to selected features will decrease performance (Witten and Frank 1999).

A simple method of feature selection referred to as the filter method involves selecting features before learning commences (Witten and Frank

1999). In the case of microarray data, for example, this might involve per- forming a statistical test to determine which probes best identify the two groups of data one wishes the classifier to learn. The researcher might use a threshold of a whole number of features, or a statistically-driven significance threshold. In the former case, a ’trial and error’ method might be used to determine the optimal number of features with which to train the classifier by evaluating training performance at different thresholds. This might be useful if a statistical test showed no significant differences between the two groups being classified.

18 Overfitting

Overfitting occurs when a learning algorthm is overtrained, and its model of the data becomes overly complex. This results in it performing badly when classifying new data despite having a low error rate when classifying training data. It is too well-fit to the training data to be able to accurately classify any new data presented to it, hence the term overfitting (Hastie et al. 2003). For example, when classifying microarray samples, if the classifier is using features which respond on noise unique to the training dataset, it will not perform well when classifying test data. Overfitting can be avoided by finding a happy medium between model complexity and performance of test classification (Hastie et al. 2003).

1.4.6 Using ROC Curves and AUC Values

Receiver operating characteristic (ROC) curves are useful for the evaluation of the performance of a single or multiple classification algorithms, and have been employed for this purpose for over two decades (reviewed in Fawcett

2006). More recently, ROC curves have been found useful in the evaulation of SVMs for the classification of microarray samples (Pochet et al. 2004,

Zhang et al. 2006, Mamitsuka 2006), as well as for other biological classi-

fication problems (Ward et al. 2004, Ben-Hur and Noble 2005, Gillis and

Pavlidis 2011).

Area under an ROC curve (AUC) represents the classifier’s expected performance, or the chance that the “classifier will rank a randomly chosen positive instance higher than a randomly chosen negative instance” (Fawcett

19 2006). Thus AUCs allow for comparison between classification results by collapsing the performance of the classifier to a single value.

Alternative Methods of Evaluation

Ideal performance of an algorithm is represented by having no false pos- itives (maximum precision), and having no false negatives (maximum re- call). There are other methods for graphically assessing the performance of an SVM such as precision-recall curves. ROC curves and precision-recall curves evaluate the tradeoff between false positives and false negatives in similar ways. These methods of graphical evaluation plot measures of the rate of precision and the rate of recall against each other (Witten and Frank

1999). The F-measure is an alternative method of measuring classification performance to AUC which also uses the rate of precision and the rate of recall to derive a one-dimensional measure of the performance of a classifier

(Yang and Liu 1999).

20 Chapter 2

Methods

2.1 Biological Methods

2.1.1 Introduction

All biological experimentation was performed by our collaborator Kristina

M. Miller, Ph.D., Molecular Genetics Section Head, and her team at the

Department of Fisheries and Oceans Pacific Biological Station in Nanaimo,

BC. All fish were caught and sampled under the supervision of the DFO’s

Environmental Watch program head, David Patterson.

2.1.2 Data Collection

Fish were sampled while migrating from natal freshwater rearing areas in the

Fraser river system to points in the ocean along their migration route from the southern Straight of Georgia to south east Alaska. After collection, fish were euthenized in buckets of water containing TMS/MS-222 immediately prior to sampling. Samples of gill, liver, muscle, and whole brain tissue were taken from coho and sockeye salmon smolts from 2007-2010.

21 2.1.3 Array Sample Preparation

Samples were stored in the same manner as in Miller et al. 2011. Briefly, samples were stored in RNAlater and refrigerated, or placed in liquid nitro- gen on collection, then transferred to -80 C in the lab.

Sample RNA was amplified using Amino Allyl MessageAmp II-96 kits from Ambion according to the manufacturer’s specifications. RNA was la- belled using Alexa 555 and Alexa 647 dyes in place of Cy3 and Cy5, respec- tively. Labelled RNA was quantified and hybridized according to Agilent protocols. The reference control for each sample consisted of a pooled sam- ple combining all samples its parent dataset. Hybridized arrays were washed and dried according to Agilent protocols.

2.1.4 Arrays cGRASP 44k Salmonid Oligo two color arrays were used. The arrays are manufactured by Agilent, and are based on Atlantic salmon (S. salar) and rainbow trout (O. mykiss) ESTs (cGRASP microarray website). The arrays have 43,689 probes, of which 24,779 are annotated. These correspond to

11,156 unique genes.

Slides were scanned using the Tecan LS Reloaded scanner (TecanTrading

AG, Switzerland). Array-Pro Analyzer software was used according to the manufacturer’s instructions. Images were then quantified using Imagene

(BioDiscovery, El Segundo, CA, www.biodiscovery.com)

22 2.1.5 qRT-PCR

Fluidigm Real-Time PCR TaqMan Assays were performed to collect infor- mation on a variety of potentially harmful pathogens in salmon. Pathogens tested for included parvovirus, gill chlamydia, and microsporidia. cDNA was synthesized from total RNA. Fluidigm Gene Expression Specific Target

Amplification (STA) was performed. Unincorporated primers were removed according to Fluidigm protocols. Assays were performed using 150uL 96.96

Dynamic Array IFCs using manufacturer-specified protocols.

2.2 Computational Methods

2.2.1 Array Data Preparation

Raw Imagene intensity values and array metadata were stored in BioArray

Software environment (BASE). BASE is a web database application used to store microarray data (Vallon-Christersson et al. 2009). Quality control and removal of low-quality samples before analysis was performed as in Miller et al. 2011.

It has been shown that intensity-based analyses of two-color arrays allow for direct comparison of all hybridized samples, and are more reproducible than traditional ratio-based analyses (‘t Hoen et al. 2004, Bossers et al.

2010). Indeed, another recent publication found that Agilent intensity data was more reproducible than Agilent ratio data (Patterson et al. 2006).

Because of this, we conducted our analyses using only the experimental channel of the two-color Agilent 44k cGRASP arrays.

23 Microarray samples of brain, gill, liver, and muscle tissue were used.

Roughly equal numbers of each tissue were used (Table 2.1) for a total of

1,086 samples.

Species Brain Gill Liver Muscle All Sockeye 39 178 51 51 319 Coho 236 83 229 219 767 Total 275 261 280 270 1086

Table 2.1: Tissue and species data sources. Fish were harvested from 2007- 2010 in the Fraser River, Straight of Georgia, and surrounding ocean waters. All fish are smolts (juveniles).

2.2.2 Identifying Housekeeping Genes

Our method is based on criteria for identifying housekeeping genes in several recent studies (Eisenberg and Levanon 2003, de Jonge et al. 2007, She et al. 2009, Cheng et al. 2011). Namely, finding genes which are expressed at higher than average levels across all tissues surveyed, filtering for genes expressed at detectable levels in the majority of samples in each tissue, and then ranking identified genes by a measure of variance.

Using experimental channel data which was quantile normalized in BASE, we sought to identify salmon housekeeping genes. First, probes that are ‘Al- ways Expressed’ (AE) were selected by ranking probes by their 80th quan- tile value of expression in each tissue. We arbitrarily chose to sample the

80th quantile value of expression for each probe in order to avoid selecting probes based on outlier values. Selecting, for instance, the 100th or even

95th quantile value of each probe’s expression would have left the selection and subsequent ranking open to the influece of expression levels in outlier

24 samples.

Probe ranks were summed across tissues to produce a list of probes ranked by some of their lowest expression values. We arbitrarily selected the top 2,000 ranked probes from this list as candidates, reasoning that these probes had above average 80th quantile expression values, and thus were more well-expressed than the average probe. This list was then filtered for probes for which expression values were present in at least 50% of the samples from each tissue. This resulted in a list of 1,990 probes correspond- ing to salmon housekeeping genes. These 1,990 probes were ranked by their coefficients of variation (standard deviation divided by the mean) to arrive at a ranked list of least variable probes corresponding to housekeeping genes in salmon.

2.2.3 Identifying Tissue-Specific Genes

Using raw Imagene experimental channel intensity values collected from

BASE and quantile normalized (Bolstad 2001) using R, we sought to identify tissue-specific (TS) genes in salmon.

Student’s t-tests were performed for each tissue (brain, gill, liver, mus- cle) against the remaining tissues. False discovery rate was controlled for using the Benjamini-Hochberg procedure (Benjamini and Hochberg, 1995).

Corrected p-values (q-values) were used to define significant differential ex- pression between tissues. Fold change (FC) was calculated in the same manner, with each tissue standing against the rest. TS genes were defined as those which showed a q ≤ 0.01 and a log2FC ≥ 3.

25 2.2.4 Comparison of TS Genes to Mouse Counterparts

Brain, liver, and muscle-specific genes in mice were identified with the same methods as above using the murine dataset of Su et al. 2004. Sixty one mouse tissues are represented in this experiment, with two samples for each tissue. Ten brain regions are represented individually, as well as tissue from the peripheral nervous system. We pooled samples from the brain into a single category. Liver and skeletal muscle samples were used to identify liver and muscle-specific genes. Su et al. used the GNF1M array platform, which has 31K probes corresponding to 18K unique genes. Once identified, genes specific to each tissue and represented on both the mouse and salmon arrays were then compared and overlap was noted.

2.2.5 qRT-PCR Data Prep qRT-PCR pathogen data was available for 152 sockeye salmon gill sam- ples which were also represented on the 44k microarray. Quality control procedures ensured no data from pathogens showing signal in negative con- trols were used, and samples which had more than one data point were ignored if the readings were not in agreement (i.e. one replicate showing a pathogen signal and the other not). This left 143 samples with accompany- ing pathogen data (Figure 2.1).

We used data from previously-identified pathogens present in a large fraction of our samples. These were a microsporidian (a fungal infection which most severly affects the gills), a gill chlamydia (a bacterial infection),

26 and a parvovirus2. It should be noted that although I refer to the parvovirus as a pathogen, its pathogenicity has not been formally established, only its presence in Pacific salmon. I will continue to refer to the two microbes and one virus as pathogens, however, for ease of reading. Pathogen information was binarized before use, with cycle threshold values above a cutoff (a CT value of 38) represented by ’0’, and values below that cutoff by ’1’.

Figure 2.1: Binarized qPCR data for three pathogens in gill samples. The data has been sorted in ascending order according to the number of positive data points present. Dark boxes indicate the presence of a pathogen, light boxes indicate no pathogen was detected. This was the only pathogen data used.

2.2.6 Functional Enrichment Analysis

GO term enrichment analysis was conducted using ErmineJ 3.0, a software package and web application for the analysis of gene sets (Lee et al. 2005,

Gillis et al. 2010). When calculating significantly enriched GO groups, false discovery rate was estimated using the Benjamini-Hochberg proce-

2Taxonomic information for the pathogens is as follows: microsporida: Paranucleospora theridion (Nylund et al. 2010), gill chlamydia: a new species identified by Duesund et al. in 2010, parvovirus: an unclassified Pacific salmon parvovirus of the family Parvoviridae, isolated by our collaborators at the DFO.

27 dure(Benjamini and Hochberg, 1995). Documentation for ErmineJ can be found online at http://www.chibi.ubc.ca/ermineJ/

2.2.7 SVM Classification

Microarray samples were classified using data from parvovirus, microsporidia, and gill chlamydia pathogens using Gist 2.3 (Pavlidis et al. 2004), a Sup- port Vector Machine-learning algorithm implementation. Documentation for Gist can be found online: http://www.chibi.ubc.ca/gist/

Hold-one-out cross-validation was employed, and features were selected using Student’s t-test, ranked by p-value, and selected with a hard threshold.

We classified data using both a linear and a radial basis kernel. Microarray samples were split randomly into a training and a test set of equal size.

ROC curves were used to evaluate SVM classification results, and were plotted and quantified using the ROCR package in R (Sing et al. 2005).

I used the ratio of support vectors to total vectors as a diagnostic for how fit the SVM was to the data. Support vectors are used to draw a boundary between two classes of data plotted in high-dimensional space; in this case, between fish which tested positive for a pathogen versus those that did not. The measure of the number or fraction of support vectors serves and indication of how likely a new sample is to be a support vector, and thus to influence how the boundary is drawn between the two classes.

2.2.8 Using Control Probes to Normalize Data

Top-ranked probes with respect to coefficient of variation across tissues were selected based on their correlations with each other in gill samples not used

28 in the classification experiment. A total of ten probes were selected as nor- malizing factors or control probes (Figure 3.9). Performance was evaluated on four permutations of the gill data: raw imagene expression values, quan- tile normalized expression values, and both of these divided by mean control probe expression per sample.

29 Chapter 3

Results

3.1 Housekeeping Gene Identification

I first defined probes as always expressed (AE). Using 1,086 samples from four tissues, I sought probes which fit the criteria defined in the methdods section. From 1,990 identified AE probes, which corresponded to 620 genes, a list of preferred ‘control probes’ was arrived at by ranking these 1,990 probes by their coefficient of variation across tissues (Appendix A).

3.2 Comparison of Housekeeping Genes to

Human Counterparts

This list of 620 genes was compared to a list of known human housekeeping genes. The list was derived from two well-correlated large-scale multi-tissue microarary studies (Eisenberg and Levanon 2003, Chang et al. 2011); all of the genes in the former list were represented in the latter. A total of

2,008 unique genes existed between the two lists, and 1,512 of them were represented on the salmon array. An overlap of 324 genes was observed between the represented human and salmon lists (Table 3.1).

30 Table 3.1 Human Salmon Observed Expected Genes 1512 620 324 27.9

Table 3.1: Expected and observed overlap between the human housekeeping and salmon housekeeping genes.

3.3 Tissue Specific/Selective Gene Identification

Using 1,086 samples from four tissues, we identified 1,192, 625, 758, and 663 brain, gill, liver, and muscle-specific probes, respectively (Figure 3.2). These corresponded to 349, 193, 255, and 180 unique annotated genes. Appendix

B shows identified TS probes along with their annotations.

31 Figure 3.1: Heatmap showing tissue specific/selective probes found in each of the four tissues assayed. Expression level increases from orange to white. The 1,086 samples are organized in tissue groups, while probes are sorted by p-value. p-values calculated using t-tests for differential expression between tissues. 3,238 probes are represented, corresponding to 977 genes. Numeric labels show the number of unique genes associated with each group of TS probes. 32 3.4 Comparison of TS Genes to Murine

Counterparts

Comparing tissue-specific genes identified using the same method in two dif- ferent species, we found significant overlap in each of the tissues we examined

(brain, liver, and muscle). Results of the comparison are detailed in Table

3.2 and Figure 3.2. The tissue showing the least significant overlap between species was brain, while the most significant overlap belonged to liver. Re- sults indicate that many of the probes we have identified as tissue-specific in salmon share that function in mouse.

33 Figure 3.2: The degree of overlap between murine and salmonid TS genes in brain, liver, and muscle.

Tissue Mouse Salmon Observed Expected p-value Brain 231 291 62 27.9 7.96e-11 Liver 239 216 89 21.5 7.55e-39 Muscle 151 142 53 8.93 9.71e-31

Table 3.2: Expected vs observed overlap between mouse and salmon tissue- specific genes. p-values calculated using the hypergeometric test.

34 3.5 Functional Enrichment of TS Genes

I used ErmineJ to evaluate the functional enrichment of identified tissue- specific and selective genes. GO groups were considered significantly en- riched with a corrected p-value of ≤ 0.01. In salmon brain, seven of the ten enriched GO groups are associated with ubiquitin, ubiquitination, or processes involving ubiquitin. Gill-specific genes were enriched for a single

GO term; regulation of wound healing. Liver-specific genes were enriched for a total of eighteen GO categories which were associated with a variety of metabolic, catabolic, and biosynthetic processes. Eleven GO categories were enriched in muscle-specific genes; nine of them were associated with metabolica or catabolic processes, and the remaining two were NADPH re- generation and translational initiation. Details for significantly enriched GO groups, including p-values and numbers of associated genes and probes are available in appendix C.

3.6 SVM Classification and Prediction of

Pathogen States

Starting with the pathogen qPCR data (Figure 2.1) from microsporidia, gill chlamydia, and parvovirus, I set out to classify fish as either infected or un- infected using microarray probes as features. Using microsporidia pathogen labels gave the best performance in an initial experiment which did not ac- count for multiple infections in the fish. A subsequent experiment in which only fish that were either completely pathogen free, or only infected with a

35 single pathogen were classified showed that parvovirus pathogen labels could also be used to reliably classify fish, but not microsporidia or gill chlamydia labels.

For the initial experiment, using the microsporidia pathogen labels, I conducted an experimental test run to determine whether the microar- ray data were accurately classifiable with Gist. Using leave-one-out cross- validation, I classified every sample (n=141) at feature thresholds of 2, 3,

5, 10, 15, 25, and 50. As shown in Table 3.3, the majority of samples were classified correctly, with improvements in performance up to 25 features.

Features 2 3 5 10 15 25 50 Training 0.84 0.85 0.85 0.88 0.90 0.91 0.88 AUC

Table 3.3: Microsporidia training AUC values using the full dataset of 141 gill samples.

Next, I sampled the 141 samples at random to creat a training and test dataset, making sure of roughly equal numbers of microsporidia-positive fish in each set. I conducted training and test classification experiments with

Gist using the same numbers of features as above. Training AUCs showed similar performance at 5 features and above, while test AUCs improved at each step up to 15 features (Table 3.4). Using either 10 or 15 features produced the most favorable results, with 10 features yielding lower AUCs in both test and training data, but fewer support vectors compared to 15 features. ROC plots for training and test data are show in Figure 3.3.

36 Features 2 3 5 10 15 25 50 SVs/TVs 0.74 0.86 0.86 0.81 0.86 1.0 1.0 Training 0.83 0.85 0.92 0.91 0.94 0.92 0.88 AUCs Test 0.48 0.58 0.71 0.78 0.85 0.90 0.90 AUCs

Table 3.4: Training and test AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for microsporidia data.

37 Figure 3.3: Training and test ROC curves from classification of fish using microsporidia labels. 38 Gill chlamydia and parvovirus labels were also tested in this manner.

I observed lower AUC values and higher percentages of support vectors when classifying fish with these two pathogens (Figures 3.4, 3.5). From the resultant training and test ROCs, I concluded that it was not possible to accurately classify fish as infected/uninfected using parvovirus labels in this way.

Despite the fact that there are approximately the same number of data points for gill chlamydia (n=143) as for microsporidia, and better perfor- mance than for parvovirus, the high percentages of support vectors during the test experiment indicated that it was not possible to accurately classify

fish using gill chlamydia pathogen labels (Table 3.5).

39 Figure 3.4: Training ROC curves from gill chlamydia (top) at 15 features and parvovirus (bottom) at 50 features. 40 Figure 3.5: Test ROC curves from gill chlamydia (top) at 15 features and parvovirus (bottom) at 50 features. 41 Features 2 3 5 10 15 25 50 SVs/TVs 0.743 0.857 0.857 0.814 0.857 1.000 1.000 Training 0.834 0.853 0.924 0.914 0.939 0.922 0.884 AUCs Test 0.476 0.577 0.709 0.778 0.852 0.903 0.898 AUCs

Table 3.5: Training and test AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for gill chlamydia data.

Using a radial-basis kernel did not improve the performance of the algo- rithm and led to overfitting (Table 3.6).

Features 5 10 15 25 50 Linear Kernel AUC 0.69 0.84 0.84 0.86 0.84 Linear Kernel SVs/TVs 0.99 0.88 0.91 0.93 0.94 Radial Kernel AUC 0.80 0.78 0.76 0.78 0.77 Radial Kernel SVs/TVs 1.0 1.0 1.0 1.0 1.0

Table 3.6: Classification performance using gill chlamydia pathogen qPCR data with linear and radial basis kernel functions.

We originally suspected that pathogen-associated signals might be shared between pathogens or pathogen types. I checked the top 50 classification features for each pathogen for overlap. No classification features were shared between any of the pathogens during the initial experiment.

In order to assess pathogen-specific transcriptional changes indepen- dently of our classification software’s built-in statistical methods, I con- ducted two sample t-tests to identify differentially expressed genes between infected and uninfected fish for all three pathogens. Fish which showed no infection by any pathogen were compared to fish infected only with mi-

42 crosporidia, gill chlamydia, and parvovirus, and fish infected with all three pathogens. False discovery rate was controlled for using the Benjamini-

Hochberg procedure (Benjamini and Hochberg, 1995). Corrected p-values

(q-values) were used to define significant differential expression between dis- ease states. Probes which showed a q ≤ 0.01 were judged significantly dif- ferentially expressed. Details of this analysis are shown in Table 3.7.

Pathogen Microsporidia Gill Chlamy- Parvovirus All dia Probes 24 2,234 8,625 3,958

Table 3.7: Numbers of significantly differentially expressed probes and genes for fish infected with each pathogen alone and fish infected with all pathogens compared to pathogen-free fish.

Eight genes were shared between the microsporidia and gill chlamydia- specific signals, and the overlap is signficant (p = 1.53e-06). Five genes were shared between the microsporidia and parvovirus-specific signals (overlap not significant, p ≥ 0.05), and 432 genes were shared between the gill chlamy- dia and parvovirus-specific signals (not significant, p ≥ 0.05). The degree of overlap was greater than expected by chance between the multiple-pathogen signal and both microsporidia and parvovirus-specific signals was significant

(7 and 833 probes, respectively, p ≤ 0.05), but not the gill chlamydia-specific signal (71 probes). The existence of a multiple-pathogen signal suggests, as other studies have (Jenner and Young 2005), that there is a common response to all infection types in addition to any infection type-specific re- sponse that occurs.

This result stands at odds with the GIST’s inability to accurately classify

43 fish infected with gill chlamydia (Table 3.5) and a decrease in classifier per- formance when classifying fish infected with gill chlamydia alone (Table 3.9).

However, I compared the top 50 classification features for gill chlamydia-only

fish with the 2,234 probes identified as significantly differentially expressed, and found that the classification features were all also present in the list of differentially expressed probes. This indicates that while these probes were differentially expressed between fish infected with gill chlamydia and those that remained uninfected, they were not good classification features, indicated by their inability to accurately distinguish infected and uninfected

fish.

3.6.1 Functional Enrichment Analysis of Pathogen-specific Probes

I used ErmineJ to evaluate the functional enrichment of the significantly differentially expressed gene sets between uninfected fish and fish infected with the three pathogens. GO groups were considered significantly enriched with a corrected p-value of ≤ 0.01. Genes associated with differentially ex- pressed probes identified using fish that were infected with either parvovirus or microsporidia showed no significant enrichment for any GO terms. Differ- entially expressed genes identified in the presence of gill chlamydia showed significant enrichment for 13 GO categories, nine of which are related to ubiquitin, ubiquitin ligation, or ubiquitination. Details for significantly en- riched GO groups, including p-values and numbers of associated genes and probes are available in appendix D.

44 3.6.2 Differences Between Pathogen Datasets

I surveyed CT values from each pathogen to determine whether the levels of infection were similar for each pathogen. Although the average CT value of fish testing positive for each pathogen was quite similar (Figure 3.6), standard deviation was greater for microsporidia (at 3.1) and parvovirus (at

3.2, with gill chlamydia at 1.8), and histograms of the data indicate that the proportion of fish with lower CT values (indicating more pathogen DNA in the starting material) is greater in microsporidia and parvovirus than in gill chlamydia (Figure 3.7).

45 Figure 3.6: CT values for fish testing positive for microsporidia, gill chlamy- dia, and parvovirus. Red points represent individual CT values. Low CT values indicate the presence of more pathogen DNA in the qPCR sample. A CT value of 38 indicates that there was no pathogen DNA present in the sample.

46 Figure 3.7: Histograms of CT values for microsporidia (top left), gill chlamy- dia (top right), and parvovirus (bottom). 47 Reasoning that the more pathogen DNA present in a host sample, the more severe the infection, I surmise that it may be possible to use CT values to infer the severity of infection in each fish. Further, I suspected that fish with the least severe infections would be more difficult to classify, since their transcriptional profiles would not deviate as significantly from normal as more severely infected fish. Comparing fish which were classified correctly as being infected by microsporidia (true positives) with fish that were incorrectly classified as not being infected with microsporidia (false negatives), I found that false negative fish had, on average, higher CT values that true positive fish (Figure 3.8). A two-sided Wilcoxon rank sum test shows this is not a significant difference (alpha=0.05, p-value=0.072).

48 Figure 3.8: CT values for fish testing positive for microsporidia, gill chlamy- dia, and parvovirus. Red points represent individual CT values. Low CT values indicate the presence of more pathogen DNA in the qPCR sample. A CT value of 38 indicates that there was no pathogen DNA present in the sample. True positive fish (n=58, mean CT=28.3) are those which are iden- tified correctly as infected by the classifier, and false negative fish (n=12, mean CT=29.7) are those which are infected but are misclassified as unin- fected. Remaining fish are either false positives or true negatives and have scores of 38 (not shown).

49 3.6.3 Classification of Fish Infected with Parvovirus Alone, or No Pathogens

The results of the independently-conducted t-tests on fish only infected with

a single pathogen indicated that it may still be possible to classify fish using

parvovirus qPCR data. I conducted an experiment with Gist classifying fish

as infected or uninfected with parvovirus, but only attempting to classify fish

that were infected with parvovirus alone (n=8), and fish that were not in-

fected with parvovirus, microsporidia, or gill chlamydia (n=41). Parameters

of Gist were adjusted as in previous experiments. The resulting AUCs and

proportion of support vectors show a marked improvement in performance

of the classifier (Table 3.8).

Features 2 3 5 10 15 25 50 Parvovirus Only AUCs 0.60 0.95 0.94 0.93 0.93 0.93 0.92 Parvovirus SVs/TVs 0.97 0.43 0.43 0.37 0.41 0.47 0.61

Table 3.8: Training AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for parvovirus-only data.

Next I compared the results of the t-test and final classification exper-

iments for parvovirus. Comparing top ranked classification features and

significantly differentially expressed probes revealed that both methods had

identified the same signal. Overlap between signals is incomplete, however,

with only 11 of the top 25 classification features overlapping with the top

100 differentially expressed probes, and only 23 of the 25 best classifica-

tion features being present in the entire set of 8,625 differentially expressed

probes between parvovirus infected and uninfected fish.

50 3.6.4 Fish Infected with Multiple Pathogens

Next I tested the hypothesis that fish which were infected with more than one pathogen were more likely to be misclassified. Fish (n=63) which were infected with two or more pathogens were assessed in terms of their classifi- cation using microsporidia data. 54 of the 63 fish were classified correctly as being with or without microsporidia infection. 50 of these fish were positive

(true positives) for microsporidia, and four were negative (true negatives).

The remaining nine fish were incorrectly classified, with eight of them being infected (false negatives), and the last fish uninfected (false positive). This compared to fish which were only infected with microsporidia (n=12), where eight fish were true positives, and the remaining four were false negatives.

Since fish which were infected by more than one pathogen were classified at least as well as fish only infected with the pathogen of interest in the case of microsporidia, this indicated that it was possible that a general infection signal was driving the classification performance for the original classifica- tion experiment. To test this, I classified fish infected with microsporidia alone, or no pathogens in the same manner that parvovirus-only fish were classified. Classification results did not improve for microsporidia-only fish compared to the previous classification experiment done agnostic of infec- tion by other pathogens. Results largely indicate that the model was overfit.

The results of the experiment are shown in Table 3.9.

The performance drop of the microsporidia-only experiment in compar- ison to the original microsporidia experiment indicated that the fish which were infected with multiple pathogens were driving the classification in

51 the original experiment. To test this hypothesis I performed the classifi-

cation experiment again, first using fish which were infected with more than

one pathogen (n=63), then using fish which were infected with all three

pathogens (n=7). Classification performance of fish infected with two or

more pathogens, and fish infected with all three pathogens was comparable

to the original microsporidia experiment. Results of these experiments are

included in Table 3.9.

Features 2 3 5 10 15 25 50 Microsporidia Only AUCs 0.92 0.91 0.87 0.85 0.85 0.85 0.87 Microsporidia SVs/TVs 1.0 1.0 0.98 1.0 0.96 0.98 0.62 Multiple Pathogens AUCs 0.64 0.68 0.76 0.90 0.89 0.94 0.93 Multiple Pathogens 0.87 0.85 0.88 0.90 0.84 0.79 0.83 SVs/TVs All Pathogens AUCs 0.88 0.87 0.78 0.92 0.95 0.96 0.97 All Pathogens SVs/TVs 0.60 0.67 0.63 0.54 0.48 0.50 0.52 Gill Chlamydia Only 0.42 0.34 0.60 0.68 0.75 0.83 0.74 AUCs Gill Chlamydia SVs/TVs 1.0 1.0 0.89 0.90 0.89 0.89 0.98

Table 3.9: Training AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for classification of microsporidia-only fish, fish infected with more than one pathogen, fish infected with all three pathogens, and gill chlamydia-only fish.

3.7 Using Control Probes to Normalize Data

Microsporidia pathogen data was used to evaluate the utility of using the

control probes as a normalizing factor. The four permutations of gill data

served as the four training sets, using Gist’s linear kernel and feature selec-

tion thresholds of 2, 3, 5, 10, 15, 25, and 50. The evaluation of classification

52 performance for each dataset is laid out in Table 3.10. Results indicate that the effect of normalization with a set of control genes has little influence on classification performance. A heatmap of selected controls compared to 25 top classification features for microsporidia is shown in Figure 3.9.

Figure 3.9: Heatmap showing the expression of the nine control probes alongside the expression from selected experimental probes.

53 Features 2 3 5 10 15 25 50 NN AUCs 0.85 0.87 0.82 0.88 0.88 0.85 0.89 NN SVs/TVs 0.79 0.80 0.94 0.86 1.00 0.99 0.94 NN+CC AUCs 0.85 0.87 0.83 0.88 0.88 0.85 0.89 NN+CC 0.79 0.80 0.94 0.86 1.00 0.99 0.94 SVs/TVs QN AUCs 0.71 0.92 0.88 0.90 0.85 0.83 0.89 QN SVs/TVs 0.90 0.76 0.75 0.83 0.99 1.00 0.76 QN+CC AUCs 0.71 0.92 0.88 0.90 0.85 0.82 0.89 QN+CC 0.90 0.77 0.75 0.83 0.99 1.00 0.76 SVs/TVs

Table 3.10: Full dataset microsporidia training AUCs from non-normalized (NN) and quantile-normalized (QN) data that has been control corrected (CC) using the ten control probes selected. Alongside are shown the ratios of support vectors to total vectors (SVs/TVs) for each of the four sets of results.

54 Chapter 4

Discussion

The results outlined above represent an important contribution to the grow- ing body of knowledge of salmon genomics. Identified TS and housekeeping genes are certain to be useful to other researchers wishing to study Pacific salmon and closely related organisms, and my comparisons to mouse and hu- man orthologs will provide valuable information to those who wish to study the nature of the relationship between salmon and other tetrapods, and demonstrate that expression patterns in salmonids are distinct from previ- ously studied organisms. In the following sections I discuss the implications of my results, highlighting caveats and interpretations where appropriate.

4.1 What is an appropriate reference gene?

As laboratory experimentation has shifted its focus from experiments of a qualitative nature (i.e. PCR) to those of a more quantitative nature (qPCR), the properties that define appropriate control genes have changed. In the past, housekeeping genes like beta-actin and GAPDH were used as quali- tative controls because their expression is ubiquitous. We now understand that even though these genes and others like them are always expressed, they are not always sufficiently invariant to be used as controls for precise

55 quantitative experiments such as qPCR (Tricarico et al. 2002, Rubie et al.

2005, McCurley and Callard 2008). The ideal control gene for a qPCR ex- periment would be one which is not influenced by any external experimental conditions, and is invariant in its expression across cell types in addition to being ubiquitously expressed. Some have questioned whether there are any genes which fit this definition (Tricario et al. 2002, de Jonge et al. 2007).

In recent years, however, thousands of candidate reference genes have been identified using large-scale microarray analyses of many tissue types and developmental stages (Shulzhenko et al. 2005, Lee et al. 2006, de Jonge et al. 2007, Popovici et al. 2009, She et al. 2009, Narsai et al. 2010,

Fedrigo et al. 2010, Cheng et al. 2011, Chang et al. 2011). These genes show little variation across the conditions under which they were identified, and thus would be appropriate reference genes for experiments conducted under those same conditions. However, care should still be taken choosing reference genes when conducting new experiments. For every experiment, there exits a unique set of conditions which influence variability of gene expression.

The invariant genes which I have identified will serve as useful controls under similar conditions and in the same tissues that I have analysed. For example, I would advise caution to any researcher who wished to use these genes as controls in a qPCR study of farmed salmon fry due to the lack of any fry or farmed salmon samples in the datasets used to discover them. In addition, the methods I used to identify reference genes will be useful for any researchers wishing to identify their own set of appropriate references, should their experimental conditions be significantly different from mine.

56 4.2 Comparison of Salmon to Mouse and Human

Genes

By validating our newly discovered salmon housekeeping and TS genes on their human and mouse counterparts, I was able to demonstrate two things.

Firstly, that the 44k cGRASP array’s probe annotations were likely to be accurate in many cases, as I observed homologous genes with similar ex- pression patterns in both human and salmon. However, this by no means guarantees the accuracy of all of the annotations. This was an important

finding due to the fact that the array annotations were populated almost entirely from homology, which is not a clear indication of function.

Secondly, I showed that there was significant conservation of TS ex- pression profiles from salmon to both human and mouse. Conservation of expression is not a new area of study, and assessments of human and mouse expression conservation are numerous (Liao and Zhang 2006a, Liao and

Zhang 2006b, Yanai et al. 2006, Xing et al. 2007, Xie et al. 2010). To my knowledge, there are no existing large-scale studies comparing tissue-specific or housekeeping and reference genes in multiple tissues of teleost fish and mammals.

4.2.1 Biological Implications of Overlap

The significant degree of overlap found in both housekeeping genes and

TS genes indicates that the expression patterns of homologs tend to be conserved between species. Logically, homologs which are conserved in their expression patterns may also be conserved in their functions, but whether

57 the conservation of expression patterns is a reflection of conservation of gene function appears to be a point of contention (Liao and Zhang 2006b, Xing et al. 2007).

Differences in the overlap between mouse and salmon TS genes may be due to technical as well as biological differences in the datsets used to generate them. First, although the mouse dataset samples more tissues, it has a few samples per tissue, and thus the reliability of each ’call’ made on a TS gene is less than in the salmon dataset, which has hundreds of samples per tissue.

Second, salmon have experienced at least two genome duplications since their most recent common ancestor with humans and mice (Wolfe 2001). A daughter copy of a gene may adopt a new function after duplication, due to a loss of selective pressure. Thus, when separated by a genome duplication, any two homologous genes are not guaranteed to share functions. In fact it would seem that salmon-human or salmon-mouse homologs are even less likely to share their functions, as they are separated by multiple genome duplications.

Noise in each dataset is also a concern, particularly in the mouse dataset

(due to its low number of samples), and in the salmon dataset due to the fact that the samples are from the wild. Both experiments, however, were run on oligonucleotide arrays. This array technology minimizes technical noise with better hybridization efficiency and more consistent RNA levels in each spot compared to cDNA arrays (Barrett and Kawasaki 2003), so any differences observed are more likely to be biological in nature.

I found that brain genes show the lowest percentage of overlap of the

58 three tissues surveyed (Table 3.2), while liver shows the highest. Fish have a smaller fraction of cortical tissue to total brain volume compared to mice.

I hypothesize that this may be the reason brain was shown to be the least similar tissue.

4.2.2 Functional Enrichment of TS Genes

The results of the functional enrichment analysis of tissue specific genes demonstrates first that the lists of tissue-specific genes in muscle and liver are enriched for processes and functions known to occur in said tissues, and second that despite the low level of annotations on the array, analysis of the annotations can potentially shed light on and provide insight into the biological processes occurring during other experimental conditions in addition to simple tissue-specifc differences.

4.3 SVM Classification

I chose to use an SVM to classify our samples because we had the opportu- nity to conduct a supervised learning experiment using the pathogen qPCR data. SVMs are not the only option for conducting such an experiment, but they have been shown to be effective (Brown et al. 2000, Furey et al. 2000), and to perform as well as other similary sophisticated methods (Byvatov et al. 2003, Jayasura et al. 2010). Using GIST, I was able to accurately and re- liably classify fish using parvovirus, but not gill chlamydia or microsporidia labels.

The pathogen-specific signal in microsporidia was unique when compared

59 with the signals associated with other pathogens. Having access to usable data from only one pathogen of each type (fungal, bacterial, viral) prevented us from comparing pathogens of the same type infecting the same tissue.

Perhaps another bacterial infection of the gill compared to gill chlamydia would have yielded an overlap of pathogen-type-specific probes. Indeed, immune responses to different pathogen types are known to be distinct (re- viewed in Medzhitov 2007).

I had the opportunity to explore several potentially confounding fac- tors in this analysis. The high co-incidence of the pathogens, especially the co-incidence of parvovirus and microsporidia, appears to have confounded the initial classification experiments. Microsporidia-infected fish initially appeared easy to classify, but considering the subsequent analyses, includ- ing the classification of fish infected with multiple pathogens, it appears that the classification performance was enhanced by fish which were in- fected with other pathogens. Classification performance also worsened for gill chlamydia-infected fish when fish infected with other pathogens were re- moved from the data. The only improvement in classification performance after the removal of fish infected with other pathogens from the data came from parvovirus-infected fish. Taking all the analyses into account, it ap- pears that the strongest signals in the data belong to parvovirus, and what might be called a general-infection-response.

We chose to use binarized data because using continuous data did not im- prove classification performance (data not shown). The selection of features, however, was almost certainly affected by this. Fish in which a pathogen was detected, but were not adversely affected by it represent a confounding

60 factor as well, as they would not be responding to the pathogen(s) in the same way as fish which were affected more severely, and thus would exhibit different patterns of expression.

The most effective features for classifying fish using microsporidia pathogen qPCR data had few annotations, with only two of the top 15 probes having any annotation at all. Thus, any biological conclusions drawn from these re- sults would not be particularly useful until more salmon genes are identified and annotated.

4.4 Functional Enrichment of Pathogen-Specific

Signals, and Infection-Type-Specific

Responses

I was able to identify pathogen-specific gene expression changes independent of the classification experiment, with good agreement between these and the classification features. However, interpretation of these pathogen-specific expression profiles is limited in scope due to the nature of our annotations.

Functional enrichment analyses of our pathogen-specific signals did not reveal anything about the biological processes being driven by the infections.

I hypothesize that this is largely because of the lack of annotations on the

44k cGRASP microarray, as well as the provenance of the annotations that do exist.

With regard to response to viral infection, it is possible that the parvovirus- infected fish in this study might have shown responses in some or all of the

61 117 genes identified by Krasnov et al. during initial infection. However, in- formation on when fish were infected in relation to when they were sampled is not available for incorporation into the analysis.

4.5 Using Control Genes to Normalize Data

Our use of control probes in this classification experiment was an attempt to mimic what would happen in management applications, i.e. an individual

fish is sampled and tested, and a judgement is made about its health, inde- pendent of other tests. Genes which do not vary greatly in their expression across species, life stages, and tissues would be ideal controls in this type of experiment.

Control genes are crucial to qPCR experiments for a number of reasons.

An appropriately selected control will allow for the normalization of sample specific differences arising from quality and amount of starting material, and from variation in experimental preparation (Radonic et al. 2004).

In seeking to model a qPCR experiment in silico, it was important that we selected appropriate controls. The salmon housekeeing genes we discov- ered using our microarray data presented us with a pool of eligible controls to choose from. I chose probes which correlated with each other across samples because logically, they appeared to respond to any sample-specific differences in intensity in kind. Using these probes as controls did not im- prove the performance of the classifier, even with non-normalized data.

The evident failure of this normalization procedure to improve the clas- sification performance need not be taken as an indication that the selected

62 housekeeping genes were inappropriate controls, though. Controls in qPCR experiments are used to eliminate technical sources of variation between samples, such as differing levels of starting RNA and reagents, and differ- ent amplification efficiencies (reviewed in Tricario et al. 2002). We applied our controls in a similar way to oligonucleotide microarray data, which is largely devoid of this type of technical noise (Barrett and Kawasaki 2003).

In effect, we were correcting for noise which was not present even in the non-normalized experimental channels of our arrays.

4.6 Conclusion

My thesis objectives were two-fold. The first was to increase our knowledge of basic salmon genomics. The discovery of housekeeping and TS genes and their evaluation against human and mouse orthologs will provide new information and insight to those who wish to study pacific salmon in the future. Housekeeping genes in particular may prove useful as controls for quantitative experiments conducted on salmon such as qPCR.

The second objective was to provide information that could inform fish management through the discovery of health-related biomarkers. We found a handful of markers which were predictive of a infection by a parvovirus, and other markers which are which are potentially representative of a generalized infection response. The predictive power of these markers indicates that they could be used in conjunction with other biomarkers as a measure of overall population health in pre-spawning salmon.

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76 Appendix A

Reference Gene Candidates

Probe Gene Symbol Gene.Description

C145R129 BTF3 basic transcription factor 3

C200R057

C021R090

C164R042 RPL28 ribosomal protein l28

C093R112 RPS9 ribosomal protein s9

C070R042 RPL27A 60s ribosomal protein l27a

C143R009 EEF1B2 eukaryotic translation elonga-

tion factor 1 beta 2

C129R133 RPL10A ribosomal protein l10a

C153R098 RPL32 ribosomal protein l32

C114R142 FLI1 friend leukemia virus integra-

tion 1

C042R031 RPS27 ribosomal protein s27

C079R090 CIAO1 wd repeat domain 39

C162R088 RPL35 ribosomal protein l35

C041R056

77 Probe Gene Symbol Gene.Description

C077R093 PURB purine-rich element binding

protein b

C025R044 BTF3 basic transcription factor 3

C054R164

C195R165

C058R062 MRPS16 mitochondrial ribosomal pro-

tein s16

C030R115

C022R040 MAP1LC3C microtubule-associated pro-

tein 1 light chain 3 gamma

C025R049 DNAJC8 dnaj (hsp40) homolog, sub-

family c, member 8

C071R079 MRPS21 mitochondrial ribosomal pro-

tein s21

C129R089 IMPA1 inositol monophosphatase

C090R018

C022R081

C033R026

C116R156 ARF4 adp-ribosylation factor 4

C141R026 Arpc5l|ARPC5L2 actin related protein 2/3

complex, subunit 5-like|actin-

related protein 2/3 complex

subunit 5-like protein

78 Probe Gene Symbol Gene.Description

C054R129 NDUFC1 nadh dehydrogenase

(ubiquinone) 1, subcom-

plex unknown, 1 (6kd, kfyi)

C148R021 NEDD8 ubiquitin-like protein nedd8

C159R162 NDUFB3 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 3, 12kda

C050R066 NAA38 u6 snrna-associated sm-like

protein lsm8

C060R132

C240R084 RPS15A ribosomal protein s15a

C086R165 PDCL3 phosducin-like 3

C030R073 NDUFA9 nadh dehydrogenase

(ubiquinone) 1 alpha subcom-

plex, 9

C082R118 COX6B1 riken cdna 2010000g05 gene

C229R093 NDUFS4 nadh dehydrogenase

(ubiquinone) fe-s protein

4

C095R159 AK2 adenylate kinase 2

C084R048 MOG1 nuclear import protein mog1

79 Probe Gene Symbol Gene.Description

C211R103 TOMM7 translocase of outer mitochon-

drial membrane 7 homolog

(yeast)

C123R127 LOC782270|ATP5E atp synthase subunit epsilon,

mitochondrial|atp synthase,

h+ transporting, mitochon-

drial f1 complex, epsilon

subunit

C227R040

C158R076 RPS27 ribosomal protein s27

C165R096

C132R044 RHOA ras homolog gene family,

member a

C036R132

C202R042 MYL12A myosin regulatory light chain

2, smooth muscle isoform

C100R039 CAPZA2 capping protein (actin fila-

ment) muscle z-line, alpha 2

C202R072 NDUFA2 nadh dehydrogenase

(ubiquinone) 1 alpha subcom-

plex, 2, 8kda

C237R156

C132R037 CTP cut up

80 Probe Gene Symbol Gene.Description

C142R048 RPS9 ribosomal protein s9

C164R051 CTP cut up

C134R045

C021R098 DDRGK1 uncharacterized protein

c20orf116 homolog precursor

C008R042

C098R086 RPL8 ribosomal protein l8

C160R137 DNAJC8 dnaj (hsp40) homolog, sub-

family c, member 8

C159R041

C197R023

C083R102 CTP cut up

C111R076

C188R102

C045R047 RHOA ras homolog gene family,

member a

C164R013

C173R039 BTF3 basic transcription factor 3

C160R066 LAS1L las1-like (s. cerevisiae)

C092R004

C175R086 EIF1B eukaryotic translation initia-

tion factor 1b

C107R092 RPL35 ribosomal protein l35

81 Probe Gene Symbol Gene.Description

C003R028 OCIAD1 zgc:56639

C146R157 NDUFA10 nadh dehydrogenase

(ubiquinone) 1 alpha subcom-

plex, 10, 42kda

C150R036 UBE2I ubiquitin-conjugating enzyme

e2i

C027R129

C046R159 RPS27 ribosomal protein s27

C116R136 BTF3 basic transcription factor 3

C117R108 SEPT5 septin-5

C143R167

C107R074 C11ORF73 uncharacterized protein

c11orf73 homolog

C205R168 NDUFA2 nadh dehydrogenase

(ubiquinone) 1 alpha subcom-

plex, 2, 8kda

C151R166

C240R095

C134R068

C090R062

C080R092 NDUFS7 nadh dehydrogenase

(ubiquinone) fe-s protein

7, 20kda

82 Probe Gene Symbol Gene.Description

C012R006 MRPL28 39s ribosomal protein l28, mi-

tochondrial precursor

C201R142 PELO pelota homolog (drosophila)

C011R048 NDUFA8 nadh dehydrogenase

(ubiquinone) 1 alpha subcom-

plex, 8

C130R151 NEDD8 ubiquitin-like protein nedd8

C198R109

C185R153 NDUFS7 nadh dehydrogenase

(ubiquinone) fe-s protein

7, 20kda

C237R108 RHOA ras homolog gene family,

member a

C108R026

C214R040 RPL36A ribosomal protein l36a

C099R147 NDUFC1 nadh dehydrogenase

(ubiquinone) 1, subcom-

plex unknown, 1 (6kd, kfyi)

C092R040 COX16 cox16-like protein c14orf112

homolog, mitochondrial pre-

cursor

C025R124 ACVR1B activin a receptor, type ib

C205R047 MRPL23 zgc:86630

83 Probe Gene Symbol Gene.Description

C162R138 UQCRH ubiquinol-cytochrome c re-

ductase hinge protein

C178R107 EIF3E eukaryotic translation initia-

tion factor 3 subunit e

C057R077 ATP5H atp synthase, h+ transport-

ing, mitochondrial f0 com-

plex, subunit d

C123R094 EIF1AX eukaryotic translation initia-

tion factor 1a, x-linked

C037R028 DBI diazepam binding inhibitor

(gaba receptor modulator,

acyl-coenzyme a binding

protein)

C023R084 PSMA1 proteasome (prosome,

macropain) subunit, alpha

type, 1

C204R125 DNAJC8 dnaj (hsp40) homolog, sub-

family c, member 8

C143R033 BTF3 basic transcription factor 3

C209R036 PCDH17 protocadherin-17 precursor

C225R111 COX6B1 riken cdna 2010000g05 gene

C115R096 CAPZA1 capping protein (actin fila-

ment) muscle z-line, alpha 1

84 Probe Gene Symbol Gene.Description

C059R134

C030R079 HNRNPR heterogeneous nuclear ribonu-

cleoprotein r

C133R109 NDUFA12 nadh dehydrogenase

(ubiquinone) 1 alpha subcom-

plex, 12

C138R041 CAPZA2 capping protein (actin fila-

ment) muscle z-line, alpha 2

C163R149

C184R144 MYL6L myosin light polypeptide 6

C108R048 TRAPPC2L riken cdna 1810017g16 gene

C056R152 EIF3E eukaryotic translation initia-

tion factor 3 subunit e

C093R122 POMP chromosome 13 open reading

frame 12

C076R048 PSMA1 proteasome (prosome,

macropain) subunit, alpha

type, 1

C179R073 RPL8 ribosomal protein l8

C246R165 MRPL23 zgc:86630

C200R075

C194R007 BTF3 basic transcription factor 3

C017R109

85 Probe Gene Symbol Gene.Description

C069R053

C004R145 ACP1 low molecular weight phos-

photyrosine protein phos-

phatase

C204R098 MRPL23 zgc:86630

C097R112 ALDH6A1 aldehyde dehydrogenase fam-

ily 6, subfamily a1

C069R071 VPS24 zgc:76972

C174R043

C157R117

C139R089 NDUFA7 nadh dehydrogenase

(ubiquinone) 1 alpha subcom-

plex, 7, 14.5kda

C155R068 PSMA1 proteasome (prosome,

macropain) subunit, alpha

type, 1

C210R144 GM3873 nadh dehydrogenase

[ubiquinone] 1 beta sub-

complex subunit 4

C227R100

C054R150 GLO1 glyoxylase 1

C071R088 CD97 cd97 antigen

C150R007 ZGC:77767 zgc:77767

86 Probe Gene Symbol Gene.Description

C071R106 RPL35 ribosomal protein l35

C169R086 NEDD8 ubiquitin-like protein nedd8

C039R081 EIF2C2 eukaryotic translation initia-

tion factor 2c 2

C103R004 SF3B5 splicing factor 3b, subunit 5,

10kda

C161R140 POMP chromosome 13 open reading

frame 12

C007R079

C067R156

C117R027 PMPCB peptidase (mitochondrial pro-

cessing) beta

C140R059 CTP cut up

C118R048 PSMA1 proteasome (prosome,

macropain) subunit, alpha

type, 1

C142R036

C180R080 CTP cut up

C109R005 MTPN myotrophin

C151R148 RPL8 ribosomal protein l8

C183R066 RHOA ras homolog gene family,

member a

87 Probe Gene Symbol Gene.Description

C157R140 GNL3L guanine nucleotide binding

protein-like 3 (nucleolar)-like

C025R026 LSM6 lsm6 homolog, u6 small nu-

clear rna associated (s. cere-

visiae)

C146R041 DYNC1I2 dynein cytoplasmic 1 interme-

diate chain 2

C113R024

C118R137 SUCLG1 succinate-coa ligase, gdp-

forming, alpha subunit

C055R024 C6ORF125 chromosome 6 open reading

frame 125

C113R101 ZGC:56702 zgc:56702

C050R005 SPAG7 sperm-associated antigen 7

C031R134 GDI2 gdp dissociation inhibitor 2

C105R059

C088R016

C194R163

C027R009

C198R084 RPL10A ribosomal protein l10a

C084R159 RAP1A ras-related protein rap-1a pre-

cursor

C155R165 NEDD8 ubiquitin-like protein nedd8

88 Probe Gene Symbol Gene.Description

C172R014 NDUFS1 nadh dehydrogenase

(ubiquinone) fe-s protein

1, 75kda (nadh-coenzyme q

reductase)

C186R044 CAPZA1 capping protein (actin fila-

ment) muscle z-line, alpha 1

C106R134 CAPZA2 capping protein (actin fila-

ment) muscle z-line, alpha 2

C211R097 COX17 cytochrome c oxidase, subunit

xvii assembly protein homolog

(yeast)

C077R067

C196R091 NDUFS7 nadh dehydrogenase

(ubiquinone) fe-s protein

7, 20kda

C102R106 CYB5A cytochrome b5

C209R040

C117R125

C245R086 CCDC25 coiled-coil domain containing

25

C183R067 ALDH6A1 aldehyde dehydrogenase fam-

ily 6, subfamily a1

C086R084

89 Probe Gene Symbol Gene.Description

C095R054 PRDX5 peroxiredoxin 5

C024R012 COX5A cytochrome c oxidase, subunit

va

C175R061

C159R115

C067R044

C062R108

C218R038 RNF7 ring finger protein 7

C031R157 C6ORF125 chromosome 6 open reading

frame 125

C256R068

C216R042

C151R080 MYL6L myosin light polypeptide 6

C022R169 EIF3S6IP eukaryotic translation initia-

tion factor 3, subunit 6 inter-

acting protein

C259R046 NDUFA2 nadh dehydrogenase

(ubiquinone) 1 alpha subcom-

plex, 2, 8kda

C057R010 PRPF31 prp31 pre-mrna processing

factor 31 homolog (yeast)

C098R063 RPL10 ribosomal protein l10

C216R058

90 Probe Gene Symbol Gene.Description

C212R133

C178R112 ZGC:77767 zgc:77767

C239R170 TAF7 taf7 rna polymerase ii, tata

box binding protein (tbp)-

associated factor, 55kda

C024R106 HPRT1 hypoxanthine guanine phos-

phoribosyl transferase 1

C058R036 RPL32 ribosomal protein l32

C247R148

C018R053 AP3S1 adaptor-related protein com-

plex 3, sigma 1 subunit

C239R035

C026R072 H3F3B h3 histone, family 3b

C123R105 RPS5 ribosomal protein s5

C237R133 MRPS18C mitochondrial ribosomal pro-

tein s18c

C065R135

C158R073

C175R020 NDUFS4 nadh dehydrogenase

(ubiquinone) fe-s protein

4

C047R097 COMMD3 comm domain containing 3

C024R116

91 Probe Gene Symbol Gene.Description

C155R033

C067R031

C091R029

C163R013 SUMO2 small ubiquitin-related modi-

fier 2 precursor

C079R091 HMP19 hmp19 protein

C031R108

C080R105 TMED9 transmembrane emp24

domain-containing protein 9

precursor

C253R050 POMP chromosome 13 open reading

frame 12

C020R052

C145R067 CYC1 cytochrome c-1

C258R036

C021R105 PMPCB peptidase (mitochondrial pro-

cessing) beta

C007R129 SKP1 s-phase kinase-associated pro-

tein 1

C206R096

C099R014 CDC42 cell division cycle 42 (gtp

binding protein, 25kda)

92 Probe Gene Symbol Gene.Description

C228R113 POLR1D.2 dna-directed rna polymerases

i and iii subunit rpac2

C020R011 SPAG7 sperm-associated antigen 7

C248R066

C125R082 AIFM1 programmed cell death 8

(apoptosis-inducing factor)

C225R025 OSTC upf0527 membrane protein

C105R136

C081R153 AKTIP fused toes homolog (mouse)

C239R139 MRPS18C mitochondrial ribosomal pro-

tein s18c

C132R017

C125R058 ZGC:73136 zgc:73136

C016R077

C053R132 NDUFV2 nadh dehydrogenase flavo-

protein 2 (24kd) [ubiquinone]

[nadh-ubiquinone reductase

24 kda mitochondrial]

C237R030

C224R084 NDUFV1 nadh dehydrogenase

(ubiquinone) flavoprotein

1, 51kda

C182R023 SPAG7 sperm-associated antigen 7

93 Probe Gene Symbol Gene.Description

C010R103 DBI diazepam binding inhibitor

(gaba receptor modulator,

acyl-coenzyme a binding

protein)

C104R088

C136R074 SPAG7 sperm-associated antigen 7

C096R024

C048R161 NME1 expressed in non-metastatic

cells 1

C135R101 LOC100048613|COX7C cytochrome c oxidase sub-

unit 7c, mitochondrial

precursor|cytochrome c

oxidase, subunit viic

C073R068 SS18L2 synovial sarcoma transloca-

tion gene on chromosome 18-

like 2

C021R085 NDUFS3 nadh dehydrogenase

(ubiquinone) fe-s protein

3, 30kda (nadh-coenzyme q

reductase)

C139R044 NDUFB7 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 7, 18kda

94 Probe Gene Symbol Gene.Description

C172R147

C082R119 RPL7 ribosomal protein l7

C011R012 NDUFB8 nadh dehydrogenase 1 beta

subcomplex 8

C172R109

C041R101

C166R123

C090R051 AIFM1 programmed cell death 8

(apoptosis-inducing factor)

C186R007 H3F3B h3 histone, family 3b

C003R071 EIF4EBP2 eukaryotic translation initia-

tion factor 4e binding protein

2

C104R153 NOX1 nadph oxidase 1

C061R054

C221R170 RPS12 ribosomal protein s12

C036R057 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C128R137 PRDX4 peroxiredoxin 4

C148R075

C022R038 MIF macrophage migration in-

hibitory factor (glycosylation-

inhibiting factor)

95 Probe Gene Symbol Gene.Description

C107R098 YWHAE tyrosine 3-

monooxygenase/tryptophan

5-monooxygenase activation

protein, epsilon polypeptide

C101R029 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C057R136 NME1 expressed in non-metastatic

cells 1

C153R151

C045R033 COX6B1 riken cdna 2010000g05 gene

C055R165 HNRNPAB heterogeneous nuclear ribonu-

cleoprotein a/b

C149R085

C166R054

C155R003 H3F3B h3 histone, family 3b

C157R110 TMEM167A transmembrane protein 167

precursor

C191R071

C031R025 SMOC1 sparc-related modular

calcium-binding protein 1

precursor

C064R117 PRDX5 peroxiredoxin 5

96 Probe Gene Symbol Gene.Description

C246R071 SKIV2L2 superkiller viralicidic activity

2-like 2 (s. cerevisiae)

C223R045 ACP1 low molecular weight phos-

photyrosine protein phos-

phatase

C026R091 ATP5G3 atp synthase, h+ transport-

ing, mitochondrial f0 com-

plex, subunit c (subunit 9)

isoform 3

C075R117 TRAPPC3 trafficking protein particle

complex 3

C077R055 PPIL3 peptidylprolyl isomerase

(cyclophilin)-like 3

C162R080

C052R131 VAMP3 vesicle-associated membrane

protein 3

C101R041 HPRT1 hypoxanthine guanine phos-

phoribosyl transferase 1

C076R044 MESDC2 mesoderm development can-

didate 2

C236R056 AHSA1 aha1, activator of heat shock

90kda protein atpase homolog

1 (yeast)

97 Probe Gene Symbol Gene.Description

C078R037 CYC1 cytochrome c-1

C101R109 RPL32 ribosomal protein l32

C229R153 HSP90B1 tumor rejection antigen

(gp96) 1

C019R165 CDC42 cell division cycle 42 (gtp

binding protein, 25kda)

C125R092 PSMB2 proteasome (prosome,

macropain) subunit, beta

type 2

C139R029

C006R100 UFC1 ubiquitin-fold modifier conju-

gating enzyme 1

C022R021 MATR3 matrin 3

C192R153 PPP1CB protein phosphatase 1, cat-

alytic subunit, beta isoform

C115R132

C138R076

C151R102 ANP32B similar to acidic leucine-rich

nuclear phosphoprotein 32

family member b (phapi2

protein) (silver-stainable

protein ssp29) (acidic protein

rich in leucines)

98 Probe Gene Symbol Gene.Description

C214R007 RPS20 ribosomal protein s20

C173R162 NME1 expressed in non-metastatic

cells 1

C006R156

C003R023 PSMA3 proteasome alpha 3 subunit

isoform 1

C216R029 PPP1CB protein phosphatase 1, cat-

alytic subunit, beta isoform

C162R097 ANP32A acidic (leucine-rich) nuclear

phosphoprotein 32 family,

member a

C152R080 ARL2 adp-ribosylation factor-like

protein 2

C035R156 AIFM1 programmed cell death 8

(apoptosis-inducing factor)

C022R096

C224R108 DBI diazepam binding inhibitor

(gaba receptor modulator,

acyl-coenzyme a binding

protein)

C185R064

C137R035 ACADVL acyl-coenzyme a dehydroge-

nase, very long chain

99 Probe Gene Symbol Gene.Description

C003R131 FIS1 fission 1 (mitochondrial outer

membrane) homolog (yeast)

C101R014

C015R042 POMP chromosome 13 open reading

frame 12

C146R075 ARPC3 actin related protein 2/3 com-

plex, subunit 3, 21kda

C054R152 HNRNPA3 heterogeneous nuclear ribonu-

cleoprotein a3 homolog 2

C235R089

C150R150 MRPL13 mitochondrial ribosomal pro-

tein l13

C243R095

C133R022

C161R124 GSTA glutathione s-transferase

class-alpha

C028R062 OCIAD1 zgc:56639

C256R136

C006R088 PRDX5 peroxiredoxin 5

C204R154 GSTK1 glutathione s-transferase sub-

unit 13 homolog

C077R020

C035R038 VPS24 zgc:76972

100 Probe Gene Symbol Gene.Description

C052R015 C6ORF125 chromosome 6 open reading

frame 125

C144R142 RAB6 rab6, member ras oncogene

family

C075R123 GNG5 guanine nucleotide binding

protein (g protein), gamma 5

subunit

C159R165

C073R018 BLMH bleomycin hydrolase

C216R021 GM3873 nadh dehydrogenase

[ubiquinone] 1 beta sub-

complex subunit 4

C052R169

C063R046 PPIF peptidylprolyl isomerase f (cy-

clophilin f)

C222R051 PRDX5 peroxiredoxin 5

C115R120 RBM45 developmentally regulated

rna-binding protein 1

C024R169

C145R096

C245R055 CYTB cytochrome b

C028R059 EIF1B eukaryotic translation initia-

tion factor 1b

101 Probe Gene Symbol Gene.Description

C019R140

C081R020 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C097R028 SELT1A selenoprotein t1a precursor

C031R156 PSMA4 proteasome (prosome,

macropain) subunit, alpha

type 4

C018R150 THOP1 thimet oligopeptidase 1

C048R079 PDCL3 phosducin-like 3

C100R160

C149R161 LSM4 lsm4 homolog, u6 small nu-

clear rna associated (s. cere-

visiae)

C107R028 RPS20 ribosomal protein s20

C151R034 SNX12 sorting nexin 12

C082R087

C135R117 SERPINA10 serine (or cysteine) pepti-

dase inhibitor, clade a (alpha-

1 antiproteinase, antitrypsin),

member 10

102 Probe Gene Symbol Gene.Description

C017R049 DBI diazepam binding inhibitor

(gaba receptor modulator,

acyl-coenzyme a binding

protein)

C129R101 PRDX5 peroxiredoxin 5

C150R065 THOP1 thimet oligopeptidase 1

C051R144 SERPINA10 serine (or cysteine) pepti-

dase inhibitor, clade a (alpha-

1 antiproteinase, antitrypsin),

member 10

C139R074 BZW1A basic leucine zipper and w2

domain-containing protein 1-

a

C150R077 RWDD1 rwd domain containing 1

C056R062 PDCL3 phosducin-like 3

C110R138 PPIF peptidylprolyl isomerase f (cy-

clophilin f)

C024R001 HSPA4 heat shock 70kda protein 4

C147R114

C071R037

C017R128 H2AFY2 h2a histone family, member

y2

C017R085 COPS3 zgc:55643

103 Probe Gene Symbol Gene.Description

C200R006 BCCIP brca2 and cdkn1a interacting

protein

C115R010

C256R007

C244R123 TTN|TTN titin|titin

C119R021 DNAJC19 mitochondrial import inner

membrane translocase sub-

unit tim14

C166R018 DBI diazepam binding inhibitor

(gaba receptor modulator,

acyl-coenzyme a binding

protein)

C096R032 RPL12 ribosomal protein l12

C056R095 UQCRFS1 ubiquinol-cytochrome c re-

ductase, rieske iron-sulfur

polypeptide 1

C013R015 H3F3B h3 histone, family 3b

C252R151 RHOA ras homolog gene family,

member a

C123R139 NDUFA1 nadh dehydrogenase

(ubiquinone) 1 alpha subcom-

plex, 1

104 Probe Gene Symbol Gene.Description

C105R154 AIFM1 programmed cell death 8

(apoptosis-inducing factor)

C206R053

C130R097

C068R061

C025R161 PSMB2 proteasome (prosome,

macropain) subunit, beta

type 2

C004R127

C078R143 PTGES3 prostaglandin e synthase 3

(cytosolic)

C010R060 BRP44 brain protein 44

C016R020 SPRY1 protein sprouty homolog 1

C213R009

C025R125

C108R128 MRPS25 mitochondrial ribosomal pro-

tein s25

C191R100 STK19 serine/threonine kinase 19

C204R049 NDUFB6 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 6, 17kda

C228R068 PRDX5 peroxiredoxin 5

C105R090

105 Probe Gene Symbol Gene.Description

C253R028 LOC100006097|BTF3L4 transcription factor btf3 ho-

molog 4|basic transcription

factor 3-like 4

C073R152 HNRNPA3 heterogeneous nuclear ribonu-

cleoprotein a3 homolog 2

C148R026 SELS selenoprotein s

C170R149

C185R135 SMNDC1 survival motor neuron domain

containing 1

C220R105

C156R086

C020R039

C153R109 COPS3 zgc:55643

C225R021 NONO non-pou-domain-containing,

octamer binding protein

C076R009 NDFIP1L nedd4 family-interacting pro-

tein 1

C163R122

C024R025 SNX4 sorting nexin 4

C215R027 EIF4EBP2 eukaryotic translation initia-

tion factor 4e binding protein

2

C154R072 ROMO1 protein mgr2 homolog

106 Probe Gene Symbol Gene.Description

C160R036 GSTA4 glutathione s-transferase

alpha-4

C034R130 RTN4 reticulon 4

C186R113

C035R034 HPRT1 hypoxanthine guanine phos-

phoribosyl transferase 1

C088R084 PRDX6 peroxiredoxin 6

C181R046 PSMA6 proteasome (prosome,

macropain) subunit, alpha

type 6

C227R076 ZC3H15 likely ortholog of mouse im-

mediate early response, ery-

thropoietin 4

C184R148 EEF1B2 eukaryotic translation elonga-

tion factor 1 beta 2

C236R089 ZNF706 zinc finger protein 706

C006R147

C162R143 CDC42 cell division cycle 42 (gtp

binding protein, 25kda)

C111R107

C159R132 PSMD14 proteasome (prosome,

macropain) 26s subunit,

non-atpase, 14

107 Probe Gene Symbol Gene.Description

C086R104 Vdac1 voltage-dependent anion

channel 1

C181R133

C079R036 WDR76 wd repeat domain 76

C263R017 MRPL40 nuclear localization signal

deleted in velocardiofacial

syndrome

C073R012 WHSC2 wolf-hirschhorn syndrome

candidate 2 (human)

C145R052 PDCL3 phosducin-like 3

C077R153 TTLL6 tubulin polyglutamylase ttll6

C197R020 C4A complement component 4a

C140R122 MGST3 microsomal glutathione

s-transferase 3

C031R126 UBE2V1 similar to ubiquitin-

conjugating enzyme e2

variant 1 isoform d

C236R152

C150R050

C071R169

C092R052 ILF3B interleukin enhancer-binding

factor 3 homolog

108 Probe Gene Symbol Gene.Description

C165R139 GNG5 guanine nucleotide binding

protein (g protein), gamma 5

subunit

C073R020 COX7A2L cytochrome c oxidase subunit

viia polypeptide 2 like

C055R151 ERLIN2 spfh domain family, member 2

C100R011 ATP6V0E1 atpase, h+ transporting, lyso-

somal 9kda, v0 subunit e

C218R021 TXNDC9 thioredoxin domain contain-

ing 9

C036R165

C166R073

C111R009 PELO pelota homolog (drosophila)

C118R073 PHB2 prohibitin 2

C064R046 EEF1D eukaryotic translation elonga-

tion factor 1 delta (guanine

nucleotide exchange protein)

C047R050 POB partial optokinetic response b

C069R148 PSME1 proteasome (prosome,

macropain) 28 subunit,

alpha

C048R142 ROMO1 protein mgr2 homolog

109 Probe Gene Symbol Gene.Description

C192R122 PMPCB peptidase (mitochondrial pro-

cessing) beta

C165R031

C196R006

C049R112 DDX21 dead (asp-glu-ala-asp) box

polypeptide 21

C221R053

C207R118

C055R012

C149R134 SUMO1|LOC100003435 smt3 suppressor of mif two

3 homolog 1 (yeast)|small

ubiquitin-related modifier 1

precursor

C010R117 HIGD2A hig1 domain family, member

2a

C159R168

C029R126

C015R025 MATR3 matrin 3

C157R103 NSFL1C nsfl1 (p97) cofactor (p47)

C168R161 H3F3B h3 histone, family 3b

C039R042 RAD23B rad23 homolog b (s. cere-

visiae)

C172R124 MYL6L myosin light polypeptide 6

110 Probe Gene Symbol Gene.Description

C139R071 PCBD1 pterin 4 alpha carbinolamine

dehydratase/dimerization co-

factor of hepatocyte nuclear

factor 1 alpha (tcf1) 1

C217R062 DBI diazepam binding inhibitor

(gaba receptor modulator,

acyl-coenzyme a binding

protein)

C201R117 AKTIP fused toes homolog (mouse)

C136R157

C082R099 Mrpl22 60s ribosomal protein l22, mi-

tochondrial precursor

C100R122

C199R036 ROMO1 protein mgr2 homolog

C244R125

C133R146

C184R038

C113R046

C213R055 UQCRH ubiquinol-cytochrome c re-

ductase hinge protein

C117R042 BRP44 brain protein 44

C047R024

111 Probe Gene Symbol Gene.Description

C157R048 GSTA4 glutathione s-transferase

alpha-4

C028R145 HSBP1 heat shock factor binding pro-

tein 1

C013R125 GPX4 glutathione peroxidase 4

(phospholipid hydroperoxi-

dase)

C188R030 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C245R056 CALM2 calmodulin

C253R148 ZGC:73136 zgc:73136

C048R125 HSD17B12B hydroxysteroid (17-beta) de-

hydrogenase 12b

C236R010 NCBP2 nuclear cap binding protein

subunit 2, 20kda

C037R152 PFDN2 prefoldin subunit 2

C237R071 UBE2E3 ubiquitin-conjugating enzyme

e2 e3

C093R125 DYNLRB2 dynein, light chain,

roadblock-type 2

C057R087

112 Probe Gene Symbol Gene.Description

C085R156 NDUFA8 nadh dehydrogenase

(ubiquinone) 1 alpha subcom-

plex, 8

C172R068 PSMB2 proteasome (prosome,

macropain) subunit, beta

type 2

C131R156

C177R137

C199R161

C108R107

C081R120

C240R044

C238R144 PTP4A2 protein tyrosine phosphatase

4a2

C050R044 ROMO1 protein mgr2 homolog

C085R170 GNG5 guanine nucleotide binding

protein (g protein), gamma 5

subunit

C028R072 FUBP3 far upstream element (fuse)

binding protein 3

C042R096 NAA38 u6 snrna-associated sm-like

protein lsm8

113 Probe Gene Symbol Gene.Description

C140R081 Rpl14 chloroplast 50s ribosomal pro-

tein l14

C014R116

C059R144 TRA2B splicing factor,

arginine/serine-rich 10

C061R053 TIMM8A mitochondrial import inner

membrane translocase sub-

unit tim8 a

C151R132

C173R101 RNF4 ring finger protein 4

C112R005

C065R075

C052R053 HPRT1 hypoxanthine guanine phos-

phoribosyl transferase 1

C156R149 RPL37A-PS1 60s ribosomal protein l37a

C122R034

C242R044 ATP5D atp synthase, h+ transport-

ing, mitochondrial f1 com-

plex, delta subunit

C227R065

C259R108 ATG5 autophagy protein 5

C046R002 BRP44 brain protein 44

114 Probe Gene Symbol Gene.Description

C253R073 UQCRC2 ubiquinol-cytochrome c re-

ductase core protein ii

C045R084 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C168R042

C058R061 STK19 serine/threonine kinase 19

C082R031 ALDH6A1 aldehyde dehydrogenase fam-

ily 6, subfamily a1

C129R146 CTNNB1 catenin (cadherin associated

protein), beta 1

C164R147 PDRG1 p53 and dna damage regu-

lated 1

C130R026 COX5B cytochrome c oxidase, subunit

vb

C060R151 0610007C21RIK riken cdna 0610007c21 gene

C218R017 RAP1B ras related protein 1b

C227R103 MMGT1 transmembrane protein 32

precursor

C255R015 NDUFA1 nadh dehydrogenase

(ubiquinone) 1 alpha subcom-

plex, 1

C030R162

115 Probe Gene Symbol Gene.Description

C057R123 RGS3 regulator of g-protein sig-

nalling 3

C230R010

C097R153 MGST3 microsomal glutathione

s-transferase 3

C082R170 FH fumarate hydratase, mito-

chondrial precursor

C192R146 CYB5A cytochrome b5

C112R065 PPIF peptidylprolyl isomerase f (cy-

clophilin f)

C123R086 NDUFB10 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 10, 22kda

C038R120

C108R052 MAP1LC3A microtubule-associated pro-

tein 1 light chain 3 alpha

C216R032 SKP1 s-phase kinase-associated pro-

tein 1

C236R113 FARSB phenylalanine-trna

synthetase-like, beta sub-

unit

C087R021

116 Probe Gene Symbol Gene.Description

C257R105 BCKDHB branched chain ketoacid dehy-

drogenase e1, beta polypep-

tide

C160R058 NDUFA3 nadh dehydrogenase

(ubiquinone) 1 alpha subcom-

plex, 3

C240R028 SPAG7 sperm-associated antigen 7

C006R058 KARS|KARS lysyl-trna synthetase|lysyl-

trna synthetase

C174R100

C087R061 PPIF peptidylprolyl isomerase f (cy-

clophilin f)

C140R084

C080R120 SYAP1 hypothetical protein flj14495

C201R084

C191R053

C065R038 ND3 nadh-ubiquinone oxidoreduc-

tase chain 3

C013R121 SYAP1 hypothetical protein flj14495

C066R100

C164R162 SMNDC1 survival motor neuron domain

containing 1

117 Probe Gene Symbol Gene.Description

C051R070 ELOF1 elongation factor 1 homolog

(s. cerevisiae)

C039R110 PTBP2 polypyrimidine tract binding

protein 2

C098R079

C111R135

C247R052 SUB1 sub1 homolog (s. cerevisiae)

C156R115 BRP44 brain protein 44

C074R079 PSME1 proteasome (prosome,

macropain) 28 subunit,

alpha

C205R059 IDH3A isocitrate dehydrogenase 3

(nad+) alpha

C197R090 PSME2 proteasome activator subunit

2

C223R090 COPS8 cop9 constitutive photomor-

phogenic homolog subunit 8

(arabidopsis)

C196R062

C041R107

C097R067 PPIF peptidylprolyl isomerase f (cy-

clophilin f)

118 Probe Gene Symbol Gene.Description

C140R125 SAP18 sin3-associated polypeptide,

18kda

C192R003

C014R037 MATR3 matrin 3

C035R057 ROMO1 protein mgr2 homolog

C266R096 ATP5G3 atp synthase, h+ transport-

ing, mitochondrial f0 com-

plex, subunit c (subunit 9)

isoform 3

C026R137 TMEM85 transmembrane protein 85

C226R144 NDUFB10 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 10, 22kda

C071R067 COX3 cytochrome c oxidase

polypeptide iii

C047R040

C188R012

C172R143 SHFM1 split hand/foot malformation

(ectrodactyly) type 1

C152R165 HNRPK heterogeneous nuclear ribonu-

cleoprotein k

C170R127 SNRNP27 u4/u6.u5 tri-snrnp-associated

protein 3

119 Probe Gene Symbol Gene.Description

C034R105

C133R035 ARPC4 actin related protein 2/3 com-

plex, subunit 4, 20kda

C063R004 PSMB2 proteasome (prosome,

macropain) subunit, beta

type 2

C194R003 MGST3 microsomal glutathione

s-transferase 3

C266R118 RPL23A ribosomal protein l23a

C125R134 EIF1B eukaryotic translation initia-

tion factor 1b

C154R142 H3F3B h3 histone, family 3b

C031R155 UQCRH ubiquinol-cytochrome c re-

ductase hinge protein

C072R042 NDUFB9 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 9, 22kda

C168R048 GM3244 nadh dehydrogenase

[ubiquinone] 1 beta sub-

complex subunit 4

C117R143 ZC3H15 likely ortholog of mouse im-

mediate early response, ery-

thropoietin 4

120 Probe Gene Symbol Gene.Description

C167R161

C057R150 RBM45 developmentally regulated

rna-binding protein 1

C226R076

C192R039

C224R046 EEF1D eukaryotic translation elonga-

tion factor 1 delta (guanine

nucleotide exchange protein)

C162R121 CCNI cyclin i

C172R066 PSME1 proteasome (prosome,

macropain) 28 subunit,

alpha

C085R147 CPSF5 cleavage and polyadenylation

specific factor 5

C190R069 COPB1 coatomer protein complex,

subunit beta

C227R062 PTP4A2 protein tyrosine phosphatase

4a2

C233R093

C106R121 D8ERTD738E dna segment, chr 8, erato doi

738, expressed

C103R054

121 Probe Gene Symbol Gene.Description

C194R087 DYNLRB2 dynein, light chain,

roadblock-type 2

C009R072

C098R134 NUDT2 nudix (nucleoside diphosphate

linked moiety x)-type motif 2

C121R113 ARF5 adp-ribosylation factor 1

C176R142 EDF1 endothelial differentiation-

related factor 1

C180R131

C120R046 H1FX h1 histone family, member x

C004R131

C138R004

C259R034 H2AFY2 h2a histone family, member

y2

C147R054 ARPC4 actin related protein 2/3 com-

plex, subunit 4, 20kda

C158R090

C152R078

C151R014 PSME1 proteasome (prosome,

macropain) 28 subunit,

alpha

C008R112 RpS23|RpS23 ribosomal protein

s23|ribosomal protein s23

122 Probe Gene Symbol Gene.Description

C155R026 AP2S1 adaptor-related protein com-

plex 2, sigma 1 subunit

C036R160 ATP6V1G1 vacuolar proton pump subunit

g 1

C203R026 TMED2 coated vesicle membrane pro-

tein

C132R030 COMMD1 copper metabolism (murr1)

domain containing 1

C173R014 TIMM8A mitochondrial import inner

membrane translocase sub-

unit tim8 a

C255R100 NUCB1 nucleobindin 1

C232R143 PCBD1 pterin 4 alpha carbinolamine

dehydratase/dimerization co-

factor of hepatocyte nuclear

factor 1 alpha (tcf1) 1

C129R020 ACP1 low molecular weight phos-

photyrosine protein phos-

phatase

C154R025 ARHGAP1 rho gtpase activating protein

1

C085R129 WBP2 ww domain binding protein 2

123 Probe Gene Symbol Gene.Description

C170R009 EIF3D eukaryotic translation initia-

tion factor 3, subunit 7 (zeta)

C163R002 ZMAT2 zinc finger matrin-type pro-

tein 2

C229R035 LRRFIP2 leucine rich repeat (in flii) in-

teracting protein 2

C132R032 PRDX5 peroxiredoxin 5

C105R080 ALDH9A1A aldehyde dehydrogenase fam-

ily 9 member a1-a

C115R071 RPL37A-PS1 60s ribosomal protein l37a

C182R064

C136R056 EEF1A1O elongation factor 1-alpha,

oocyte form

C191R134 FKBP2 fk506 binding protein 2

C084R122 EDF1 endothelial differentiation-

related factor 1

C081R098 ATP6V0E1 atpase, h+ transporting, lyso-

somal 9kda, v0 subunit e

C149R078

C014R084 PCBD1 pterin 4 alpha carbinolamine

dehydratase/dimerization co-

factor of hepatocyte nuclear

factor 1 alpha (tcf1) 1

124 Probe Gene Symbol Gene.Description

C223R147 GNAI2 guanine nucleotide binding

protein (g protein), alpha in-

hibiting activity polypeptide

2

C105R148 HINT1 histidine triad nucleotide-

binding protein 1

C083R039 EIF6 integrin beta 4 binding pro-

tein

C190R145 ARL2 adp-ribosylation factor-like

protein 2

C029R020

C254R127 SELS selenoprotein s

C247R115 CIRBP cold inducible rna binding

protein

C016R165 CCNI cyclin i

C224R102 DENR density-regulated protein

C086R120 PPT1 palmitoyl-protein thioesterase

1 (ceroid-lipofuscinosis, neu-

ronal 1, infantile)

C171R129 APOEB apolipoprotein eb

C137R121

C087R165 OLA1 gtp-binding protein ptd004

C254R091 PFDN1 prefoldin subunit 1

125 Probe Gene Symbol Gene.Description

C204R052 ZGC:110255 39s ribosomal protein l51, mi-

tochondrial precursor

C002R137

C207R164 PSME1 proteasome (prosome,

macropain) 28 subunit,

alpha

C230R135 ATP6V0C atpase, h+ transporting, lyso-

somal 16kda, v0 subunit c

C125R036 EIF6 integrin beta 4 binding pro-

tein

C151R140 UQCRH ubiquinol-cytochrome c re-

ductase hinge protein

C220R027 SRSF3 splicing factor,

arginine/serine-rich 3

C027R145

C068R083 DENR density-regulated protein

C151R164 MATR3 matrin 3

C143R037 RAP1B ras related protein 1b

C153R011

C252R132 ALDH2 aldehyde dehydrogenase 2

C231R082 MDH1 malate dehydrogenase 1, nad

(soluble)

C081R082 BRP44 brain protein 44

126 Probe Gene Symbol Gene.Description

C013R089

C264R134

C130R067 SAT1 spermidine/spermine n1-

acetyltransferase

C203R043 TIMM17A translocase of inner mitochon-

drial membrane 17 homolog a

(yeast)

C152R101 UQCRC2 ubiquinol-cytochrome c re-

ductase core protein ii

C248R015 MYL6L myosin light polypeptide 6

C145R101

C200R104 PUF60 fuse-binding protein-

interacting repressor

C050R121

C057R085

C228R136 Rpl14 chloroplast 50s ribosomal pro-

tein l14

C220R031 ACT2 actin, alpha sarcom-

eric/cardiac

C244R007 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C201R089

127 Probe Gene Symbol Gene.Description

C230R163 ANP32B similar to acidic leucine-rich

nuclear phosphoprotein 32

family member b (phapi2

protein) (silver-stainable

protein ssp29) (acidic protein

rich in leucines)

C214R157

C172R015 PSMD14 proteasome (prosome,

macropain) 26s subunit,

non-atpase, 14

C108R007 PCBD1 pterin 4 alpha carbinolamine

dehydratase/dimerization co-

factor of hepatocyte nuclear

factor 1 alpha (tcf1) 1

C090R005

C162R030 ROMO1 protein mgr2 homolog

C061R120 KIAA1143 uncharacterized protein

kiaa1143 homolog

C037R160

C178R167 TBL2 dkfzp434n024 protein

C245R002 UQCRC2 ubiquinol-cytochrome c re-

ductase core protein ii

C067R148 FKBP2 fk506 binding protein 2

128 Probe Gene Symbol Gene.Description

C050R141

C122R106 UBE2A ubiquitin-conjugating enzyme

e2a, rad6 homolog (s. cere-

visiae)

C028R058 UBE2D2 ubiquitin-conjugating enzyme

e2d 2 (ubc4/5 homolog, yeast)

C151R120 NACA nascent-polypeptide-

associated complex alpha

polypeptide

C235R142 Polr2e polymerase (rna) ii (dna di-

rected) polypeptide e, 25kda

C205R037 CHCHD3 coiled-coil-helix-coiled-coil-

helix domain containing

3

C124R157 COX5A cytochrome c oxidase, subunit

va

C162R127

C116R153 WIBG protein wibg homolog

C212R111

C241R003 PSMA1 proteasome (prosome,

macropain) subunit, alpha

type, 1

129 Probe Gene Symbol Gene.Description

C075R056 AUH au rna binding protein/enoyl-

coenzyme a hydratase

C207R096 BIRC2 baculoviral iap repeat-

containing 2

C006R134 SLC25A5 solute carrier family 25 (mito-

chondrial carrier; adenine nu-

cleotide translocator), mem-

ber 5

C125R095 ATP6V1G1 vacuolar proton pump subunit

g 1

C182R032 PEBP1 phosphatidylethanolamine-

binding protein 1

C199R050 MRPS28 mitochondrial ribosomal pro-

tein s28

C097R024

C195R038 SOD1 superoxide dismutase 1, solu-

ble

C107R063 MYH9 myosin, heavy polypeptide 9,

non-muscle

C215R043 EIF3E eukaryotic translation initia-

tion factor 3 subunit e

C231R040 RHOA ras homolog gene family,

member a

130 Probe Gene Symbol Gene.Description

C166R086 PSMB6 proteasome (prosome,

macropain) subunit, beta

type, 6

C104R076 THOC4 tho complex 4

C104R010

C194R046

C214R016

C256R050 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C227R017 RTN4 reticulon 4

C260R145 PCBD1 pterin 4 alpha carbinolamine

dehydratase/dimerization co-

factor of hepatocyte nuclear

factor 1 alpha (tcf1) 1

C168R081 HMGB1 high-mobility group box 1

C195R033 ROMO1 protein mgr2 homolog

C150R053 ANXA13 annexin a13

C109R123

C074R130

C110R040

C149R044 CALM2 calmodulin

C178R064 HMGB2 high-mobility group box 2

C112R106

131 Probe Gene Symbol Gene.Description

C228R051 EIF1B eukaryotic translation initia-

tion factor 1b

C099R128 TOMM6 overexpressed breast tumor

protein homolog

C135R013 RANBP1 ran binding protein 1

C241R073 DYNLRB2 dynein, light chain,

roadblock-type 2

C253R134 BHLHE40 class b basic helix-loop-helix

protein 2

C134R054

C038R117

C210R153 SDHB succinate dehydrogenase com-

plex, subunit b, iron sulfur

(ip)

C091R161

C225R106 SEC22BB sec22, vesicle trafficking pro-

tein (s. cerevisiae)-like 1b

C024R150 MINA myc induced nuclear antigen

C162R048 PPP1CB protein phosphatase 1, cat-

alytic subunit, beta isoform

C148R009 CNOT3 ccr4-not transcription com-

plex, subunit 3

132 Probe Gene Symbol Gene.Description

C021R040 ATP5A1 atp synthase, h+ transport-

ing, mitochondrial f1 com-

plex, alpha subunit, isoform 1

C071R032

C189R117 H3F3B h3 histone, family 3b

C177R049

C260R043

C066R137 EIF4EBP2 eukaryotic translation initia-

tion factor 4e binding protein

2

C105R149 EIF3H eukaryotic translation initi-

ation factor 3, subunit 3

gamma, 40kda

C098R075 PNRC1 proline-rich nuclear receptor

coactivator 1

C030R169

C063R160 MRPS21 mitochondrial ribosomal pro-

tein s21

C228R011 SF3B5 splicing factor 3b, subunit 5,

10kda

C209R156

C252R027 COPS7A cop9 signalosome complex

subunit 7a

133 Probe Gene Symbol Gene.Description

C217R048 DAD1 defender against cell death 1

C163R129 COPG2 coatomer subunit gamma-2

C099R153

C093R025

C052R044 ISOC2 isochorismatase domain-

containing protein 2, mito-

chondrial precursor

C086R143 SNX12 sorting nexin 12

C118R117 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C199R046 LAMTOR3 mitogen-activated protein ki-

nase kinase 1-interacting pro-

tein 1

C151R158 RHOA ras homolog gene family,

member a

C249R102

C196R153 EIF1B eukaryotic translation initia-

tion factor 1b

C088R025 OAZ1 ornithine decarboxylase an-

tizyme 1

C253R096 GSTA4 glutathione s-transferase

alpha-4

C257R052 POB partial optokinetic response b

134 Probe Gene Symbol Gene.Description

C174R155 PSMD3 proteasome (prosome,

macropain) 26s subunit,

non-atpase, 3

C237R045 SNRNP27 u4/u6.u5 tri-snrnp-associated

protein 3

C138R072 ATP6V1G1 vacuolar proton pump subunit

g 1

C058R034 ATP6V1G1 vacuolar proton pump subunit

g 1

C140R139 PPT1 palmitoyl-protein thioesterase

1 (ceroid-lipofuscinosis, neu-

ronal 1, infantile)

C028R032

C095R097 THOC4 tho complex 4

C198R158 PSME2 proteasome activator subunit

2

C197R132 RTN4 reticulon 4

C071R010 RPL22L1 ribosomal protein l22 like 1

C135R150

C208R149 PSMA6 proteasome (prosome,

macropain) subunit, alpha

type 6

C266R109

135 Probe Gene Symbol Gene.Description

C248R103

C072R170 TNRC6B trinucleotide repeat-

containing gene 6b protein

C142R043

C062R168 TUBA4A tubulin, alpha 4

C063R073 LITAF lipopolysaccharide-induced

tnf factor

C242R078

C206R074 U2AF1 u2(rnu2) small nuclear rna

auxiliary factor 1

C184R121

C124R009 PSMD6 proteasome (prosome,

macropain) 26s subunit,

non-atpase, 6

C221R125 PFDN6 prefoldin subunit 6

C248R124 EIF6 integrin beta 4 binding pro-

tein

C081R038

C163R113

C207R098 COPE coatomer protein complex,

subunit epsilon

C157R127 COX5B cytochrome c oxidase, subunit

vb

136 Probe Gene Symbol Gene.Description

C081R016 EIF3H eukaryotic translation initi-

ation factor 3, subunit 3

gamma, 40kda

C205R044 H1FX h1 histone family, member x

C167R165 PCBD2 pterin 4 alpha carbinolamine

dehydratase/dimerization co-

factor of hepatocyte nuclear

factor 1 alpha (tcf1) 2

C072R099 EML1 echinoderm microtubule asso-

ciated protein like 1

C167R035 ATP5G3 atp synthase, h+ transport-

ing, mitochondrial f0 com-

plex, subunit c (subunit 9)

isoform 3

C126R059 DCUN1D5 dcn1, defective in cullin ned-

dylation 1, domain containing

5 (s. cerevisiae)

C032R049 KIAA1143 uncharacterized protein

kiaa1143 homolog

C016R083

C212R114 FAM50A family with sequence similar-

ity 50, member a

C130R159

137 Probe Gene Symbol Gene.Description

C248R033 BCCIP brca2 and cdkn1a interacting

protein

C250R032

C079R162

C122R140 ZGC:109953 zgc:109953

C196R097 BCCIP brca2 and cdkn1a interacting

protein

C136R032 EIF3H eukaryotic translation initi-

ation factor 3, subunit 3

gamma, 40kda

C113R018 H3F3B h3 histone, family 3b

C024R092

C115R007 H2AFY2 h2a histone family, member

y2

C011R030 TIMM17A translocase of inner mitochon-

drial membrane 17 homolog a

(yeast)

C121R160

C073R083 NDUFB3 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 3, 12kda

C212R147 PARP4 poly (adp-ribose) polymerase

family, member 4

138 Probe Gene Symbol Gene.Description

C091R044 PIGT phosphatidylinositol glycan,

class t

C008R111 WTAP wilms tumor 1 associated pro-

tein

C264R045

C062R068 LAMTOR3 mitogen-activated protein ki-

nase kinase 1-interacting pro-

tein 1

C172R101 ABCB9 atp-binding cassette, sub-

family b (mdr/tap), member

9

C231R022 RTN4 reticulon 4

C228R105

C228R034 NAA10 n-terminal acetyltransferase

complex ard1 subunit ho-

molog a

C001R119 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C059R158

C083R076

C200R103

C157R044

139 Probe Gene Symbol Gene.Description

C252R167 SUPT3H transcription initiation pro-

tein spt3 homolog

C108R018

C251R107 BRP44 brain protein 44

C159R117

C141R073

C168R086 RAD23A rad23 homolog a (s. cere-

visiae)

C134R130 Mrpl3 mitochondrial ribosomal pro-

tein l3

C233R005 H3F3B h3 histone, family 3b

C010R009 RHOA ras homolog gene family,

member a

C006R153 H3F3B h3 histone, family 3b

C163R114

C104R158 GABARAP gamma-aminobutyric acid re-

ceptor associated protein

C175R095 CCDC56 coiled-coil domain containing

56

C139R142

C004R142 THOC7 zgc:92711

C173R021 COX7A2 cytochrome c oxidase, subunit

viia 2

140 Probe Gene Symbol Gene.Description

C141R101 MAGI2 membrane associated guany-

late kinase, ww and pdz do-

main containing 2

C261R159 DDX39 nuclear rna helicase, decd

variant of dead box family

C026R148

C076R150

C253R016

C089R125 NDUFB9 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 9, 22kda

C178R127 LANCL1 lanc-like protein 1

C103R151 EIF1B eukaryotic translation initia-

tion factor 1b

C203R157

C013R016 NENF neuron derived neurotrophic

factor

C005R071

C162R022 COX4NB neighbor of cox4

C095R087 TUBA4A tubulin, alpha 4

C208R015 UQCRH ubiquinol-cytochrome c re-

ductase hinge protein

C072R037 PA2G4 proliferation-associated 2g4

141 Probe Gene Symbol Gene.Description

C099R015

C153R097

C025R019

C215R117 FAF2 ubx domain-containing pro-

tein 8

C028R147 F2R proteinase-activated receptor

1 precursor

C128R084

C080R027 SEPT7 septin-7

C251R142 CIRBP cold inducible rna binding

protein

C226R113 RPL7 ribosomal protein l7

C246R066

C124R064

C189R041

C194R014 NCBP2 nuclear cap binding protein

subunit 2, 20kda

C015R144 CALR calreticulin

C162R085 CCDC43 coiled-coil domain containing

43

C153R150 EIF3F eukaryotic translation initia-

tion factor 3, subunit 5 ep-

silon, 47kda

142 Probe Gene Symbol Gene.Description

C249R099 ANP32A acidic (leucine-rich) nuclear

phosphoprotein 32 family,

member a

C039R164 YPEL5 riken cdna 2310076k21 gene

C112R012 HN1L dna segment, chr 17, erato doi

441, expressed

C046R039 PPIA peptidylprolyl isomerase a

C125R105

C178R170 EIF3B eukaryotic translation initia-

tion factor 3, subunit 9 eta,

116kda

C213R139 PSMB5 proteasome (prosome,

macropain) subunit, beta

type, 5

C045R146 FKBP2 fk506 binding protein 2

C254R114 DDX39 nuclear rna helicase, decd

variant of dead box family

C171R100 PSMC1 peptidase (prosome,

macropain) 26s subunit,

atpase 1

C067R120

C078R070

C043R128

143 Probe Gene Symbol Gene.Description

C063R054

C120R061 TUFM tu translation elongation fac-

tor, mitochondrial

C207R006 HNRNPAB heterogeneous nuclear ribonu-

cleoprotein a/b

C201R121 PFDN1 prefoldin subunit 1

C010R085

C230R102 PSMA1 proteasome (prosome,

macropain) subunit, alpha

type, 1

C187R061

C004R034 PSMA6 proteasome (prosome,

macropain) subunit, alpha

type 6

C125R127 EIF1B eukaryotic translation initia-

tion factor 1b

C022R082 ECHS1 enoyl coenzyme a hydratase,

short chain, 1, mitochondrial

C032R144

C206R026 BCCIP brca2 and cdkn1a interacting

protein

C189R161 H3F3B h3 histone, family 3b

144 Probe Gene Symbol Gene.Description

C120R010 PPARD peroxisome proliferative acti-

vated receptor, delta

C036R142

C223R046 STAT1 signal transducer and activa-

tor of transcription 1, 91kda

C245R136

C229R042

C050R046 SLIRP sra stem-loop-interacting rna-

binding protein, mitochon-

drial precursor

C184R006 ZGC:153176 uncharacterized protein

c3orf60 homolog

C199R129

C067R049 SNRPD1 small nuclear ribonucleopro-

tein d1 polypeptide 16kda

C238R119 PSME1 proteasome (prosome,

macropain) 28 subunit,

alpha

C169R097 SPNB2 spectrin beta 2

145 Probe Gene Symbol Gene.Description

C156R042 POLR2K|LOC100046796 polymerase (rna) ii (dna

directed) polypeptide k,

7.0kda|dna-directed rna poly-

merases i, ii, and iii subunit

rpabc4

C205R125 COX7C|LOC100048613 cytochrome c oxidase, subunit

viic|cytochrome c oxidase sub-

unit 7c, mitochondrial precur-

sor

C237R026

C242R169 PELO pelota homolog (drosophila)

C134R050

C186R094 PPP2CB zgc:77172

C069R147 IFRD2 interferon-related develop-

mental regulator 2

C233R069 HNRNPUL1 heterogeneous nuclear ribonu-

cleoprotein u-like protein 1

C225R135 SPI1 spleen focus forming virus

(sffv) proviral integration

oncogene spi1

C143R077 H1FX h1 histone family, member x

C126R073 GDI2 gdp dissociation inhibitor 2

146 Probe Gene Symbol Gene.Description

C092R037 EDF1 endothelial differentiation-

related factor 1

C212R168 FKBP2 fk506 binding protein 2

C052R111 ACTR2 arp2 actin-related protein 2

homolog (yeast)

C020R134

C244R041 CALR calreticulin

C036R063 SRSF2 splicing factor,

arginine/serine-rich 2

C114R023 EIF1B eukaryotic translation initia-

tion factor 1b

C027R002

C142R165

C247R039 MRPS21 mitochondrial ribosomal pro-

tein s21

C150R122 CFL2 cofilin 2, muscle

C266R052 CYC1 cytochrome c-1

C226R037 PSMD4 proteasome (prosome,

macropain) 26s subunit,

non-atpase, 4

C039R105 RPL23A ribosomal protein l23a

147 Probe Gene Symbol Gene.Description

C219R144 PSMA5 proteasome (prosome,

macropain) subunit, alpha

type 5

C184R009 NDUFA3 nadh dehydrogenase

(ubiquinone) 1 alpha subcom-

plex, 3

C120R161 HNRNPAB heterogeneous nuclear ribonu-

cleoprotein a/b

C079R133 GM9531|SET protein set|set translocation

C232R142 DDT d-dopachrome tautomerase

C018R071

C258R069 ALDH9A1A aldehyde dehydrogenase fam-

ily 9 member a1-a

C240R005 EIF1AX eukaryotic translation initia-

tion factor 1a, x-linked

C087R062 MID1IP1 mid1 interacting protein 1

(gastrulation specific g12-like

(zebrafish))

C079R104

C006R026 HSPE1 heat shock 10kda protein 1

(chaperonin 10)

C017R107

C168R115

148 Probe Gene Symbol Gene.Description

C219R132

C166R169

C219R116 SNX3 sorting nexin 3

C051R101

C186R152

C227R084

C225R040 ATP6V1G1 vacuolar proton pump subunit

g 1

C023R002 DDX21 dead (asp-glu-ala-asp) box

polypeptide 21

C131R110 CSDE1 cold shock domain containing

e1, rna-binding

C116R091 CCT5 chaperonin containing tcp1,

subunit 5 (epsilon)

C231R021 ARPC4 actin related protein 2/3 com-

plex, subunit 4, 20kda

C042R140

C070R050 UBE2D2 ubiquitin-conjugating enzyme

e2d 2 (ubc4/5 homolog, yeast)

C006R043 TMEM50A transmembrane protein 50a

C191R142 EIF1B eukaryotic translation initia-

tion factor 1b

C120R111

149 Probe Gene Symbol Gene.Description

C163R039 NDUFA1 nadh dehydrogenase

(ubiquinone) 1 alpha subcom-

plex, 1

C223R064

C003R057

C140R143

C242R113 DCUN1D5 dcn1, defective in cullin ned-

dylation 1, domain containing

5 (s. cerevisiae)

C171R117

C043R081 CUL3 cullin 3

C141R097 DERL1 der1-like domain family,

member 1

C078R086 CIRBP cold inducible rna binding

protein

C178R032

C196R125 PSMA6 proteasome (prosome,

macropain) subunit, alpha

type 6

C255R069 CIRBP cold inducible rna binding

protein

C143R090 TXNRD3 thioredoxin reductase 3

C063R151

150 Probe Gene Symbol Gene.Description

C244R044 RPL7 ribosomal protein l7

C030R074 NDUFB6 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 6, 17kda

C241R061

C183R005 EIF2S2 eukaryotic translation initia-

tion factor 2, subunit 2 (beta)

C111R155 EIF2S3 eukaryotic translation initi-

ation factor 2, subunit 3

gamma, 52kda

C167R039

C032R112 TMEM50A transmembrane protein 50a

C075R077 MRPS14 mitochondrial ribosomal pro-

tein s14

C069R114

C008R026 DNAJA2 dnaj (hsp40) homolog, sub-

family a, member 2

C164R055 TMEM50A transmembrane protein 50a

C256R084 PSMA6 proteasome (prosome,

macropain) subunit, alpha

type 6

C162R091 PSME2 proteasome activator subunit

2

151 Probe Gene Symbol Gene.Description

C074R058 CCT2 similar to chaperonin contain-

ing tcp1, subunit 2

C086R011 EEF1D eukaryotic translation elonga-

tion factor 1 delta (guanine

nucleotide exchange protein)

C152R031

C260R065 ATP6V0C atpase, h+ transporting, lyso-

somal 16kda, v0 subunit c

C160R026

C253R167

C002R056

C232R164

C203R088 EIF3M zgc:63996

C133R084 YWHAE tyrosine 3-

monooxygenase/tryptophan

5-monooxygenase activation

protein, epsilon polypeptide

C177R096 DDT d-dopachrome tautomerase

C179R129 DNTTIP2 deoxynucleotidyltransferase

terminal-interacting protein 2

C108R022 LRRC47 leucine rich repeat containing

47

152 Probe Gene Symbol Gene.Description

C050R032 SRSF7 splicing factor,

arginine/serine-rich 7

C030R052

C260R106 LAMTOR3 mitogen-activated protein ki-

nase kinase 1-interacting pro-

tein 1

C048R097 TMEM50A transmembrane protein 50a

C184R019 FKBP1B fk506 binding protein 1b

C200R105 SPAG7 sperm-associated antigen 7

C160R114

C099R137 PDGFRL platelet-derived growth factor

receptor-like

C042R032

C151R108 HMGB3 high-mobility group box 3

C134R008 POLD4 dna polymerase subunit delta-

4

C143R057 FKBP1A fk506-binding protein 1a

C183R154

C064R060

C067R072

C027R151 LOC642969|PGAM1 phosphoglycerate mutase

1|phosphoglycerate mutase 1

153 Probe Gene Symbol Gene.Description

C089R022 RBBP6 retinoblastoma binding pro-

tein 6

C239R126

C229R001

C252R010 PSMA6 proteasome (prosome,

macropain) subunit, alpha

type 6

C013R118

C151R015 NDUFB6 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 6, 17kda

C028R053 ERCC5 excision repair cross-

complementing rodent repair

deficiency, complementation

group 5

C263R024 PFDN6 prefoldin subunit 6

C112R077

C098R064 PSMA6 proteasome (prosome,

macropain) subunit, alpha

type 6

C044R084 TUBB tubulin, beta

C111R134

154 Probe Gene Symbol Gene.Description

C054R142 EEF1D eukaryotic translation elonga-

tion factor 1 delta (guanine

nucleotide exchange protein)

C088R123 PSMA6 proteasome (prosome,

macropain) subunit, alpha

type 6

C208R032 LOC642969|PGAM1 phosphoglycerate mutase

1|phosphoglycerate mutase 1

C039R027

C141R148 PFN2 profilin 2

C251R052

C258R039 HRSP12 similar to ribonuclease uk114

(14.5 kda translational in-

hibitor protein) (p14.5)

(uk114 antigen homolog)

C069R045 ZGC:113138 trna 2-phosphotransferase 1

C151R099 ARPC1A actin related protein 2/3 com-

plex, subunit 1a, 41kda

C097R118

C257R151 SRGAP3 slit-robo rho gtpase-activating

protein 3

C235R064 FKBP4 fk506-binding protein 4

155 Probe Gene Symbol Gene.Description

C073R101 CAPZB capping protein (actin fila-

ment) muscle z-line, beta

C174R106 RPL10 ribosomal protein l10

C232R098 THOC4 tho complex 4

C135R077

C141R063

C103R052

C211R153 PSME1 proteasome (prosome,

macropain) 28 subunit,

alpha

C229R011 KRT8|KRT8 keratin 8|keratin 8

C137R082 ZGC:110255 39s ribosomal protein l51, mi-

tochondrial precursor

C016R065

C081R041 NDUFB6 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 6, 17kda

C215R109

C201R103

C070R166 TUBB2C tubulin, beta 2c

C063R016

C194R164

156 Probe Gene Symbol Gene.Description

C133R105 MRPS14 mitochondrial ribosomal pro-

tein s14

C130R078 TXNDC17 zgc:91920

C065R153

C053R028 PPIA peptidylprolyl isomerase a

C067R071

C257R037

C155R143 TAGLN transgelin

C262R027

C200R060 NDUFB6 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 6, 17kda

C070R032 DDT d-dopachrome tautomerase

C229R062 RPL13 ribosomal protein l13

C107R132 SEC11A signal peptidase complex cat-

alytic subunit sec11a

C143R085

C144R010 DNAJC19 mitochondrial import inner

membrane translocase sub-

unit tim14

C103R161 NDUFB6 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 6, 17kda

157 Probe Gene Symbol Gene.Description

C123R033 PSMD7 proteasome (prosome,

macropain) 26s subunit,

non-atpase, 7 (mov34 ho-

molog)

C058R039 FSTL1 follistatin-like 1

C241R011

C187R089 SPAG7 sperm-associated antigen 7

C191R013 NDUFB9 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 9, 22kda

C109R066 TIMM17A translocase of inner mitochon-

drial membrane 17 homolog a

(yeast)

C039R009 H3F3B h3 histone, family 3b

C238R106 EIF1B eukaryotic translation initia-

tion factor 1b

C226R156 1110008F13RIK riken cdna 1110008f13 gene

C257R155 PPP2CB zgc:77172

C100R168 RBP1 retinol binding protein 1, cel-

lular

C152R022 PSMD4 proteasome (prosome,

macropain) 26s subunit,

non-atpase, 4

158 Probe Gene Symbol Gene.Description

C127R109 HMGB3 high-mobility group box 3

C129R044

C179R071 BCCIP brca2 and cdkn1a interacting

protein

C120R140 PDHA1 pyruvate dehydrogenase

(lipoamide) alpha 1

C118R146 PSMC4 proteasome (prosome,

macropain) 26s subunit,

atpase, 4

C238R082 ARF4 adp-ribosylation factor 4

C170R005 ACP1 low molecular weight phos-

photyrosine protein phos-

phatase

C098R007 MID1IP1 mid1 interacting protein 1

(gastrulation specific g12-like

(zebrafish))

C159R092 SLC25A5 solute carrier family 25 (mito-

chondrial carrier; adenine nu-

cleotide translocator), mem-

ber 5

C203R001 NACA nascent-polypeptide-

associated complex alpha

polypeptide

159 Probe Gene Symbol Gene.Description

C234R032

C206R069

C231R028 AHCY-B adenosylhomocysteinase b

C225R034 ABCF2 atp-binding cassette, sub-

family f (gcn20), member

2

C006R113 AHSA1 aha1, activator of heat shock

90kda protein atpase homolog

1 (yeast)

C205R159 MID1IP1 mid1 interacting protein 1

(gastrulation specific g12-like

(zebrafish))

C012R124 H3F3B h3 histone, family 3b

C102R094 GTF2H5 general transcription factor

iih subunit 5

C016R164

C253R093

C216R027 PGAM1|LOC642969 phosphoglycerate mutase

1|phosphoglycerate mutase 1

C020R105

C044R125

C244R128

C138R130

160 Probe Gene Symbol Gene.Description

C043R115 EEF1B2 eukaryotic translation elonga-

tion factor 1 beta 2

C132R009

C233R051

C067R014 TARDBP expressed sequence c85084

C231R079 TSPAN14 tetraspanin 14

C104R007 ENO1 alpha-enolase

C154R121

C226R074

C217R091 CNP 2,3-cyclic-nucleotide 3-

phosphodiesterase

C098R105 ITGB1BP3 integrin beta 1 binding pro-

tein 3

C122R043 SRSF6 splicing factor,

arginine/serine-rich 6

C057R097 PUF60 fuse-binding protein-

interacting repressor

C061R030 SEC11A signal peptidase complex cat-

alytic subunit sec11a

C093R009 PSMC4 proteasome (prosome,

macropain) 26s subunit,

atpase, 4

C123R098

161 Probe Gene Symbol Gene.Description

C243R024 EIF1B eukaryotic translation initia-

tion factor 1b

C088R130 EEF1B2 eukaryotic translation elonga-

tion factor 1 beta 2

C073R095 DNAJC7 dnaj (hsp40) homolog, sub-

family c, member 7

C018R111 PSMC4 proteasome (prosome,

macropain) 26s subunit,

atpase, 4

C083R022 ITM2C integral membrane protein 2c

C075R079 SF3A1 splicing factor 3a, subunit 1,

120kda

C086R089 COX5A cytochrome c oxidase, subunit

va

C111R151 HMGB3 high-mobility group box 3

C046R067 SEC11A signal peptidase complex cat-

alytic subunit sec11a

C010R151 ZGC:86706 zgc:86706

C008R085

C264R080

C264R046 NOP10 h/aca ribonucleoprotein com-

plex subunit 3

162 Probe Gene Symbol Gene.Description

C035R092 RAB1A rab1a, member ras oncogene

family

C062R098

C102R142 ITGB1BP3 integrin beta 1 binding pro-

tein 3

C007R118 ZNF576 zinc finger protein 576

C039R111 NOLA1 nucleolar protein family a,

member 1 (h/aca small nucle-

olar rnps)

C067R007 LOC100047658|EIF5 eukaryotic translation initia-

tion factor 5|eukaryotic trans-

lation initiation factor 5

C070R035 UQCRC1 ubiquinol-cytochrome c re-

ductase core protein 1

C218R034 OAZ2A ornithine decarboxylase an-

tizyme 2

C129R084 PPARD peroxisome proliferative acti-

vated receptor, delta

C084R022 SSR4 signal sequence receptor,

delta

C194R116 EIF3D eukaryotic translation initia-

tion factor 3, subunit 7 (zeta)

163 Probe Gene Symbol Gene.Description

C247R107 PSMA1 proteasome (prosome,

macropain) subunit, alpha

type, 1

C155R162 BRP44L brain protein 44-like

C145R117 EDF1 endothelial differentiation-

related factor 1

C106R118 TMEM14C transmembrane protein 14c

C129R163

C237R169 PA2G4 proliferation-associated 2g4

C130R096

C180R106 LOC396473 myristoylated alanine-rich c

kinase substrate (marcks)

C079R009

C155R122

C212R155 PSMC3 proteasome (prosome,

macropain) 26s subunit,

atpase 3

C165R160 RPL22L1 ribosomal protein l22 like 1

C138R119 SEC11A signal peptidase complex cat-

alytic subunit sec11a

C228R107

164 Probe Gene Symbol Gene.Description

C188R040 PSMD8 proteasome (prosome,

macropain) 26s subunit,

non-atpase, 8

C148R163 SEC11A signal peptidase complex cat-

alytic subunit sec11a

C144R137 OLA1 gtp-binding protein ptd004

C015R166 HSP90AB1 heat shock protein 90-beta

C020R123 NDFIP1L nedd4 family-interacting pro-

tein 1

C252R159 ITGB1BP3 integrin beta 1 binding pro-

tein 3

C031R014 FKBP3 similar to fk506-binding pro-

tein 3 (peptidyl-prolyl cis-

trans isomerase) (ppiase) (ro-

tamase) (25 kda fkbp) (fkbp-

25) (rapamycin-selective 25

kda immunophilin)

C105R137

C099R036 RPL10 ribosomal protein l10

C047R088 CCT4 t-complex protein 1 subunit

delta

C159R043

C210R118 RPL37A-PS1 60s ribosomal protein l37a

165 Probe Gene Symbol Gene.Description

C100R032

C217R083

C186R028 FKBP2 fk506 binding protein 2

C199R105

C231R063

C049R046

C140R016 TUBB2C tubulin, beta 2c

C168R026 ZGC:109953 zgc:109953

C218R157 TUBA4A tubulin, alpha 4

C185R145 NDUFB6 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 6, 17kda

C213R066 NDUFB6 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 6, 17kda

C131R027 IST1 uncharacterized protein

kiaa0174 homolog

C077R158 RPL10 ribosomal protein l10

C156R075 ND4 nadh dehydrogenase subunit 4

C039R154

C161R041 OLA1 gtp-binding protein ptd004

C108R156 ZGC:123180 upf0446 protein c12orf31 ho-

molog

166 Probe Gene Symbol Gene.Description

C234R036 SERP1 stress-associated endoplasmic

reticulum protein 1

C135R121 RPL7L1 ribosomal protein l7-like 1

C200R080 OLA1 gtp-binding protein ptd004

C224R074 EEF1B2 eukaryotic translation elonga-

tion factor 1 beta 2

C096R163 NDUFB6 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 6, 17kda

C002R133

C163R051 H3F3B h3 histone, family 3b

C057R094 EDF1 endothelial differentiation-

related factor 1

C174R051 UQCR11 cytochrome b-c1 complex sub-

unit 10

C137R022 PSMA3 proteasome alpha 3 subunit

isoform 1

C060R095 EIF3D eukaryotic translation initia-

tion factor 3, subunit 7 (zeta)

C072R141 PHB2 prohibitin 2

C026R066 PSMA6 proteasome (prosome,

macropain) subunit, alpha

type 6

167 Probe Gene Symbol Gene.Description

C115R073 CUTA protein cuta homolog precur-

sor

C073R160

C115R047 AHSA1 aha1, activator of heat shock

90kda protein atpase homolog

1 (yeast)

C146R138

C220R090 EIF2S1 eukaryotic translation initia-

tion factor 2, subunit 1 alpha

C201R008 NDUFA8 nadh dehydrogenase

(ubiquinone) 1 alpha subcom-

plex, 8

C263R146 ATP6V1G1 vacuolar proton pump subunit

g 1

C181R082 COL6A3 collagen, type vi, alpha 3

C122R151 NDUFS1 nadh dehydrogenase

(ubiquinone) fe-s protein

1, 75kda (nadh-coenzyme q

reductase)

C237R140 SRSF3 splicing factor,

arginine/serine-rich 3

168 Probe Gene Symbol Gene.Description

C100R003 SAMM50 sorting and assembly machin-

ery component 50 homolog (s.

cerevisiae)

C209R029

C196R003

C118R072 EIF3D eukaryotic translation initia-

tion factor 3, subunit 7 (zeta)

C045R137 DDT d-dopachrome tautomerase

C263R085 ARF5 adp-ribosylation factor 1

C135R026 LAMP2 lysosomal membrane glyco-

protein 2

C094R113 RPL5 ribosomal protein l5

C048R126 TUBB2C tubulin, beta 2c

C026R156 UBR5 e3 ubiquitin protein ligase,

hect domain containing, 1

C026R108

C119R074

C250R109 UQCRC1 ubiquinol-cytochrome c re-

ductase core protein 1

C040R039 SUB1 sub1 homolog (s. cerevisiae)

C010R080 CCNI cyclin i

C223R158

C122R169

169 Probe Gene Symbol Gene.Description

C227R167 EDF1 endothelial differentiation-

related factor 1

C176R148 NPM1 nucleophosmin

C001R106 CD81 cd 81 antigen

C168R080

C146R120 CALU calumenin

C234R006 MED13 mediator of rna polymerase ii

transcription subunit 13

C127R155 MYL9 myosin, light polypeptide 9,

regulatory

C125R027 TXNL1 thioredoxin-like 1

C098R094

C007R059 RPL37A-PS1 60s ribosomal protein l37a

C243R094

C054R109 EIF3D eukaryotic translation initia-

tion factor 3, subunit 7 (zeta)

C083R030

C067R022 SUB1 sub1 homolog (s. cerevisiae)

C119R091 UBE2I ubiquitin-conjugating enzyme

e2i

C238R074

C174R128

170 Probe Gene Symbol Gene.Description

C262R133 NDUFS2 nadh dehydrogenase

(ubiquinone) fe-s protein

2, 49kda (nadh-coenzyme q

reductase)

C105R062 EIF3G eukaryotic translation initia-

tion factor 3, subunit 4 delta,

44kda

C018R105 METAP2 methionine aminopeptidase 2

C256R019

C029R125 ZNF135 zinc finger protein 135 (clone

phz-17)

C164R057 SMAP1 stromal membrane-associated

protein 1

C162R122

C031R046

C171R168 NDFIP1L nedd4 family-interacting pro-

tein 1

C114R017 PFN2 profilin 2

C220R016 VPS29 vacuolar protein sorting 29 (s.

pombe)

C031R055

171 Probe Gene Symbol Gene.Description

C100R151 PSMD8 proteasome (prosome,

macropain) 26s subunit,

non-atpase, 8

C053R169 UQCR11 cytochrome b-c1 complex sub-

unit 10

C017R158 TXNL1 thioredoxin-like 1

C056R029 RAB1A rab1a, member ras oncogene

family

C261R081

C153R165 IRF2BP2B interferon regulatory factor 2-

binding protein 2-a

C254R016 SRSF2 splicing factor,

arginine/serine-rich 2

C263R142

C221R156

C241R050 ID1 inhibitor of dna binding 1,

dominant negative helix-loop-

helix protein

C228R158

C244R062

C088R003

C172R080 TOMM6 overexpressed breast tumor

protein homolog

172 Probe Gene Symbol Gene.Description

C192R162 MGST3 microsomal glutathione

s-transferase 3

C016R084 SEC11A signal peptidase complex cat-

alytic subunit sec11a

C134R064 SEC11A signal peptidase complex cat-

alytic subunit sec11a

C163R130 PTGES3 prostaglandin e synthase 3

(cytosolic)

C138R051

C182R063 SSR4 signal sequence receptor,

delta

C022R072 UBFD1 dna segment, chr 7, wayne

state university 128, ex-

pressed

C217R007

C230R162 CFL2 cofilin 2, muscle

C158R164

C058R056

C131R001 LARK rna-binding protein 4

C088R109

C034R048 KLHDC4 kelch domain-containing pro-

tein 4

C118R070 HABP4 hyaluronan binding protein 4

173 Probe Gene Symbol Gene.Description

C063R153

C234R155 LAMTOR3 mitogen-activated protein ki-

nase kinase 1-interacting pro-

tein 1

C023R052 HAGH hydroxyacylglutathione hy-

drolase

C232R155 H1FX h1 histone family, member x

C229R134 PSMB7 proteasome (prosome,

macropain) subunit, beta

type 7

C252R078 DSC2 desmocollin-2 precursor

C143R059 NACA nascent-polypeptide-

associated complex alpha

polypeptide

C245R087

C229R161

C113R081 MYL12A myosin regulatory light chain

2, smooth muscle isoform

C026R161

C010R074 PSMD9 proteasome (prosome,

macropain) 26s subunit,

non-atpase, 9

174 Probe Gene Symbol Gene.Description

C057R056 UQCR11 cytochrome b-c1 complex sub-

unit 10

C005R138 SELT2 selenoprotein t2 precursor

C210R111 EIF3CL eukaryotic translation initia-

tion factor 3 subunit c

C128R060 GSTO1 glutathione s-transferase

omega 1

C108R162

C231R070 ATP5H atp synthase, h+ transport-

ing, mitochondrial f0 com-

plex, subunit d

C168R118

C219R106 PSMD1 proteasome (prosome,

macropain) 26s subunit,

non-atpase, 1

C124R096 GSTO1 glutathione s-transferase

omega 1

C044R080 IPO7 importin 7

C154R039 SMS spermine synthase

C055R019 TMEM33 transmembrane protein 33

C111R015 EEF1B2 eukaryotic translation elonga-

tion factor 1 beta 2

C243R054

175 Probe Gene Symbol Gene.Description

C022R048 MATR3 matrin 3

C026R147

C168R032 SERF2 small edrk-rich factor 2

C168R136 OAZ2A ornithine decarboxylase an-

tizyme 2

C075R132 SRP54B|SRP54A signal recognition particle 54

kda protein|signal recognition

particle 54

C112R072

C013R133 HSP90B1 tumor rejection antigen

(gp96) 1

C024R115 EEF1B2 eukaryotic translation elonga-

tion factor 1 beta 2

C071R031

C152R125 MYEF2 myelin expression factor 2

C024R057 SERPINB1 serpin peptidase inhibitor,

clade b (ovalbumin), member

1

C006R075 HAGH hydroxyacylglutathione hy-

drolase

C239R098

C119R046 IDH3A isocitrate dehydrogenase 3

(nad+) alpha

176 Probe Gene Symbol Gene.Description

C255R150

C006R016 SERP1 stress-associated endoplasmic

reticulum protein 1

C093R036

C091R061

C132R167 UBE2I ubiquitin-conjugating enzyme

e2i

C119R083

C240R024 UBFD1 dna segment, chr 7, wayne

state university 128, ex-

pressed

C213R106

C066R085 PPIB peptidylprolyl isomerase b

(cyclophilin b)

C073R142 AZIN1 antizyme inhibitor 1

C113R145 SUB1 sub1 homolog (s. cerevisiae)

C044R157 CHST12 carbohydrate sulfotransferase

12

C234R159

C220R100 UQCR11 cytochrome b-c1 complex sub-

unit 10

C093R141 TUBA1C tubulin, alpha 1 (testis spe-

cific)

177 Probe Gene Symbol Gene.Description

C216R116 MAGI2 membrane associated guany-

late kinase, ww and pdz do-

main containing 2

C264R093 EEF1D eukaryotic translation elonga-

tion factor 1 delta (guanine

nucleotide exchange protein)

C107R011 NARS asparaginyl-trna synthetase

C133R075 ITGB1BP3 integrin beta 1 binding pro-

tein 3

C086R114 STAMBPA stam-binding protein-like

C042R058 COX6B1 riken cdna 2010000g05 gene

C116R147 GSTM3 glutathione s-transferase m3

(brain)

C079R161 RCC2 protein rcc2 homolog

C213R030 EIF3G eukaryotic translation initia-

tion factor 3, subunit 4 delta,

44kda

C051R157 RPS27 ribosomal protein s27

C055R118 EIF3D eukaryotic translation initia-

tion factor 3, subunit 7 (zeta)

C110R161

C013R044 RDBP zgc:92496

C262R127 SERINC1 serine incorporator 1

178 Probe Gene Symbol Gene.Description

C119R067 RPL10 ribosomal protein l10

C130R100 CCT4 t-complex protein 1 subunit

delta

C110R155 PFDN1 prefoldin subunit 1

C071R145 EIF3H eukaryotic translation initi-

ation factor 3, subunit 3

gamma, 40kda

C084R027 BRP44L brain protein 44-like

C016R047 SNRPD2 small nuclear ribonucleopro-

tein d2 polypeptide 16.5kda

C231R151 RPL10 ribosomal protein l10

C247R004

C191R018 H2AFZ histone h2a.z

C206R132 SEC11A signal peptidase complex cat-

alytic subunit sec11a

C083R008

C192R036

C106R015

C028R046 SUB1 sub1 homolog (s. cerevisiae)

C244R150 XBP1 x-box binding protein 1

C239R001

C048R092 BIRC6 baculoviral iap repeat-

containing 6 (apollon)

179 Probe Gene Symbol Gene.Description

C210R084 AHCY-B adenosylhomocysteinase b

C101R055 PHB prohibitin

C219R008 RPL10 ribosomal protein l10

C126R155

C168R121 PPA1 pyrophosphatase (inorganic)

1

C194R095

C161R080

C226R143 PSMD9 proteasome (prosome,

macropain) 26s subunit,

non-atpase, 9

C258R106 TIAL1 tia1 cytotoxic granule-

associated rna binding

protein-like 1

C234R097

C049R102

C233R028 PCBD1 pterin 4 alpha carbinolamine

dehydratase/dimerization co-

factor of hepatocyte nuclear

factor 1 alpha (tcf1) 1

C030R003 NDFIP1L nedd4 family-interacting pro-

tein 1

C116R096 RPL22L1 ribosomal protein l22 like 1

180 Probe Gene Symbol Gene.Description

C042R130

C244R028 RPL10 ribosomal protein l10

C028R096

C109R039 USMG5 upregulated during skeletal

muscle growth 5 homolog

(mouse)

C003R063

C196R166

C191R124 DRG1 developmentally-regulated

gtp-binding protein 1

C087R082 MGST3 microsomal glutathione

s-transferase 3

C061R046 LAPTM4A lysosomal-associated trans-

membrane protein 4a

C045R135 COX7A2L cytochrome c oxidase subunit

viia polypeptide 2 like

C127R132 RPL10 ribosomal protein l10

C027R063 CCT6A chaperonin containing tcp1,

subunit 6a (zeta 1)

C056R135 RPS3 ribosomal protein s3

C180R137 MORF4L1 mortality factor 4 like 1

C012R026 MFN2 mitofusin 2

181 Probe Gene Symbol Gene.Description

C162R106 FAM199X uncharacterized protein cx-

orf39 homolog

C036R042 ARPC2 actin related protein 2/3 com-

plex, subunit 2, 34kda

C183R003 CHST12 carbohydrate sulfotransferase

12

C051R086 PSMC4 proteasome (prosome,

macropain) 26s subunit,

atpase, 4

C116R052

C073R046 CCT6A chaperonin containing tcp1,

subunit 6a (zeta 1)

C115R011

C030R039

C188R027

C018R084 BRP44L brain protein 44-like

C040R096

C038R121

C050R035 SELT2 selenoprotein t2 precursor

C121R128 TUBA1C tubulin, alpha 1 (testis spe-

cific)

C213R118 ECU02 0740I ubiquitin precursor

C007R160 PFN2 profilin 2

182 Probe Gene Symbol Gene.Description

C004R156 PSMA5 proteasome (prosome,

macropain) subunit, alpha

type 5

C044R015 HSP90B1 tumor rejection antigen

(gp96) 1

C072R039

C135R094 ATP6V0C atpase, h+ transporting, lyso-

somal 16kda, v0 subunit c

C199R155 SAP18 sin3-associated polypeptide,

18kda

C201R115

C221R144 COX7A2 cytochrome c oxidase, subunit

viia 2

C052R011

C244R085

C189R102 EIF3E eukaryotic translation initia-

tion factor 3 subunit e

C124R017 COX7A2L cytochrome c oxidase subunit

viia polypeptide 2 like

C091R129 SNRPD2 small nuclear ribonucleopro-

tein d2 polypeptide 16.5kda

C140R079 ACADM acetyl-coenzyme a dehydroge-

nase, medium chain

183 Probe Gene Symbol Gene.Description

C041R034 HARS histidyl-trna synthetase

C065R024 PDIA6 protein disulfide isomerase as-

sociated 6

C088R071 SEC61B sec61 beta subunit

C227R059 HIST2H2AB histone h2a.x

C157R085 AKR1B1 aldo-keto reductase family 1,

member b1 (aldose reductase)

C106R013 EWSR1 ewing sarcoma breakpoint re-

gion 1

C255R075 SEC11A signal peptidase complex cat-

alytic subunit sec11a

C096R155

C030R132 RPL19-A ribosomal protein l19

C098R017 GTF2H5 general transcription factor

iih subunit 5

C175R105 CUL1 cullin 1

C031R152 COX7A2L cytochrome c oxidase subunit

viia polypeptide 2 like

C266R104

C234R125 UBE2D4 ubiquitin-conjugating enzyme

e2d 4 (putative)

C177R091 CUTA protein cuta homolog precur-

sor

184 Probe Gene Symbol Gene.Description

C175R060 SF4 splicing factor 4

C189R049 NDUFS4 nadh dehydrogenase

(ubiquinone) fe-s protein

4

C117R155

C238R108 HAGH hydroxyacylglutathione hy-

drolase

C086R126 ZNF345 zinc finger protein 345

C006R145 ATP5C1 atp synthase, h+ transport-

ing, mitochondrial f1 com-

plex, gamma polypeptide 1

C231R083 NDFIP2 nedd4 family interacting pro-

tein 2

C163R103

C224R161 NPC2 niemann-pick disease, type c2

C111R141 RPL10 ribosomal protein l10

C194R062 NDUFS1 nadh dehydrogenase

(ubiquinone) fe-s protein

1, 75kda (nadh-coenzyme q

reductase)

C129R139

C193R153

C018R070 XRCC4 dna-repair protein xrcc4

185 Probe Gene Symbol Gene.Description

C084R033 OLA1 gtp-binding protein ptd004

C233R121

C216R103 MDH1 malate dehydrogenase 1, nad

(soluble)

C098R083

C134R137 CD63 cd63 antigen

C146R019

C202R159

C177R139

C241R026 CIRBP cold inducible rna binding

protein

C115R114

C187R088 GPX1 glutathione peroxidase 1

C261R100 DDX19A atp-dependent rna helicase

ddx19a

C106R071 MYL12A myosin regulatory light chain

2, smooth muscle isoform

C187R160 HSP90B1 tumor rejection antigen

(gp96) 1

C229R016 MYL12A myosin regulatory light chain

2, smooth muscle isoform

C085R030 MSRA methionine sulfoxide reduc-

tase a

186 Probe Gene Symbol Gene.Description

C161R068 MFSD3 major facilitator superfamily

domain-containing protein 3

C179R058 WBP2 ww domain binding protein 2

C254R051 GSTO1 glutathione s-transferase

omega 1

C089R089 EIF3E eukaryotic translation initia-

tion factor 3 subunit e

C194R126

C235R168

C210R055 NDFIP1L nedd4 family-interacting pro-

tein 1

C015R098 ATP5D atp synthase, h+ transport-

ing, mitochondrial f1 com-

plex, delta subunit

C063R124 NPC2 niemann-pick disease, type c2

C112R092 GNB2L1 guanine nucleotide binding

protein (g protein), beta

polypeptide 2-like 1

C052R149 RPL10 ribosomal protein l10

C215R149 UQCRC1 ubiquinol-cytochrome c re-

ductase core protein 1

C099R045 TSPAN14 tetraspanin 14

187 Probe Gene Symbol Gene.Description

C225R108 PTBP1 polypyrimidine tract-binding

protein 1

C067R112 BRP44L brain protein 44-like

C175R054 SAP18 sin3-associated polypeptide,

18kda

C116R161

C133R048 EIF3M zgc:63996

C117R104

C200R090 PECI peroxisomal d3,d2-enoyl-coa

isomerase

C129R078 HSP90B1 tumor rejection antigen

(gp96) 1

C088R167

C077R145 GIMAP7 gtpase, imap family member 7

C241R029 NACA nascent-polypeptide-

associated complex alpha

polypeptide

C176R160

C212R008 STRAP serine/threonine kinase recep-

tor associated protein

C103R003

C235R170

188 Probe Gene Symbol Gene.Description

C101R101 EIF3D eukaryotic translation initia-

tion factor 3, subunit 7 (zeta)

C167R130

C249R032 COX5A cytochrome c oxidase, subunit

va

C195R107 RPN2 ribophorin ii

C086R087

C109R021

C027R070 HEBP2 heme binding protein 2

C133R073 ITGB1 integrin beta-1 precursor

C030R022

C186R008 PSMC4 proteasome (prosome,

macropain) 26s subunit,

atpase, 4

C011R014

C163R068 SAP18 sin3-associated polypeptide,

18kda

C115R041

C030R137

C256R066 SEC61AL1 protein transport protein

sec61 subunit alpha isoform a

C067R149 SAP18 sin3-associated polypeptide,

18kda

189 Probe Gene Symbol Gene.Description

C067R034

C230R155

C122R057 ATP6V0C atpase, h+ transporting, lyso-

somal 16kda, v0 subunit c

C091R084 BRP44L brain protein 44-like

C252R007 GOT1 glutamic-oxaloacetic

transaminase 1, soluble

(aspartate aminotransferase

1)

C130R076 GSTO1 glutathione s-transferase

omega 1

C226R053 BRP44L brain protein 44-like

C112R096 TOP1 topoisomerase (dna) i

C048R012 ANXA11 annexin a11

C077R144 ATP5C1 atp synthase, h+ transport-

ing, mitochondrial f1 com-

plex, gamma polypeptide 1

C265R029 RPL19-A ribosomal protein l19

C207R084

C125R062 RBBP6 retinoblastoma binding pro-

tein 6

C074R158

190 Probe Gene Symbol Gene.Description

C078R158 KRTCAP2 keratinocyte associated pro-

tein 2

C174R030

C164R023

C230R151 COX7A2L cytochrome c oxidase subunit

viia polypeptide 2 like

C129R015 ANXA5 annexin a5

C116R037 PSMD9 proteasome (prosome,

macropain) 26s subunit,

non-atpase, 9

C244R161 SEC61B sec61 beta subunit

C232R156 DHX15 deah (asp-glu-ala-his) box

polypeptide 15

C264R081

C263R074

C153R135

C108R103 HNRNPA0 heterogeneous nuclear ribonu-

cleoprotein a0

C121R154 SEC61B sec61 beta subunit

C194R149 BRP44L brain protein 44-like

C035R037

C150R137

C136R156

191 Probe Gene Symbol Gene.Description

C050R114

C031R159

C088R151 COL6A1 procollagen, type vi, alpha 1

C259R145 UQCR11 cytochrome b-c1 complex sub-

unit 10

C019R051 UBE2D4 ubiquitin-conjugating enzyme

e2d 4 (putative)

C087R071 TALDO1 transaldolase 1

C058R067 TAF10 taf10 rna polymerase ii, tata

box binding protein (tbp)-

associated factor, 30kda

C261R051 SET set translocation

C053R107 SEC61B sec61 beta subunit

C131R018

C047R170 H1F0 h1 histone family, member 0

C240R056 MYL12A myosin regulatory light chain

2, smooth muscle isoform

C162R016 BNIP3L bcl2/adenovirus e1b 19kda in-

teracting protein 3-like

C019R056 COL6A3 collagen, type vi, alpha 3

C028R113

C189R074 UBE2D4 ubiquitin-conjugating enzyme

e2d 4 (putative)

192 Probe Gene Symbol Gene.Description

C116R087

C217R033 CD63 cd63 antigen

C054R155 HADH l-3-hydroxyacyl-coenzyme a

dehydrogenase, short chain

C180R069 NDUFB10 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 10, 22kda

C114R069 ATP5C1 atp synthase, h+ transport-

ing, mitochondrial f1 com-

plex, gamma polypeptide 1

C065R021

C162R125 HSP90B1 tumor rejection antigen

(gp96) 1

C232R147

C038R101

C203R031 TUBA4A tubulin, alpha 4

C207R034 TPT1 tumor protein,

translationally-controlled

1

C094R136 BRP44L brain protein 44-like

C117R158 BRP44L brain protein 44-like

C126R116 TSPAN14 tetraspanin 14

193 Probe Gene Symbol Gene.Description

C255R107 UBE2D4 ubiquitin-conjugating enzyme

e2d 4 (putative)

C143R125 STK17A serine/threonine kinase 17a

(apoptosis-inducing)

C043R042

C078R136 RB1CC1 rb1-inducible coiled-coil 1

C131R047 HADH l-3-hydroxyacyl-coenzyme a

dehydrogenase, short chain

C142R118 BRP44L brain protein 44-like

C256R116

C026R129

C124R053

C037R135

C090R148 TUBB2C tubulin, beta 2c

C194R105 ARPC3 actin related protein 2/3 com-

plex, subunit 3, 21kda

C181R114 HNRNPAB heterogeneous nuclear ribonu-

cleoprotein a/b

C075R067 RAB10 ras-related protein rab-10

C176R107 PHB2 prohibitin 2

C059R156 ADAM8 adam metallopeptidase do-

main 8

194 Probe Gene Symbol Gene.Description

C046R098 NAA15 nmda receptor-regulated pro-

tein 1

C094R079

C181R033

C260R063 HADHA hydroxyacyl-coenzyme a

dehydrogenase/3-ketoacyl-

coenzyme a thiolase/enoyl-

coenzyme a hydratase (tri-

functional protein), alpha

subunit

C238R051 GHITM growth hormone inducible

transmembrane protein

C066R015

C165R159 TPT1 tumor protein,

translationally-controlled

1

C264R017

C007R083 HSC70 heat shock cognate 71 kda

protein

C237R136 ATP6V0C atpase, h+ transporting, lyso-

somal 16kda, v0 subunit c

C027R016

C166R079 CD63 cd63 antigen

195 Probe Gene Symbol Gene.Description

C233R032 ITM2B integral membrane protein 2b

C215R056 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C251R078 GLUL glutamate-ammonia ligase

(glutamine synthetase)

C057R098

C005R151

C196R123

C191R106

C011R118

C206R045 NPC2 niemann-pick disease, type c2

C200R094

C029R124 ATOX1 copper transport protein

atox1

C048R155

C095R042

C037R168

C241R146 NFKBIE nuclear factor of kappa light

polypeptide gene enhancer in

b-cells inhibitor, epsilon

C200R065 TRIP12 thyroid hormone receptor in-

teractor 12

C192R106 LACZ beta-galactosidase

196 Probe Gene Symbol Gene.Description

C063R126

C150R045 CD63 cd63 antigen

C102R100 PDIA6 protein disulfide isomerase as-

sociated 6

C010R027 SI:CH211-216L23.1 zinc finger protein 423

C169R072 GHITM growth hormone inducible

transmembrane protein

C115R013

C081R167 RPS3 ribosomal protein s3

C203R047

C187R075 PTGES3 prostaglandin e synthase 3

(cytosolic)

C009R049 PTPN23 tyrosine-protein phosphatase

non-receptor type 23

C097R022 TPT1 tumor protein,

translationally-controlled

1

C014R020 H1F0 h1 histone family, member 0

C094R008 NDUFB10 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 10, 22kda

C173R165 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

197 Probe Gene Symbol Gene.Description

C042R109

C081R059 PMP22 peripheral myelin protein 22

C200R050 TPT1 tumor protein,

translationally-controlled

1

C055R002 SYNCRIP ns1-associated protein 1-like

C025R073 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C156R021 BRP44L brain protein 44-like

C192R037

C228R139 SI:CH211-132P20.4 sodium-coupled neutral

amino acid transporter 2

C167R091 TPT1 tumor protein,

translationally-controlled

1

C262R043 BRP44L brain protein 44-like

C179R003 SAFB2 scaffold attachment factor b2

C047R025 CTNND1 catenin (cadherin-associated

protein), delta 1

C258R049 HNRPK heterogeneous nuclear ribonu-

cleoprotein k

C242R092 BRP44L brain protein 44-like

198 Probe Gene Symbol Gene.Description

C106R109 MMADHC uncharacterized protein

c2orf25, mitochondrial pre-

cursor

C207R142 SET set translocation

C009R055 PLAC8L1 plac8-like protein 1

C069R078 KRTCAP2 keratinocyte associated pro-

tein 2

C006R020 ITM2B integral membrane protein 2b

C245R007 RPL37A-PS1 60s ribosomal protein l37a

C245R130 PCOLCE procollagen c-proteinase en-

hancer protein

C055R097

C127R038 EIF3D eukaryotic translation initia-

tion factor 3, subunit 7 (zeta)

C101R006 HAGH hydroxyacylglutathione hy-

drolase

C178R012 ECM1 extracellular matrix protein 1

C218R155 SNRPD2 small nuclear ribonucleopro-

tein d2 polypeptide 16.5kda

C216R079 SET set translocation

C118R104 EIF4E3 eukaryotic translation initia-

tion factor 4e type 3

C102R083

199 Probe Gene Symbol Gene.Description

C057R157

C207R030 BRP44L brain protein 44-like

C061R101 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C115R059

C185R096 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C258R094 DBI diazepam binding inhibitor

(gaba receptor modulator,

acyl-coenzyme a binding

protein)

C245R018 ARPC1B actin related protein 2/3 com-

plex, subunit 1b, 41kda

C020R029 ANKHD1 ankyrin repeat and kh domain

containing 1

C029R039 QARS glutaminyl-trna synthetase

C162R051

C151R041

C040R141 PHTF1 putative homeodomain tran-

scription factor 1

C089R054

C121R019

200 Probe Gene Symbol Gene.Description

C202R103 HUWE1 hect, uba and wwe domain

containing 1

C006R027 NPC2 niemann-pick disease, type c2

C154R005

C087R037 cnot1 ccr4-not transcription com-

plex, subunit 1

C112R017 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C080R040

C011R010 ZNF470 flj26175 protein

C242R058 PPDPF upf0362 protein c20orf149 ho-

molog

C173R070 YTHDC1 yth domain-containing pro-

tein 1

C177R093 VCP valosin-containing protein

C059R107 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C177R005 ATP5G3 atp synthase, h+ transport-

ing, mitochondrial f0 com-

plex, subunit c (subunit 9)

isoform 3

C236R130

201 Probe Gene Symbol Gene.Description

C018R038 GGH gamma-glutamyl hydrolase

(conjugase, folylpolygam-

maglutamyl hydrolase)

C154R099 PGD phosphogluconate dehydroge-

nase

C202R055 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C064R169 SERINC1 serine incorporator 1

C115R101

C117R046 ATP5C1 atp synthase, h+ transport-

ing, mitochondrial f1 com-

plex, gamma polypeptide 1

C237R126 Cotl1 coactosin-like 1 (dic-

tyostelium)

C226R107

C006R065 ABCF2 atp-binding cassette, sub-

family f (gcn20), member

2

C060R080 W07G4.4 putative aminopeptidase

w07g4.4 in chromosome v

C120R110 ARPC3 actin related protein 2/3 com-

plex, subunit 3, 21kda

202 Probe Gene Symbol Gene.Description

C215R055 EARS2 probable glutamyl-trna syn-

thetase, mitochondrial pre-

cursor

C235R130 TUBB2C tubulin, beta 2c

C171R084

C183R103 SBCC dna double-strand break re-

pair rad50 atpase

C129R079

C141R129 SF3B5 splicing factor 3b, subunit 5,

10kda

C119R146

C210R126

C015R073

C088R077

C253R125 CNBP similar to cellular nucleic acid

binding protein 1

C122R061

C221R094

C031R072

C037R170 ETFA electron-transfer-flavoprotein,

alpha polypeptide (glutaric

aciduria ii)

C183R051 CRIP cysteine-rich protein 1

203 Probe Gene Symbol Gene.Description

C171R046 SRSF2 splicing factor,

arginine/serine-rich 2

C109R050

C210R034 RBM17 rna binding motif protein 17

C162R065 NPC2 niemann-pick disease, type c2

C218R035 TPRX1 tetra-peptide repeat home-

obox protein 1

C118R136 CD63 cd63 antigen

C074R075 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C148R102

C232R032 NACA nascent-polypeptide-

associated complex alpha

polypeptide

C243R047 ITM2B integral membrane protein 2b

C036R065 ITGB1BP3 integrin beta 1 binding pro-

tein 3

C037R080

C080R015 REEP5 receptor accessory protein 5

C003R039 ETFA electron-transfer-flavoprotein,

alpha polypeptide (glutaric

aciduria ii)

C214R039

204 Probe Gene Symbol Gene.Description

C121R090 EIF4G2 eukaryotic translation initia-

tion factor 4 gamma, 2

C126R075 TPT1 tumor protein,

translationally-controlled

1

C016R113 NDUFB5 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 5, 16kda

C230R070

C082R126

C191R164

C124R083 RPLP0 ribosomal protein, large, p0

C125R048

C057R066 LOC420557 protein fam133

C030R110

C243R089

C086R090 TPT1 tumor protein,

translationally-controlled

1

C144R006 CTSF cathepsin f

C125R125 EIF4E eif-4e protein

205 Probe Gene Symbol Gene.Description

C092R123 NDUFB5 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 5, 16kda

C164R116

C116R071 CAMK2G calcium/calmodulin-

dependent protein kinase

ii gamma

C234R004

C244R160 NAP1L1|LOC540136 nucleosome assembly protein

1-like 1|nucleosome assembly

protein 1-like 1

C062R114 TUBA1A tubulin, alpha 1

C099R125

C086R091 ITGB1 integrin beta-1 precursor

C006R125 EIF3K eukaryotic translation initia-

tion factor 3 subunit k

C208R002 ARPC3 actin related protein 2/3 com-

plex, subunit 3, 21kda

C052R159 SEPW1 selenoprotein w, 1

C261R101

C216R015

C010R035

C068R025 TUBB2C tubulin, beta 2c

206 Probe Gene Symbol Gene.Description

C254R012 NPC2 niemann-pick disease, type c2

C165R136 SPARC secreted protein, acidic,

cysteine-rich [osteonectin]

C155R164 SEPW1 selenoprotein w, 1

C179R169 TPT1 tumor protein,

translationally-controlled

1

C065R132 MTR methionine synthase

C204R162 TPT1 tumor protein,

translationally-controlled

1

C031R098

C010R065 NHP2L1-A nhp2-like protein 1

C247R073

C021R027 H1F0 h1 histone family, member 0

C025R024

C115R104 TPP2 tripeptidyl peptidase ii

C016R163 ATP5A1 atp synthase, h+ transport-

ing, mitochondrial f1 com-

plex, alpha subunit, isoform 1

C128R033 March7 membrane-associated ring fin-

ger (c3hc4) 7

C036R054 TUBA1A tubulin, alpha 1

207 Probe Gene Symbol Gene.Description

C192R059

C250R044

C095R065 NDUFB7 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 7, 18kda

C095R170

C155R110 BTN1A1 butyrophilin, subfamily 1,

member a1

C253R063

C083R113 ATPIF1 atpase inhibitor precursor

C256R031 RNF111 ring finger 111

C124R012

C070R078 REEP5 receptor accessory protein 5

C262R024 EIF3D eukaryotic translation initia-

tion factor 3, subunit 7 (zeta)

C251R054 W07G4.4 putative aminopeptidase

w07g4.4 in chromosome v

C109R136

C160R035 HSPA5 heat shock 70kda protein

5 (glucose-regulated protein,

78kda)

C075R026 ATPIF1 atpase inhibitor precursor

C059R056 HECTD1 hect domain containing 1

208 Probe Gene Symbol Gene.Description

C258R041 NDUFB5 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 5, 16kda

C126R097 Hspd1 chaperonin

C084R081 LOC540136|NAP1L1 nucleosome assembly protein

1-like 1|nucleosome assembly

protein 1-like 1

C044R152

C094R069

C158R059

C028R155 SEC61B sec61 beta subunit

C088R119 W07G4.4 putative aminopeptidase

w07g4.4 in chromosome v

C146R059

C026R028 CEBPD ccaat/enhancer binding pro-

tein (c/ebp), delta

C137R006

C127R106 NDUFB7 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 7, 18kda

C062R036 REEP5 receptor accessory protein 5

C212R066

C234R127 ATPIF1 atpase inhibitor precursor

209 Probe Gene Symbol Gene.Description

C108R035 PYGL glycogen phosphorylase, liver

form

C143R168 LOC540136|NAP1L1 nucleosome assembly protein

1-like 1|nucleosome assembly

protein 1-like 1

C204R093

C047R142

C046R030 ST6GALNAC5 alpha-n-

acetylgalactosaminide alpha-

2,6-sialyltransferase 5

C107R130 CIRBP cold inducible rna binding

protein

C204R039 TOB1 transducer of erbb2, 1

C223R124

C245R139 SERBP1 serpine1 mrna binding protein

1

C258R033 NDUFB5 nadh dehydrogenase

(ubiquinone) 1 beta sub-

complex, 5, 16kda

C037R094

C151R081 RPL19-A ribosomal protein l19

C115R025 MYCBP2 probable e3 ubiquitin-protein

ligase mycbp2

210 Probe Gene Symbol Gene.Description

C211R001 CALM2 calmodulin

C099R063 IMPA1 inositol monophosphatase

C196R045

C053R093

C210R131

C034R064

C259R070 REEP5 receptor accessory protein 5

C046R005 ANXA5 annexin a5

C189R030 NAP1L1|LOC540136 nucleosome assembly protein

1-like 1|nucleosome assembly

protein 1-like 1

C127R121 CCT4 t-complex protein 1 subunit

delta

C140R047

C015R006 ATPIF1 atpase inhibitor precursor

C037R132 HMGB2 high-mobility group box 2

C136R135 EIF4G3 eukaryotic translation initia-

tion factor 4 gamma, 3

C085R045

C005R124 ITGB1BP3 integrin beta 1 binding pro-

tein 3

C227R132 ATPIF1 atpase inhibitor precursor

C238R057

211 Probe Gene Symbol Gene.Description

C186R121

C170R061 EDF1 endothelial differentiation-

related factor 1

C092R164

C149R018

C020R077

C177R010 ATPIF1 atpase inhibitor precursor

C022R013 SERBP1 serpine1 mrna binding protein

1

C109R029 MTHFD2 methylenetetrahydrofolate

dehydrogenase (nad+ depen-

dent), methenyltetrahydrofo-

late cyclohydrolase

C071R038 COX1 cytochrome c oxidase subunit

1

C257R069 SQSTM1 sequestosome 1

C241R111 KDM5A histone demethylase jarid1a

C162R020 ANXA5 annexin a5

C248R102 PSMD2 proteasome (prosome,

macropain) 26s subunit,

non-atpase, 2

C016R014

212 Probe Gene Symbol Gene.Description

C044R161 TCF12 transcription factor 12 (htf4,

helix-loop-helix transcription

factors 4)

C149R096 KLHL6 kelch-like 6 (drosophila)

C008R032 ANXA5 annexin a5

C257R091 ATPIF1 atpase inhibitor precursor

C036R113 RPL13 ribosomal protein l13

C185R149 CCNL1 cyclin l1

C072R068

C146R049

C120R114 NOP56 nucleolar protein 5a

C057R091 IWS1 riken cdna 1700069o15 gene

C138R156 ANXA5 annexin a5

C055R034 H3F3B h3 histone, family 3b

C158R034 GABARAPL2 gaba(a) receptor-associated

protein-like 2

C026R142

C254R146

C069R080 TALDO1 transaldolase 1

C258R108 SEPW1 selenoprotein w, 1

C171R056

C018R143

C260R109 ND4 nadh dehydrogenase subunit 4

213 Probe Gene Symbol Gene.Description

C198R089 TKT transketolase

C220R037

C025R153

C266R147

C139R012

C260R034 NPC2 niemann-pick disease, type c2

C119R077

C100R084 PPIB peptidylprolyl isomerase b

(cyclophilin b)

C225R036

C143R005

C166R090

C034R145

C029R119

C156R020 CFL2 cofilin 2, muscle

C017R045

C074R127 CALR calreticulin

C223R156

C229R070

C078R152 SRSF2 splicing factor,

arginine/serine-rich 2

214 Probe Gene Symbol Gene.Description

C065R100 HSPA5 heat shock 70kda protein

5 (glucose-regulated protein,

78kda)

C218R023 NCOA4 nuclear receptor coactivator 4

C187R068 SRSF2 splicing factor,

arginine/serine-rich 2

C043R150

C210R016 PCBP2 poly(rc) binding protein 2

C150R142

C142R083 HMGB2 high-mobility group box 2

C241R066

C200R117 ND5 nadh-ubiquinone oxidoreduc-

tase chain 5

C208R034

C113R096 PPIB peptidylprolyl isomerase b

(cyclophilin b)

C174R042 HMGB2 high-mobility group box 2

C044R128

C120R047

C105R116 NOP56 nucleolar protein 5a

C236R070

C154R002 CFL2 cofilin 2, muscle

215 Probe Gene Symbol Gene.Description

C084R083 SRSF2 splicing factor,

arginine/serine-rich 2

C105R110

C173R094 PPIB peptidylprolyl isomerase b

(cyclophilin b)

C179R166 PPIB peptidylprolyl isomerase b

(cyclophilin b)

C243R121 PPARD peroxisome proliferative acti-

vated receptor, delta

C231R004

C250R079

C067R163 RNPS1 rna binding protein s1, serine-

rich domain

C182R048

C020R092 ANXA2-A annexin a2-a

C161R066

C220R134

C245R142 ND5 nadh-ubiquinone oxidoreduc-

tase chain 5

C063R096

C154R061

C120R097

C175R090 TRIM25 tripartite motif protein 25

216 Probe Gene Symbol Gene.Description

C143R068

C074R110

C070R045

C085R103 SPAC23A1.17 spac23a1.17 protein

C149R108

C138R129 CTSL2 cathepsin l2

C083R108

C151R103

C037R144 TTC7A tetratricopeptide repeat pro-

tein 7a

C189R053 CAHZ carbonic anhydrase

C240R142

C104R148

C266R054

C022R034

C021R112

C043R154

C249R017

C265R076

C075R074

C194R002

C168R153 CAHZ carbonic anhydrase

C014R098

217 Probe Gene Symbol Gene.Description

C141R114

C076R068 TRIM25 tripartite motif protein 25

C101R068 RRAGC ras-related gtp-binding pro-

tein c

C174R079 SRSF2 splicing factor,

arginine/serine-rich 2

C120R022 ND1 nadh-ubiquinone oxidoreduc-

tase chain 1

C113R073

C154R138

C098R145

C205R034

C215R152

218 Appendix B

Tissue-Specific Probes

B.1 Brain-Specific Probes

Probe Gene Symbol p-value log2 FC Description

C001R075 SLMAP < 2e-50 6.30 sarcolemma associated

protein

C005R144 < 2e-50 6.60

C006R092 < 2e-50 8.50

C006R139 < 2e-50 3.80

C007R134 GLUL < 2e-50 4.10 glutamate-ammonia

ligase (glutamine syn-

thetase)

C007R138 < 2e-50 3.90

C009R080 BHLHE22 < 2e-50 3.80 class b basic helix-loop-

helix protein 5

C009R143 PRB1 < 2e-50 3.30 basic salivary proline-

rich protein 1 precursor

C010R019 < 2e-50 5.70

C010R104 < 2e-50 5.60

219 Probe Gene Symbol p-value log2 FC Description

C011R128 MATR3 < 2e-50 6.20 matrin 3

C011R147 < 2e-50 6.20

C013R128 < 2e-50 7.00

C014R088 SCN1B < 2e-50 4.90 sodium channel,

voltage-gated, type

i, beta polypeptide

C014R101 FEZ1 < 2e-50 7.20 fasciculation and elon-

gation protein zeta 1

(zygin i)

C015R065 < 2e-50 5.50

C016R116 < 2e-50 6.30

C017R054 < 2e-50 4.40

C017R125 PFKP < 2e-50 5.60 phosphofructokinase,

platelet

C018R029 TAGLN3 < 2e-50 6.20 transgelin 3

C019R075 < 2e-50 6.00

C019R111 NDRG3 < 2e-50 5.40 n-myc downstream reg-

ulated gene 3

C020R098 < 2e-50 4.20

C021R022 SERP2 < 2e-50 5.00 stress-associated endo-

plasmic reticulum pro-

tein 2

C021R041 < 2e-50 8.20

220 Probe Gene Symbol p-value log2 FC Description

C022R071 < 2e-50 4.80

C022R077 < 2e-50 3.70

C023R035 < 2e-50 6.20

C023R073 FAM5C < 2e-50 4.70 family with sequence

similarity 5, member c

C023R132 RNFT2 < 2e-50 3.80 transmembrane protein

118

C024R071 NEFL|NEFL < 2e-50 7.30 neurofilament,

light polypeptide

68kda|neurofilament,

light polypeptide 68kda

C024R126 < 2e-50 6.60

C024R145 < 2e-50 3.20

C026R024 PDHA1 < 2e-50 5.10 pyruvate dehydrogenase

(lipoamide) alpha 1

C026R068 < 2e-50 4.80

C026R073 < 2e-50 7.80

C027R045 < 2e-50 4.20

C027R104 CD9 < 2e-50 3.00 cd9 antigen

C028R037 < 2e-50 4.40

C029R033 AP2B1 < 2e-50 3.90 adaptor-related protein

complex 2, beta 1 sub-

unit

221 Probe Gene Symbol p-value log2 FC Description

C030R090 < 2e-50 7.60

C031R069 GRM2 < 2e-50 5.00 glutamate receptor,

metabotropic 2

C031R109 < 2e-50 4.90

C031R140 GPM6B < 2e-50 6.10 glycoprotein m6b

C032R104 TMCC2 < 2e-50 4.80 transmembrane and

coiled-coil domains

protein 2

C034R018 < 2e-50 7.10

C034R047 CBLN2 < 2e-50 6.80 cerebellin 2 precursor

protein

C034R139 < 2e-50 7.00

C035R077 < 2e-50 5.50

C036R102 < 2e-50 7.70

C037R014 < 2e-50 3.60

C037R037 WRB < 2e-50 3.70 tryptophan rich basic

protein

C038R099 TMSB < 2e-50 4.70 thymosin, beta

C038R136 < 2e-50 6.50

C039R148 TP53BP1 < 2e-50 3.90 tumor protein p53 bind-

ing protein, 1

C039R166 < 2e-50 3.80

C040R043 < 2e-50 3.60

222 Probe Gene Symbol p-value log2 FC Description

C043R116 < 2e-50 6.00

C043R123 IRX5 < 2e-50 4.50 iroquois homeobox pro-

tein 5

C043R166 < 2e-50 4.30

C045R018 CAPN1 < 2e-50 3.70 calpain 1, (mu/i) large

subunit

C045R029 < 2e-50 4.00

C045R031 ATP6V0A2 < 2e-50 4.40 atpase, h+ transport-

ing, lysosomal v0 sub-

unit a2

C045R100 < 2e-50 4.70

C046R142 NDRG3 < 2e-50 4.50 n-myc downstream reg-

ulated gene 3

C048R017 < 2e-50 5.20

C048R153 NDRG3 < 2e-50 5.10 n-myc downstream reg-

ulated gene 3

C050R033 < 2e-50 3.50

C050R133 < 2e-50 5.00

C051R089 CDC42 < 2e-50 3.80 cell division cycle 42

(gtp binding protein,

25kda)

C052R099 RASSF2 < 2e-50 3.60 ras association domain-

containing protein 2

223 Probe Gene Symbol p-value log2 FC Description

C053R092 < 2e-50 8.40

C054R029 < 2e-50 5.50

C054R071 < 2e-50 4.40

C054R081 SYNE1 < 2e-50 4.50 spectrin repeat contain-

ing, nuclear envelope 1

C055R079 < 2e-50 8.00

C055R092 < 2e-50 4.50

C057R082 GM11992 < 2e-50 5.00 uncharacterized protein

c7orf57 homolog

C057R084 < 2e-50 3.60

C058R149 < 2e-50 9.80

C059R067 PCP4 < 2e-50 7.00 purkinje cell protein 4

C059R073 < 2e-50 7.00

C062R061 < 2e-50 5.60

C063R013 < 2e-50 5.20

C063R080 < 2e-50 4.70

C063R085 < 2e-50 3.30

C064R128 < 2e-50 5.80

C064R141 RGS7 < 2e-50 5.50 regulator of g-protein

signaling 7

C065R109 < 2e-50 5.50

C066R033 < 2e-50 5.10

C066R039 < 2e-50 3.60

224 Probe Gene Symbol p-value log2 FC Description

C067R037 FABP2 < 2e-50 4.50 fatty acid binding pro-

tein 2, intestinal

C067R089 < 2e-50 5.90

C069R086 < 2e-50 5.50

C070R097 DIRAS2 < 2e-50 6.30 gtp-binding protein di-

ras2

C070R142 SGK1 < 2e-50 3.70 serum/glucocorticoid

regulated kinase

C071R082 CD226 < 2e-50 5.20 cd226 antigen precursor

C072R025 < 2e-50 5.90

C072R038 KIF3C < 2e-50 6.60 kinesin family member

3c

C072R122 < 2e-50 7.90

C074R124 < 2e-50 3.50

C076R025 < 2e-50 6.40

C076R040 < 2e-50 8.20

C076R087 < 2e-50 5.70

C077R152 < 2e-50 3.70

C079R026 < 2e-50 5.40

C079R112 < 2e-50 6.20

C079R129 < 2e-50 7.40

C079R134 < 2e-50 3.90

225 Probe Gene Symbol p-value log2 FC Description

C079R148 RAC3 < 2e-50 6.00 ras-related c3 bo-

tulinum toxin substrate

3 (rho family, small gtp

binding protein rac3)

C080R076 < 2e-50 4.80

C081R161 STMN1 < 2e-50 4.50 stathmin 1/oncoprotein

18

C082R018 < 2e-50 3.70

C082R110 < 2e-50 4.00

C085R095 < 2e-50 5.60

C088R017 < 2e-50 7.70

C088R133 ATXN7L3 < 2e-50 3.50 ataxin 7-like 3

C090R097 < 2e-50 5.00

C091R069 < 2e-50 7.90

C092R050 CARTPT < 2e-50 5.50 cocaine- and

amphetamine-regulated

transcript protein

precursor

C092R153 < 2e-50 7.00

C094R030 < 2e-50 5.50

C096R138 PTPRN < 2e-50 3.70 protein tyrosine phos-

phatase, receptor type,

n

226 Probe Gene Symbol p-value log2 FC Description

C097R002 PYGM < 2e-50 4.20 phosphorylase, glyco-

gen; muscle (mcardle

syndrome, glycogen

storage disease type v)

C097R004 < 2e-50 7.80

C097R143 NDUFA4 < 2e-50 4.60 nadh dehydrogenase

(ubiquinone) 1 alpha

subcomplex, 4

C098R148 < 2e-50 3.10

C099R021 < 2e-50 3.20

C100R035 OPCML < 2e-50 3.70 opioid-binding pro-

tein/cell adhesion

molecule precursor

C101R117 < 2e-50 4.20

C101R145 < 2e-50 4.10

C102R129 < 2e-50 5.60

C103R038 < 2e-50 8.10

C104R080 < 2e-50 3.60

C104R116 < 2e-50 5.30

C105R018 SYNE1 < 2e-50 4.60 spectrin repeat contain-

ing, nuclear envelope 1

C105R034 < 2e-50 6.60

227 Probe Gene Symbol p-value log2 FC Description

C105R113 KCTD21 < 2e-50 5.20 hypothetical protein

loc283219

C105R145 < 2e-50 4.30

C106R018 < 2e-50 3.80

C106R029 < 2e-50 5.30

C106R122 GPM6B < 2e-50 5.80 glycoprotein m6b

C107R050 ARF3 < 2e-50 6.20 adp-ribosylation factor

3

C107R130 CIRBP < 2e-50 3.50 cold inducible rna bind-

ing protein

C109R026 < 2e-50 4.60

C109R035 CARTPT < 2e-50 5.90 cocaine- and

amphetamine-regulated

transcript protein

precursor

C109R161 < 2e-50 9.60

C110R107 < 2e-50 8.40

C111R039 < 2e-50 4.40

C111R113 < 2e-50 5.60

C111R125 DYNC1I1 < 2e-50 6.60 dynein, cytoplasmic 1,

intermediate chain 1

C111R164 LGI1 < 2e-50 3.90 leucine-rich repeat lgi

family, member 1

228 Probe Gene Symbol p-value log2 FC Description

C111R168 < 2e-50 5.40

C113R141 < 2e-50 8.80

C114R046 SCRG1 < 2e-50 5.20 scrapie responsive gene

1

C114R166 < 2e-50 6.50

C115R067 < 2e-50 7.90

C115R128 < 2e-50 5.10

C115R137 ZDHHC2 < 2e-50 5.30 palmitoyltransferase zd-

hhc2

C115R144 < 2e-50 6.50

C115R156 PPP1R14B < 2e-50 6.20 protein phosphatase 1,

regulatory (inhibitor)

subunit 14b

C116R038 CHL1 < 2e-50 4.80 cell adhesion molecule

with homology to l1cam

(close homolog of l1)

C117R079 < 2e-50 6.20

C120R134 GJB1 < 2e-50 5.80 gap junction beta-1 pro-

tein

C122R032 < 2e-50 6.00

C122R066 ATP6V0A4 < 2e-50 3.90 atpase, h+ transport-

ing, lysosomal v0 sub-

unit a4

229 Probe Gene Symbol p-value log2 FC Description

C122R077 TSPAN5 < 2e-50 3.90 tetraspanin 5

C123R038 MAPK8IP1 < 2e-50 3.40 mitogen-activated pro-

tein kinase 8 interacting

protein 1

C123R168 < 2e-50 4.80

C124R125 FJ < 2e-50 4.10 protein four-jointed

C124R145 < 2e-50 5.90

C125R044 < 2e-50 6.40

C125R081 < 2e-50 3.00

C127R016 < 2e-50 4.40

C131R022 < 2e-50 7.20

C131R164 < 2e-50 3.70

C132R028 < 2e-50 5.10

C132R070 < 2e-50 5.40

C132R164 NKX2.2A < 2e-50 4.30 homeobox protein nkx-

2.2a

C133R002 OCM2 < 2e-50 5.50 parvalbumin, thymic

cpv3

C133R063 < 2e-50 5.90

C133R081 TRIM39 < 2e-50 3.80 tripartite motif-

containing 39

C135R107 < 2e-50 5.80

230 Probe Gene Symbol p-value log2 FC Description

C135R125 CRG1 < 2e-50 5.70 uncharacterized protein

yhr209w

C135R126 < 2e-50 6.30

C135R166 INSM1 < 2e-50 4.90 insulinoma-associated 1

C136R151 < 2e-50 6.40

C138R101 < 2e-50 5.40

C138R124 CDC42 < 2e-50 3.60 cell division cycle 42

(gtp binding protein,

25kda)

C138R151 < 2e-50 5.60

C139R006 < 2e-50 7.00

C139R127 < 2e-50 4.40

C140R056 < 2e-50 4.70

C141R027 SOX2 < 2e-50 4.10 sry-box containing gene

2

C143R002 PTPRZ1 < 2e-50 4.50 protein tyrosine phos-

phatase, receptor-type,

z polypeptide 1

C143R065 < 2e-50 4.50

C145R132 < 2e-50 4.60

C147R074 < 2e-50 7.50

C147R142 TUBB2A < 2e-50 7.50 tubulin, beta 2a

C148R126 < 2e-50 6.60

231 Probe Gene Symbol p-value log2 FC Description

C150R084 < 2e-50 5.60

C150R088 < 2e-50 7.10

C151R058 VSTM2L < 2e-50 5.30 v-set and trans-

membrane domain-

containing protein

2-like protein precursor

C153R061 < 2e-50 6.30

C155R160 HMP19 < 2e-50 6.70 hmp19 protein

C158R099 < 2e-50 3.20

C158R102 < 2e-50 7.80

C158R108 < 2e-50 6.80

C158R153 < 2e-50 8.60

C159R120 GPM6B < 2e-50 5.80 glycoprotein m6b

C160R024 < 2e-50 6.30

C160R128 PTPRN < 2e-50 5.00 protein tyrosine phos-

phatase, receptor type,

n

C162R133 < 2e-50 6.10

C162R164 < 2e-50 5.80

C163R044 < 2e-50 3.80

C164R130 NT5DC1 < 2e-50 5.20 5-nucleotidase domain-

containing protein 1

232 Probe Gene Symbol p-value log2 FC Description

C164R141 GNG2 < 2e-50 4.9 guanine nucleotide

binding protein (g

protein), gamma 2

C166R132 NPB < 2e-50 4.7 preproneuropeptide b

C167R007 < 2e-50 4.1

C167R010 B3GALTL < 2e-50 8.2 beta-1,3-

glucosyltransferase n C167R118 SCG2 < 2e-50 6.5 secretogranin-2 precur-

sor

C167R156 < 2e-50 4

C168R020 < 2e-50 4.6

C168R149 < 2e-50 8.5

C168R169 < 2e-50 3.9

C169R097 SPNB2 < 2e-50 4 spectrin beta 2

C169R101 STMN1 < 2e-50 6.7 stathmin 1/oncoprotein

18

C170R164 XPO5 < 2e-50 3.2 exportin 5

C171R130 < 2e-50 6.5

C172R130 < 2e-50 6.2

C173R059 < 2e-50 4.9

C173R084 < 2e-50 8.4

C173R100 < 2e-50 8.4

C173R150 < 2e-50 4.6

233 Probe Gene Symbol p-value log2 FC Description

C174R085 < 2e-50 3.4

C174R165 < 2e-50 3.7

C175R107 DPYSL3 < 2e-50 4 dihydropyrimidinase-

like 3

C176R073 GLUL < 2e-50 4.4 glutamate-ammonia

ligase (glutamine syn-

thetase)

C177R054 OTX2 < 2e-50 5.1 homeobox protein otx2

C177R102 < 2e-50 6.8

C177R123 < 2e-50 4.3

C178R102 < 2e-50 9.9

C179R004 HES5 < 2e-50 4.7 hairy and enhancer of

split 5 (drosophila)

C179R028 NDRG3 < 2e-50 5 n-myc downstream reg-

ulated gene 3

C179R160 LIN7B < 2e-50 3.5 lin-7 homolog b (c. ele-

gans)

C180R025 < 2e-50 6.7

C180R142 C11ORF87 < 2e-50 7.1 uncharacterized protein

loc399947 homolog pre-

cursor

234 Probe Gene Symbol p-value log2 FC Description

C181R102 ACBD7 < 2e-50 7.3 acyl-coa-binding

domain-containing

protein 7

C181R153 < 2e-50 4

C185R033 < 2e-50 5.6

C186R091 < 2e-50 4.6

C186R104 GABRD < 2e-50 4.4 gamma-aminobutyric

acid receptor subunit

delta precursor

C190R148 SEPT7 < 2e-50 4.3 septin-7

C191R077 < 2e-50 5.1

C191R166 < 2e-50 8.4

C193R101 PHYHIP < 2e-50 4.6 phytanoyl-coa hydroxy-

lase interacting protein

C193R121 ARL4D < 2e-50 3.9 adp-ribosylation factor-

like 4d

C194R084 < 2e-50 3.8

C194R101 WRB < 2e-50 4 tryptophan rich basic

protein

C195R014 PPM1L < 2e-50 3.6 protein phosphatase 1

(formerly 2c)-like

C195R050 < 2e-50 5.8

C199R084 < 2e-50 6

235 Probe Gene Symbol p-value log2 FC Description

C200R008 < 2e-50 5.3

C200R058 < 2e-50 4

C200R124 < 2e-50 6.7

C200R169 < 2e-50 3.7

C202R029 PTPRN2 < 2e-50 5 protein tyrosine phos-

phatase, receptor type,

n polypeptide 2

C204R005 < 2e-50 4.6

C204R016 < 2e-50 8

C204R063 < 2e-50 3.4

C204R097 < 2e-50 3.9

C204R158 TRIM39 < 2e-50 3.6 tripartite motif-

containing 39

C205R109 ZIC2 < 2e-50 7 zic finger protein of the

cerebellum 2

C205R118 < 2e-50 6.3

C205R142 < 2e-50 5.8

C205R146 < 2e-50 7.8

C206R010 < 2e-50 3.6

C207R113 < 2e-50 7

C207R121 UCHL1 < 2e-50 6.8 ubiquitin carboxyl-

terminal esterase l1

(ubiquitin thiolesterase)

236 Probe Gene Symbol p-value log2 FC Description

C207R162 TMEM35 < 2e-50 4.5 spinal cord expression

protein 4

C208R104 ZNF521 < 2e-50 3.6 zinc finger protein 521

C208R136 CX43 < 2e-50 5.6 connexin 43

C209R076 < 2e-50 4.5

C210R054 < 2e-50 5.1

C210R080 < 2e-50 7.1

C211R112 < 2e-50 5.7

C211R128 < 2e-50 5.7

C211R138 < 2e-50 6.3

C212R127 CALB2 < 2e-50 5.4 calbindin 2

C213R032 SIX3 < 2e-50 5.6 sine oculis homeobox

homolog 3 (drosophila)

C213R130 < 2e-50 5

C213R140 < 2e-50 5.6

C214R032 < 2e-50 7.9

C216R144 < 2e-50 4.7

C218R166 < 2e-50 3.4

C219R140 < 2e-50 5.4

C220R066 SLMAP < 2e-50 5.7 sarcolemma associated

protein

C220R086 < 2e-50 4.2

C220R130 < 2e-50 5.2

237 Probe Gene Symbol p-value log2 FC Description

C220R143 < 2e-50 3.9

C221R158 < 2e-50 4.2

C221R169 TSPAN3 < 2e-50 3.5 tetraspanin 3

C222R019 < 2e-50 3.4

C223R123 < 2e-50 3.3

C224R124 < 2e-50 7.5

C224R126 < 2e-50 9.5

C225R012 < 2e-50 7.9

C226R047 < 2e-50 3

C226R081 < 2e-50 4.7

C226R098 OLFM1 < 2e-50 6.7 olfactomedin 1

C226R124 < 2e-50 7.4

C227R136 < 2e-50 3.6

C229R155 < 2e-50 5.4

C234R117 ANXA13 < 2e-50 4.7 annexin a13

C235R096 NSG1 < 2e-50 6.8 neuron-specific protein

family member 1

C236R048 < 2e-50 7.7

C236R057 ANXA13 < 2e-50 4.9 annexin a13

C236R105 < 2e-50 6.7

C237R139 < 2e-50 4.5

C238R134 < 2e-50 5.7

C242R080 < 2e-50 7.5

238 Probe Gene Symbol p-value log2 FC Description

C242R082 MLC1 < 2e-50 6.8 membrane protein mlc1

C243R014 < 2e-50 3.1

C243R120 NPC1 < 2e-50 3.4 niemann-pick c1 protein

precursor

C244R009 < 2e-50 7.2

C247R027 < 2e-50 4.1

C247R131 < 2e-50 3.2

C247R168 < 2e-50 7.4

C248R126 TMEM59 < 2e-50 4.7 transmembrane protein

59

C248R154 < 2e-50 5.2

C253R124 STMN3 < 2e-50 7.1 stathmin-like 3

C254R066 < 2e-50 5.5

C254R084 < 2e-50 3.8

C256R146 CLDN19 < 2e-50 5.7 claudin 19

C257R028 STMN1 < 2e-50 6.6 stathmin 1/oncoprotein

18

C257R036 < 2e-50 6.4

C257R093 < 2e-50 4.5

C259R104 < 2e-50 8

C261R127 < 2e-50 5.1

C263R154 < 2e-50 5.2

C264R080 < 2e-50 3.7

239 Probe Gene Symbol p-value log2 FC Description

C108R146 FABP4 < 2e-50 6.8 fatty acid-binding pro-

tein, adipocyte

C030R012 < 2e-50 6.2

C137R017 CBLN1 < 2e-50 8.7 cerebellin 1 precursor

protein

C245R115 ENO2 < 2e-50 5.5 enolase 2 (gamma, neu-

ronal)

C224R033 MATR3 < 2e-50 4.6 matrin 3

C091R150 < 2e-50 5.7

C204R003 BHLHE22 < 2e-50 3.7 class b basic helix-loop-

helix protein 5

C196R056 < 2e-50 6.6

C207R063 < 2e-50 3.7

C103R152 < 2e-50 6.2

C145R083 < 2e-50 4.3

C095R063 < 2e-50 3.3

C227R142 SNCA < 2e-50 4.3 synuclein, alpha

C197R066 < 2e-50 3.4

C104R139 B3GALTL < 2e-50 8.7 beta-1,3-

glucosyltransferase

C180R092 < 2e-50 3.1

C250R137 < 2e-50 6.2

240 Probe Gene Symbol p-value log2 FC Description

C129R090 LINGO2 < 2e-50 4.2 leucine rich repeat neu-

ronal 6c

C112R073 < 2e-50 3.8

C137R124 < 2e-50 5

C048R058 PTBP2 < 2e-50 3.1 polypyrimidine tract

binding protein 2

C215R104 < 2e-50 3.8

C216R094 < 2e-50 4.2

C075R098 < 2e-50 3.7

C199R148 B3GALTL < 2e-50 9.2 beta-1,3-

glucosyltransferase

C020R102 < 2e-50 4.7

C255R067 < 2e-50 3.9

C146R057 LMO1 < 2e-50 5 lim domain only 1

C074R081 CXXC5 < 2e-50 4.2 cxxc finger 5

C107R067 < 2e-50 3.1

C251R120 < 2e-50 7.9

C255R060 < 2e-50 4.6

C065R143 < 2e-50 5.7

C066R076 UNC-4 < 2e-50 3.6 homeobox protein unc-4

C232R104 < 2e-50 3.7

241 Probe Gene Symbol p-value log2 FC Description

C246R158 FEZ1 < 2e-50 4.9 fasciculation and elon-

gation protein zeta 1

(zygin i)

C042R065 < 2e-50 4.2

C150R025 < 2e-50 6.4

C119R132 GNAO1 < 2e-50 6.9 guanine nucleotide

binding protein (g pro-

tein), alpha activating

activity polypeptide o

C026R080 < 2e-50 4.5

C227R107 < 2e-50 5.2

C100R042 LPPR3 < 2e-50 4.6 lipid phosphate

phosphatase-related

protein type 3

C261R036 GRM1 < 2e-50 5.1 glutamate receptor,

metabotropic 1

C113R099 < 2e-50 3.8

C138R068 SGSM1 < 2e-50 3.8 small g protein signal-

ing modulator 1

C180R031 C1QTNF4 < 2e-50 6.6 complement c1q tumor

necrosis factor-related

protein 4 precursor

C025R071 < 2e-50 4.5

242 Probe Gene Symbol p-value log2 FC Description

C097R041 RTN3 < 2e-50 4.4 reticulon 3

C071R153 < 2e-50 4.8

C073R037 < 2e-50 3.1

C218R079 ATP6V0A1 < 2e-50 5.7 atpase, h+ transport-

ing, lysosomal v0 sub-

unit a isoform 1

C110R086 CAR4 < 2e-50 4.8 carbonic anhydrase 4

C036R122 < 2e-50 6.7

C235R019 KHDRBS2 < 2e-50 3.2 kh domain-containing,

rna-binding, signal

transduction-associated

protein 2

C068R056 GRM2 < 2e-50 4.8 glutamate receptor,

metabotropic 2

C090R085 SERPINE1 < 2e-50 3 serpin peptidase in-

hibitor, clade e (nexin,

plasminogen activa-

tor inhibitor type 1),

member 1

C084R166 LMO4 < 2e-50 3.7 mgc97667 protein

C123R101 BHLHE41 < 2e-50 4.3 class b basic helix-loop-

helix protein 3

C149R063 < 2e-50 4.9

243 Probe Gene Symbol p-value log2 FC Description

C162R141 ZFP608 < 2e-50 4.5 zinc finger protein 608

C065R121 LINGO2 < 2e-50 4.1 leucine rich repeat neu-

ronal 6c

C009R029 PTN < 2e-50 6.9 pleiotrophin [heparin

binding growth factor

8, neurite growth-

promoting factor 1]

C255R083 < 2e-50 4.3

C083R097 SCG2 < 2e-50 6.1 secretogranin-2 precur-

sor

C157R047 DMXL2 < 2e-50 7 dmx-like 2

C066R122 ATP6V1E1 < 2e-50 3.8 atpase, h+ transport-

ing, lysosomal 31kda,

v1 subunit e1

C095R099 CRHBP < 2e-50 4.5 corticotropin releasing

hormone binding pro-

tein

C221R162 ZIC5 < 2e-50 5.9 zic family member 5

(odd-paired homolog,

drosophila)

C111R088 < 2e-50 4.1

C191R148 < 2e-50 5.3

244 Probe Gene Symbol p-value log2 FC Description

C079R114 SLAIN1 < 2e-50 6.4 slain motif-containing

protein 1

C174R028 < 2e-50 4.4

C036R015 < 2e-50 3.6

C019R004 < 2e-50 5.6

C117R070 SYP < 2e-50 7.4 synaptophysin

C153R053 < 2e-50 6.1

C087R132 CADPS < 2e-50 6.4 ca<2+>dependent ac-

tivator protein for secre-

tion

C252R121 < 2e-50 3.9

C051R029 S100B < 2e-50 8.1 s100 calcium binding

protein, beta (neural)

C033R119 < 2e-50 4.8

C259R077 < 2e-50 3.2

C091R079 GPR88 < 2e-50 3.1 g-protein coupled recep-

tor 88

C049R161 < 2e-50 6.7

C190R023 SLITRK5 < 2e-50 4.7 slit and ntrk-like family,

member 5

C128R150 < 2e-50 7.8

C150R104 DYNLL2 < 2e-50 6.2 dynein light chain-2

C037R125 R3HDM1 < 2e-50 3.9 r3h domain containing 1

245 Probe Gene Symbol p-value log2 FC Description

C138R153 DYNLL2 < 2e-50 4.6 dynein light chain-2

C090R143 LHFPL4 < 2e-50 4.9 lipoma hmgic fusion

partner-like protein 4

C030R075 FLVCR1 < 2e-50 3.4 feline leukemia virus

subgroup c receptor-

related protein 1

C199R138 CAMKVB < 2e-50 3.1 cam kinase-like vesicle-

associated protein

C240R092 TMEM60 < 2e-50 3.2 transmembrane protein

60

C238R054 LGI1 < 2e-50 4.6 leucine-rich repeat lgi

family, member 1

C175R017 < 2e-50 4.8

C087R151 < 2e-50 7.4

C114R133 B3GALTL < 2e-50 6.7 beta-1,3-

glucosyltransferase

C199R060 HES6 < 2e-50 3.6 hairy and enhancer of

split 6 (drosophila)

C035R023 < 2e-50 4.1

C030R067 TUSC3 < 2e-50 5.4 tumor suppressor candi-

date 3

246 Probe Gene Symbol p-value log2 FC Description

C222R050 TAC1 < 2e-50 4.8 tachykinin, precursor 1

(substance k, substance

p, neurokinin 1, neu-

rokinin 2, neuromedin l,

neurokinin alpha, neu-

ropeptide k, neuropep-

tide gamma)

C157R041 MAPK8IP1 < 2e-50 3.9 mitogen-activated pro-

tein kinase 8 interacting

protein 1

C025R057 < 2e-50 3.8

C197R122 4930588N13RIK < 2e-50 4.2 uncharacterized protein

c13orf26 homolog

C005R061 < 2e-50 4.7

C117R063 CALR < 2e-50 5.8 calreticulin

C188R021 < 2e-50 8.5

C119R157 < 2e-50 3.1

C070R164 CABP1 < 2e-50 4.2 calcium-binding protein

1

C129R144 < 2e-50 5.6

C104R126 RAB36 < 2e-50 4.6 ras-related protein rab-

36

C122R087 < 2e-50 7.9

247 Probe Gene Symbol p-value log2 FC Description

C161R138 < 2e-50 3.8

C038R098 < 2e-50 4.3

C035R151 TRIM36 < 2e-50 3.7 tripartite motif-

containing protein

36

C237R137 < 2e-50 4.3

C142R010 SLC12A2 < 2e-50 5.5 solute carrier family 12

member 2

C105R012 CLDN19 < 2e-50 4.9 claudin 19

C196R051 NEFL|NEFL < 2e-50 5.8 neurofilament,

light polypeptide

68kda|neurofilament,

light polypeptide 68kda

C052R051 < 2e-50 6.8

C028R148 NLGN4X < 2e-50 4 neuroligin-4, x-linked

precursor

C048R134 < 2e-50 5.7

C215R128 B3GALTL < 2e-50 8.8 beta-1,3-

glucosyltransferase

C017R132 B3GALTL < 2e-50 7.1 beta-1,3-

glucosyltransferase

C232R043 < 2e-50 3.4

C042R042 < 2e-50 5.3

248 Probe Gene Symbol p-value log2 FC Description

C133R162 < 2e-50 4.2

C101R001 B3GALTL < 2e-50 8.2 beta-1,3-

glucosyltransferase

C049R133 < 2e-50 5.9

C125R015 TMEM30A < 2e-50 3.1 cell cycle control pro-

tein 50a

C170R154 < 2e-50 6.1

C032R057 < 2e-50 5

C078R089 < 2e-50 6.1

C074R025 < 2e-50 3.9

C195R145 < 2e-50 7.3

C020R041 < 2e-50 4.5

C145R024 < 2e-50 3.9

C167R020 OCM2 < 2e-50 5.4 parvalbumin, thymic

cpv3

C209R104 PORCN < 2e-50 3.2 probable protein-

cysteine n-

palmitoyltransferase

porcupine

C223R012 < 2e-50 4

C026R105 ZIC3 < 2e-50 3.8 zinc finger protein zic 3

C014R021 < 2e-50 4.2

C255R095 < 2e-50 5.5

249 Probe Gene Symbol p-value log2 FC Description

C174R111 < 2e-50 4.1

C167R006 WASF3 < 2e-50 3.7 was protein family,

member 3

C055R066 < 2e-50 5.1

C027R043 HAVCR1 < 2e-50 4.7 hepatitis a virus cellular

receptor 1 homolog pre-

cursor

C072R032 < 2e-50 7

C236R112 < 2e-50 3.7

C094R045 < 2e-50 5.3

C167R092 < 2e-50 3.2

C172R146 GPR173 < 2e-50 4.3 probable g-protein cou-

pled receptor 173

C004R113 < 2e-50 5.8

C106R069 SCG5 < 2e-50 6.9 secretory granule, neu-

roendocrine protein 1

(7b2 protein)

C083R152 < 2e-50 6.5

C193R130 < 2e-50 7.4

250 Probe Gene Symbol p-value log2 FC Description

C005R056 TAC1 < 2e-50 4.6 tachykinin, precursor 1

(substance k, substance

p, neurokinin 1, neu-

rokinin 2, neuromedin l,

neurokinin alpha, neu-

ropeptide k, neuropep-

tide gamma)

C119R017 < 2e-50 6

C077R046 CXXC1 < 2e-50 3.5 cxxc finger 1 (phd do-

main)

C197R160 TUBB2A < 2e-50 4.9 tubulin, beta 2a

C134R037 HSPA4L < 2e-50 5.2 heat shock 70 kda pro-

tein 4l

C201R100 TKT < 2e-50 4.7 transketolase

C077R032 ANO4 < 2e-50 4.5 transmembrane protein

16d

C170R063 < 2e-50 3.9

C174R075 < 2e-50 5.3

C247R112 CNP-3 < 2e-50 4.5 c-type natriuretic pep-

tide 3 precursor

C076R114 HNRPLL < 2e-50 3.3 heterogeneous nuclear

ribonucleoprotein l-like

C080R005 < 2e-50 4.1

251 Probe Gene Symbol p-value log2 FC Description

C228R025 CLIP3 < 2e-50 3.5 clip-170-related protein

C180R140 < 2e-50 3.4

C015R039 PI16 < 2e-50 4.8 peptidase inhibitor 16

precursor

C161R127 < 2e-50 6.2

C216R106 < 2e-50 3.1

C182R073 < 2e-50 5.7

C265R085 EEF1A1|TRIM24 < 2e-50 6.1 eukaryotic transla-

tion elongation factor

1 alpha 1|tripartite

motif-containing 24

C091R046 GAD1 < 2e-50 6.3 glutamic acid decar-

boxylase

C160R089 PAX6 < 2e-50 4 paired box gene 6

(aniridia, keratitis)

C022R135 < 2e-50 4

C118R144 AFUA 2G07670 < 2e-50 3.6 palmitoyltransferase

akr1

C033R013 < 2e-50 4

C047R159 < 2e-50 5.8

C246R086 < 2e-50 4.6

C147R126 PDYN < 2e-50 6 prodynorphin

C148R115 < 2e-50 3.2

252 Probe Gene Symbol p-value log2 FC Description

C213R096 HAPLN2 < 2e-50 5.3 hyaluronan and proteo-

glycan link protein 2

precursor

C116R042 < 2e-50 4.5

C092R039 < 2e-50 3.9

C200R037 CKMT1B|CKMT1A < 2e-50 6.5 creatine kinase, mito-

chondrial 1b|creatine

kinase, mitochondrial

1b

C040R084 < 2e-50 3.8

C125R069 < 2e-50 3

C253R026 UCHL1 < 2e-50 6.2 ubiquitin carboxyl-

terminal esterase l1

(ubiquitin thiolesterase)

C222R118 SLC5A7 < 2e-50 4 solute carrier family 5

(choline transporter),

member 7

C135R161 ISCU < 2e-50 5 nifu-like n-terminal do-

main containing

C250R018 < 2e-50 6

C138R164 NOX1 < 2e-50 3.2 nadph oxidase 1

C108R063 < 2e-50 4.3

C089R093 < 2e-50 6.4

253 Probe Gene Symbol p-value log2 FC Description

C228R056 DMBX1A < 2e-50 4.1 diencephalon/mesencephalon

homeobox protein 1-a

C143R030 FLII < 2e-50 4.1 flightless i homolog

(drosophila)

C120R024 < 2e-50 5.1

C099R037 < 2e-50 7.4

C033R050 < 2e-50 4

C172R012 NDRG4 < 2e-50 3.4 ndrg4-prov protein

C207R036 < 2e-50 6.8

C105R063 < 2e-50 3.5

C238R027 < 2e-50 3.2

C053R079 < 2e-50 4.4

C222R076 < 2e-50 4.4

C100R059 STMN4 < 2e-50 4.6 stathmin-like 4

C114R085 < 2e-50 3.4

C148R074 NF1 < 2e-50 4 neurofibromin

C031R127 < 2e-50 7.7

C060R099 OTPB < 2e-50 6.3 orthopedia protein

C105R093 < 2e-50 3.7

C210R059 CADPS < 2e-50 5.8 ca<2+>dependent ac-

tivator protein for secre-

tion

C206R079 < 2e-50 3.5

254 Probe Gene Symbol p-value log2 FC Description

C055R136 < 2e-50 5.1

C264R143 CCDC85B < 2e-50 4 hepatitis delta antigen-

interacting protein a

C020R155 < 2e-50 3.9

C146R051 < 2e-50 6.7

C245R138 RASD1 < 2e-50 3.9 ras, dexamethasone-

induced 1

C062R019 < 2e-50 8.9

C038R007 < 2e-50 4

C182R161 RASD1 < 2e-50 3.7 ras, dexamethasone-

induced 1

C232R148 < 2e-50 5.2

C226R011 < 2e-50 4.2

C262R110 UCHL1 < 2e-50 5.5 ubiquitin carboxyl-

terminal esterase l1

(ubiquitin thiolesterase)

C157R075 < 2e-50 3.7

C218R085 < 2e-50 3.1

C192R105 SP5 < 2e-50 4 sp5 transcription factor

C186R040 < 2e-50 5.5

C240R139 < 2e-50 3

255 Probe Gene Symbol p-value log2 FC Description

C074R113 SEMA7A < 2e-50 3.2 sema domain, im-

munoglobulin domain

(ig), and gpi membrane

anchor, (semaphorin)

7a

C085R040 < 2e-50 4.7

C135R066 TSHZ1 < 2e-50 4.8 serologically defined

colon cancer antigen 33

C150R039 < 2e-50 3.4

C012R079 HES5 < 2e-50 4.4 hairy and enhancer of

split 5 (drosophila)

C159R107 < 2e-50 3.4

C203R124 EZH2 < 2e-50 7.3 enhancer of zeste ho-

molog 2 (drosophila)

C052R020 APLP1 < 2e-50 4.2 amyloid beta (a4)

precursor-like protein 1

C079R160 < 2e-50 3.7

C137R091 < 2e-50 4.6

C201R033 < 2e-50 3.2

C031R051 HAPLN4 < 2e-50 5.2 hyaluronan and proteo-

glycan link protein 4

C241R078 < 2e-50 3.5

C144R100 < 2e-50 3.9

256 Probe Gene Symbol p-value log2 FC Description

C096R044 RGS16 < 2e-50 4.8 regulator of g-protein

signalling 16

C255R101 LIN7B < 2e-50 3.2 lin-7 homolog b (c. ele-

gans)

C080R028 < 2e-50 3.6

C070R027 EFCAB7 < 2e-50 5.2 ef-hand calcium-

binding domain-

containing protein

7

C110R162 < 2e-50 5.8

C246R094 RAB6B < 2e-50 5.7 rab6b, member ras

oncogene family

C061R156 < 2e-50 3.3

C098R125 < 2e-50 3.1

C212R016 POU4F2 < 2e-50 5.9 pou domain, class 4,

transcription factor 2

C227R151 < 2e-50 3.9

C068R154 MDK-B < 2e-50 3 pleiotrophic factor-

alpha-2 precursor

C112R074 FBXO2 < 2e-50 3.4 f-box protein 2

C144R007 TMEM35 < 2e-50 5.2 spinal cord expression

protein 4

C185R063 < 2e-50 3.2

257 Probe Gene Symbol p-value log2 FC Description

C068R105 < 2e-50 4.2

C246R145 < 2e-50 4

C116R113 < 2e-50 5.5

C169R136 ZIC1 < 2e-50 4.1 zinc finger protein zic 1

C101R157 TJP1 < 2e-50 4.2 tight junction protein 1

(zona occludens 1)

C120R045 < 2e-50 3.8

C023R130 < 2e-50 4.5

C035R048 < 2e-50 3.6

C240R152 < 2e-50 3.3

C117R151 GRM7 < 2e-50 4.3 glutamate receptor,

metabotropic 7

C232R141 CYGB-2 < 2e-50 3.3 cytoglobin-2

C169R015 SDCBP < 2e-50 7.1 syndecan binding pro-

tein (syntenin)

C193R096 < 2e-50 4.8

C099R084 DNER < 2e-50 6.3 delta/notch-like egf-

related receptor

C250R099 < 2e-50 6.7

C021R015 < 2e-50 5.2

C092R131 < 2e-50 6.3

C152R040 < 2e-50 3.2

C073R148 < 2e-50 5.7

258 Probe Gene Symbol p-value log2 FC Description

C018R073 SYT9 < 2e-50 3.5 synaptotagmin-9

C172R086 < 2e-50 3.4

C136R038 CAMK2D2 < 2e-50 5.3 calcium/calmodulin-

dependent protein

kinase type ii delta-a

chain

C150R003 < 2e-50 4.4

C045R116 FBXO2 < 2e-50 3.3 f-box protein 2

C185R012 < 2e-50 5.6

C169R035 < 2e-50 5.2

C031R086 ISLR2 < 2e-50 5.1 immunoglobulin su-

perfamily containing

leucine-rich repeat 2

C169R062 SLC32A1 < 2e-50 5.5 solute carrier family 32

(gaba vesicular trans-

porter), member 1

C036R089 < 2e-50 7.9

C057R003 ISYNA1-A < 2e-50 3.8 inositol-3-phosphate

synthase a

C160R053 CNDP2 < 2e-50 8.6 cndp dipeptidase 2

(metallopeptidase m20

family)

C199R133 < 2e-50 6

259 Probe Gene Symbol p-value log2 FC Description

C238R046 CNDP2 < 2e-50 8.8 cndp dipeptidase 2

(metallopeptidase m20

family)

C180R149 NEBL < 2e-50 5.2 nebulette

C215R063 < 2e-50 7.4

C186R170 KCNG2 < 2e-50 4 potassium voltage-

gated channel, sub-

family g, member

2

C240R067 ZIC3 < 2e-50 6.4 zinc finger protein zic 3

C072R079 < 2e-50 3.9

C130R041 ALDH5A1 < 2e-50 3.5 aldhehyde dehydroge-

nase family 5, subfamily

a1

C185R094 L3MBTL1 < 2e-50 4.8 lethal(3)malignant

brain tumor-like pro-

tein

C109R058 < 2e-50 3.5

C208R047 CNTNAP2 < 2e-50 3.3 contactin associated

protein-like 2

C240R136 < 2e-50 3.3

C138R021 < 2e-50 7.9

C023R077 < 2e-50 3.2

260 Probe Gene Symbol p-value log2 FC Description

C081R054 < 2e-50 3.4

C095R147 < 2e-50 8

C128R164 < 2e-50 4

C124R100 CAR8 < 2e-50 6.2 carbonic anhydrase-

related protein

C165R004 GYC88E < 2e-50 4.4 soluble guanylate cy-

clase 88e

C091R157 VAMP2 < 2e-50 4.1 vesicle-associated mem-

brane protein 2

C012R133 NEFM < 2e-50 7.5 neurofilament medium

polypeptide

C104R057 < 2e-50 6

C169R093 < 2e-50 4

C230R111 HN1 < 2e-50 3.1 hematological and neu-

rological expressed 1

C026R032 NEUROD < 2e-50 6.3 neurogenic differentia-

tion factor 1

C088R093 RPAP1 < 2e-50 4.6 rna polymerase ii asso-

ciated protein 1

C003R042 < 2e-50 3.1

C156R127 ANKRD13D < 2e-50 3 ankyrin repeat domain

13 family, member d

261 Probe Gene Symbol p-value log2 FC Description

C019R167 NANOS1 < 2e-50 3.1 nanos homolog 1

(drosophila)

C149R077 < 2e-50 4.6

C122R042 EPB49 < 2e-50 3.8 erythrocyte membrane

protein band 4.9 (de-

matin)

C219R070 TMEM60 < 2e-50 3.3 transmembrane protein

60

C127R141 < 2e-50 4

C223R061 < 2e-50 5

C188R100 TMEM25 < 2e-50 5 transmembrane protein

25

C244R164 PHI-1 < 2e-50 4 protein phosphatase 1

regulatory subunit 14b

C242R010 < 2e-50 4.8

C258R042 < 2e-50 4.7

C261R084 < 2e-50 3.1

C084R109 CD209E < 2e-50 3.9 cd209e antigen

C183R087 OAT < 2e-50 4.4 ornithine aminotrans-

ferase

C248R057 < 2e-50 5.3

C034R023 < 2e-50 4

262 Probe Gene Symbol p-value log2 FC Description

C064R164 SCHIP1 < 2e-50 4 schwannomin interact-

ing protein 1

C015R109 ATP6V1G1 < 2e-50 3.3 vacuolar proton pump

subunit g 1

C090R057 ATP1A3 < 2e-50 3.2 sodium/potassium-

transporting atpase

subunit alpha-3

C088R072 < 2e-50 6.1

C032R023 TDRKH < 2e-50 3.4 tudor and kh domain

containing

C224R051 NPTX1 < 2e-50 5.8 neuronal pentraxin 1

C115R032 < 2e-50 4

C078R050 GAP43-A < 2e-50 4 neuromodulin

C265R049 < 2e-50 6.4

C080R128 TUBB3 < 2e-50 4 tubulin, beta 3

C057R140 < 2e-50 3.2

C193R106 < 2e-50 3.1

C239R065 < 2e-50 4.6

C137R155 TUBA4A < 2e-50 4 tubulin, alpha 4

C021R045 < 2e-50 4

C105R111 NELL2 < 2e-50 5.2 nel-like 2 (chicken)

C181R051 STMN1 < 2e-50 3.3 stathmin 1/oncoprotein

18

263 Probe Gene Symbol p-value log2 FC Description

C134R083 < 2e-50 8.6

C101R065 MYCBPAP < 2e-50 3.8 mycbp associated pro-

tein

C064R077 < 2e-50 4.1

C151R094 < 2e-50 7.2

C081R018 < 2e-50 3.5

C265R107 < 2e-50 4.5

C015R079 < 2e-50 3.8

C014R145 < 2e-50 6.8

C208R030 PTPRZ1 < 2e-50 3.9 protein tyrosine phos-

phatase, receptor-type,

z polypeptide 1

C253R122 < 2e-50 8.3

C079R045 Atp6v1b2 < 2e-50 3.5 atpase, h+ transport-

ing, lysosomal 56/58kd,

v1 subunit b, isoform 2

C144R072 < 2e-50 3.4

C139R008 TYK2 < 2e-50 4.3 tyrosine kinase 2

C193R026 ANXA13 < 2e-50 3.2 annexin a13

C149R008 BSDC1 < 2e-50 3.6 bsd domain-containing

protein 1

C109R168 PACS1 < 2e-50 3.9 expressed sequence

ai325977

264 Probe Gene Symbol p-value log2 FC Description

C130R132 < 2e-50 3.2

C028R070 < 2e-50 3.4

C103R101 DSCAM < 2e-50 3 down syndrome cell ad-

hesion molecule

C196R115 < 2e-50 6.5

C090R021 < 2e-50 3.7

C155R148 SVOP < 2e-50 3.6 sv2 related protein ho-

molog (rat)

C172R008 ELOVL1 < 2e-50 4 cgi-88 protein

C222R009 SEZ6L < 2e-50 5.3 seizure related gene 6

(mouse)-like

C220R123 NTRK3 < 2e-50 4.6 neurotrophic tyrosine

kinase, receptor, type 3

C148R018 < 2e-50 3.5

C187R009 < 2e-50 6.5

C163R100 KIDINS220B < 2e-50 3.1 ankyrin repeat-rich

membrane spanning

protein

C229R105 < 2e-50 3.5

C219R080 NEFL|NEFL < 2e-50 6.2 neurofilament,

light polypeptide

68kda|neurofilament,

light polypeptide 68kda

265 Probe Gene Symbol p-value log2 FC Description

C188R146 KIF3C < 2e-50 4.4 kinesin family member

3c

C052R004 CNDP2 < 2e-50 8.3 cndp dipeptidase 2

(metallopeptidase m20

family)

C126R161 < 2e-50 4.9

C239R147 < 2e-50 3.3

C249R154 ZIC1 < 2e-50 5.2 zinc finger protein zic 1

C207R048 < 2e-50 6.7

C193R147 < 2e-50 3.9

C069R060 PRUNE2 < 2e-50 4.1 bnip2 motif-containing

molecule at the c-

terminal region 1

C111R012 < 2e-50 4.4

C247R060 ATP6V1A < 2e-50 3 atpase, h+ transport-

ing, lysosomal (vacuo-

lar proton pump), alpha

polypeptide, 70kd, iso-

form 1

C220R023 < 2e-50 5.8

C201R107 CLDN6 < 2e-50 5.5 claudin 6

C020R127 < 2e-50 4.4

C064R016 < 2e-50 4

266 Probe Gene Symbol p-value log2 FC Description

C178R059 NELL2 < 2e-50 4.1 nel-like 2 (chicken)

C063R105 < 2e-50 4.4

C186R132 FABP2 < 2e-50 4.4 fatty acid binding pro-

tein 2, intestinal

C035R031 C9ORF25 < 2e-50 3.5 uncharacterized protein

c9orf25

C182R060 < 2e-50 5.4

C216R137 CKB < 2e-50 4.8 creatine kinase, brain

C118R076 CHST1 < 2e-50 3.5 zgc:100904

C188R085 < 2e-50 3.1

C101R023 < 2e-50 3.9

C076R085 < 2e-50 6.6

C212R170 < 2e-50 4.2

C218R033 DHRS12 < 2e-50 4.6 dehydrogenase/reductase

sdr family member 12

C140R152 < 2e-50 3.1

C156R059 PELI3 < 2e-50 4.9 pellino 3

C134R104 ZGC:101028 < 2e-50 5.2 zgc:101028

C116R030 XKR7 < 2e-50 3.4 xk-related protein 7

C217R095 < 2e-50 5.1

C001R085 < 2e-50 4.5

C076R135 < 2e-50 5.2

267 Probe Gene Symbol p-value log2 FC Description

C018R064 TRIM46 < 2e-50 3.3 tripartite motif-

containing protein

46

C089R082 < 2e-50 3.2

C255R072 < 2e-50 6.1

C063R044 NPTX1 < 2e-50 5.9 neuronal pentraxin 1

C064R049 < 2e-50 3.6

C176R162 FAM49A < 2e-50 4.4 family with sequence

similarity 49, member a

C034R168 < 2e-50 4.3

C214R048 EIF3A < 2e-50 4.4 eukaryotic translation

initiation factor 3

subunit a

C111R049 < 2e-50 5.2

C099R133 STXBP1 < 2e-50 6.8 syntaxin binding pro-

tein 1

C022R008 UCHL1 < 2e-50 5.7 ubiquitin carboxyl-

terminal esterase l1

(ubiquitin thiolesterase)

C168R021 < 2e-50 3.8

C089R056 < 2e-50 4.3

C066R152 CDH18 < 2e-50 3 cadherin 18, type 2

C183R137 < 2e-50 6.3

268 Probe Gene Symbol p-value log2 FC Description

C080R107 AIG1 < 2e-50 3 androgen-induced pro-

tein 1

C239R088 < 2e-50 6.8

C264R127 < 2e-50 5.3

C071R006 FKBP1A < 2e-50 4.4 fk506-binding protein

1a

C122R058 < 2e-50 4.6

C021R141 CROCC < 2e-50 4.9 rootletin

C117R001 < 2e-50 3.8

C242R155 < 2e-50 4.2

C037R053 TMBIM1 < 2e-50 5 transmembrane bax in-

hibitor motif containing

1

C250R063 < 2e-50 3.6

C137R068 < 2e-50 4.1

C249R050 < 2e-50 5.1

C217R008 < 2e-50 3.7

C075R115 ZIC5 < 2e-50 6.7 zic family member 5

(odd-paired homolog,

drosophila)

C086R130 < 2e-50 4.6

C244R032 < 2e-50 4.8

C017R148 < 2e-50 6.5

269 Probe Gene Symbol p-value log2 FC Description

C042R117 C1ORF187 < 2e-50 3.8 chromosome 1 open

reading frame 187

C016R167 < 2e-50 3.5

C233R081 ASTN1 < 2e-50 4.9 astrotactin 1

C216R007 DNER < 2e-50 5.6 delta/notch-like egf-

related receptor

C161R070 C19ORF20 < 2e-50 3.1 chromosome 19 open

reading frame 20

C094R075 < 2e-50 3.6

C239R150 PCBP3 < 2e-50 6.4 poly(rc) binding protein

3

C038R047 GRLF1 < 2e-50 5.8 glucocorticoid receptor

dna binding factor 1

C165R065 < 2e-50 3.1

C131R103 GGT7 < 2e-50 3.3 gamma-

glutamyltransferase

4 precursor

C257R146 EMB < 2e-50 5.3 embigin precursor

C163R010 RAB3B < 2e-50 4.9 ras-related protein rab-

3b

C255R136 < 2e-50 4.4

C214R118 GNB5 < 2e-50 5.3 guanine nucleotide

binding protein, beta 5

270 Probe Gene Symbol p-value log2 FC Description

C132R131 SOX3 < 2e-50 3.3 transcription factor sox-

3

C097R025 < 2e-50 4

C249R103 < 2e-50 3.5

C154R114 ANXA13 < 2e-50 4.4 annexin a13

C053R044 MDK-A < 2e-50 6.8 pleiotrophic factor-

alpha-1 precursor

C141R160 SEC31A < 2e-50 3.2 sec31-like 1 (s. cere-

visiae)

C122R065 CA8 < 2e-50 5.5 carbonic anhydrase viii

C140R019 TRAPPC2L < 2e-50 4.6 riken cdna 1810017g16

gene

C261R102 TTYH1 < 2e-50 3.9 protein tweety homolog

1

C214R086 GPM6B < 2e-50 5.4 glycoprotein m6b

C241R074 < 2e-50 3.1

C020R069 SYT12 < 2e-50 6.3 synaptotagmin-12

C204R126 MDK-A < 2e-50 7.1 pleiotrophic factor-

alpha-1 precursor

C250R040 SCG2 < 2e-50 4.9 secretogranin-2 precur-

sor

271 Probe Gene Symbol p-value log2 FC Description

C151R044 PPAPDC1A < 2e-50 3.5 phosphatidic acid phos-

phatase type 2 domain

containing 1a

C073R059 RGS7BPB < 2e-50 4.9 regulator of g-protein

signaling 7-binding pro-

tein b

C158R126 GPR3 < 2e-50 4.1 g protein-coupled recep-

tor 3

C057R132 KCNIP1 < 2e-50 3.6 kv channel-interacting

protein 1

C112R122 < 2e-50 7.5

C110R001 < 2e-50 3

C169R018 < 2e-50 3.1

C227R087 ATP1B4 < 2e-50 7.5 atpase, (na+)/k+

transporting, beta 4

polypeptide

C091R075 CD226 < 2e-50 3.4 cd226 antigen precursor

C034R142 CKMT1 < 2e-50 3.5 creatine kinase, mito-

chondrial 1, ubiquitous

C145R138 ATP6V0E2 < 2e-50 4.7 vacuolar atp synthase

subunit e 2

C136R058 < 2e-50 3.9

272 Probe Gene Symbol p-value log2 FC Description

C030R029 FAM49A < 2e-50 3.9 family with sequence

similarity 49, member a

C213R163 < 2e-50 3.8

C046R096 < 2e-50 3.6

C242R085 < 2e-50 3.5

C071R080 APOA1BP < 2e-50 3.6 zgc:92263

C209R125 DNM1 < 2e-50 3.1 dynamin-1

C179R162 DUSP14 < 2e-50 3.5 dual specificity phos-

phatase 14

C146R071 < 2e-50 3.1

C069R110 < 2e-50 4.2

C010R153 < 2e-50 6

C110R053 HES6 < 2e-50 3.3 hairy and enhancer of

split 6 (drosophila)

C037R072 SLC12A2 < 2e-50 3.2 solute carrier family 12

member 2

C026R122 CIRBP < 2e-50 3.4 cold inducible rna bind-

ing protein

C031R162 FAM49A < 2e-50 4.1 family with sequence

similarity 49, member a

C073R056 PHYHIP < 2e-50 4.5 phytanoyl-coa hydroxy-

lase interacting protein

273 Probe Gene Symbol p-value log2 FC Description

C156R097 RAP2IP < 2e-50 3.3 run domain-containing

protein 3a

C164R030 EFHD2 < 2e-50 3.4 ef-hand domain-

containing protein

d2

C209R119 < 2e-50 3.2

C172R084 LPHN3 < 2e-50 3.1 latrophilin-3 precursor

C161R079 BTBD10 < 2e-50 3.8 btb (poz) domain con-

taining 10

C145R158 < 2e-50 4.7

C250R045 TSPAN7 < 2e-50 4.3 tetraspanin 7

C084R035 < 2e-50 4.5

C187R048 CPNE2 < 2e-50 4.2 copine ii

C089R120 POU3F3B < 2e-50 4.1 pou domain protein 1

C129R071 < 2e-50 3.4

C193R108 TRIM23 < 2e-50 3.7 riken cdna 6330516o20

gene

C096R076 TDRKH < 2e-50 3.3 tudor and kh domain

containing

C067R142 SH3GL2 < 2e-50 3.8 sh3-domain grb2-like 2

C229R022 MPZ < 2e-50 5.1 myelin protein zero

(charcot-marie-tooth

neuropathy 1b)

274 Probe Gene Symbol p-value log2 FC Description

C152R066 RDH12 < 2e-50 3.2 retinol dehydrogenase

12 (all-trans and 9-cis)

C123R162 < 2e-50 3.9

C156R094 C9ORF4 < 2e-50 4 uncharacterized protein

c9orf4

C067R003 WBSCR17 < 2e-50 3.8 williams-beuren syn-

drome chromosome

region 17

C093R073 CAMK4 < 2e-50 4.6 calcium/calmodulin-

dependent protein

kinase iv

C055R103 < 2e-50 6.4

C125R054 KIAA1409 < 2e-50 4 kiaa1409

C246R154 < 2e-50 3.6

C208R071 CLDN19 < 2e-50 4 claudin 19

C067R078 KCNIP4 < 2e-50 5 kv channel-interacting

protein 4

C047R139 NRXN1 < 2e-50 3.6 neurexin-1-alpha pre-

cursor

C075R104 < 2e-50 5.2

C008R049 < 2e-50 3.7

C100R153 FAM49A < 2e-50 4.1 family with sequence

similarity 49, member a

275 Probe Gene Symbol p-value log2 FC Description

C030R053 < 2e-50 6.2

C147R039 NRN1 < 2e-50 3.9 neuritin 1

C018R152 ENO2 < 2e-50 5.3 enolase 2 (gamma, neu-

ronal)

C020R047 PVALB < 2e-50 6.8 parvalbumin, beta

C040R152 < 2e-50 3.8

C181R083 OLFM2 < 2e-50 3.1 olfactomedin 2

C133R076 GRM1 < 2e-50 3.6 glutamate receptor,

metabotropic 1

C108R148 ABHD3 < 2e-50 3.9 abhydrolase domain-

containing protein

3

C122R047 < 2e-50 3.9

C259R105 CHST1 < 2e-50 4.8 zgc:100904

C254R126 NMNAT2 < 2e-50 4.5 nicotinamide mononu-

cleotide adenylyltrans-

ferase 2

C172R099 < 2e-50 5.2

C218R131 Pisd < 2e-50 3.8 phosphatidylserine de-

carboxylase

C239R092 < 2e-50 3.9

C264R018 IRX5 < 2e-50 3.9 iroquois homeobox pro-

tein 5

276 Probe Gene Symbol p-value log2 FC Description

C043R045 < 2e-50 5.3

C152R147 < 2e-50 4.8

C191R049 < 2e-50 3.4

C228R053 < 2e-50 4

C265R119 PFKP < 2e-50 3.1 phosphofructokinase,

platelet

C046R133 < 2e-50 3.3

C013R057 < 2e-50 6.5

C125R108 TRIOBP < 2e-50 3.1 trio and f-actin binding

protein

C156R017 < 2e-50 3.8

C225R065 < 2e-50 4.3

C050R145 MARCH9 < 2e-50 3.2 e3 ubiquitin-protein lig-

ase march9

C133R094 SPOCK2 < 2e-50 3.9 testican-2 precursor

C016R024 GAD1 < 2e-50 4.3 glutamic acid decar-

boxylase

C067R111 MBP < 2e-50 6.9 myelin basic protein

C164R124 SCRT1 < 2e-50 3 transcriptional repres-

sor scratch 1

C205R130 DGAT1 < 2e-50 3.8 diacylglycerol o-

acyltransferase homolog

1 (mouse)

277 Probe Gene Symbol p-value log2 FC Description

C127R014 < 2e-50 6.3

C081R096 SLC13A3 < 2e-50 3.2 solute carrier family

13 (sodium-dependent

dicarboxylate trans-

porter), member 3

C239R067 TMEM178 < 2e-50 3.1 transmembrane protein

178 precursor

C225R010 < 2e-50 5.7

C069R056 < 2e-50 6.2

C044R088 < 2e-50 7.6

C109R059 < 2e-50 3.6

C213R098 MAB21L1 < 2e-50 4.6 protein mab-21-like 1

C122R146 < 2e-50 4.2

C007R108 NEUROD2 < 2e-50 5.1 neurogenic differentia-

tion 2

C157R111 SOX1A < 2e-50 4.3 transcription factor sox-

1a

C108R127 < 2e-50 5.3

C016R034 GABRB1 < 2e-50 3.4 gamma-aminobutyric

acid receptor subunit

beta-1 precursor

C089R051 < 2e-50 4.4

278 Probe Gene Symbol p-value log2 FC Description

C071R119 ABCC5 < 2e-50 3.4 atp-binding cassette,

sub-family c (cftr/mrp),

member 5

C161R076 < 2e-50 4.6

C238R019 NUDT9 < 2e-50 3.6 adp-ribose pyrophos-

phatase, mitochondrial

precursor

C215R081 AMPH < 2e-50 4.7 amphiphysin

C035R050 CPNE2 < 2e-50 3.5 copine ii

C006R106 SAP130 < 2e-50 3.6 sin3a-associated pro-

tein, 130kda

C239R099 < 2e-50 3.2

C124R001 < 2e-50 5

C254R151 < 2e-50 5.7

C252R135 NEUROD < 2e-50 6.6 neurogenic differentia-

tion factor 1

C015R009 < 2e-50 3.3

C017R136 < 2e-50 4.7

C230R003 < 2e-50 3.2

C213R015 SHANK2 < 2e-50 3.1 sh3 and multiple

ankyrin repeat domains

protein 2

C113R169 SGCE < 2e-50 3.2 sarcoglycan, epsilon

279 Probe Gene Symbol p-value log2 FC Description

C227R023 DHRS12 < 2e-50 7.7 dehydrogenase/reductase

sdr family member 12

C142R152 < 2e-50 4.7

C062R043 CRIP2 < 2e-50 5.4 cysteine-rich protein 2

C126R005 CD209E < 2e-50 3.4 cd209e antigen

C043R054 < 2e-50 4.1

C119R140 RUFY3 < 2e-50 3.3 protein rufy3

C058R106 SYBU < 2e-50 4.5 syntabulin

C228R161 CASQ2 < 2e-50 3.7 calsequestrin 2 (cardiac

muscle)

C103R043 ARVCF < 2e-50 4 armadillo repeat gene

deleted in velo-cardio-

facial syndrome

C011R112 SEPT5 < 2e-50 5.1 septin-5

C070R061 < 2e-50 3.8

C215R039 PPME1 < 2e-50 6.3 protein phosphatase

methylesterase 1

C188R161 PAX6 < 2e-50 4.3 paired box gene 6

(aniridia, keratitis)

280 Probe Gene Symbol p-value log2 FC Description

C214R148 TAC1 < 2e-50 4.6 tachykinin, precursor 1

(substance k, substance

p, neurokinin 1, neu-

rokinin 2, neuromedin l,

neurokinin alpha, neu-

ropeptide k, neuropep-

tide gamma)

C081R023 < 2e-50 6.7

C098R127 < 2e-50 3.2

C177R074 TSPAN3 < 2e-50 3.2 tetraspanin 3

C035R007 SYT2 < 2e-50 4 synaptotagmin-2

C146R020 TUBB2A < 2e-50 4.1 tubulin, beta 2a

C243R052 KIAA1409 < 2e-50 4.7 kiaa1409

C195R099 < 2e-50 5.8

C254R049 TULP4 < 2e-50 3 tubby-related protein 4

C058R066 SV2B < 2e-50 5.1 synaptic vesicle glyco-

protein 2b

C224R121 < 2e-50 3.5

C007R052 < 2e-50 3.8

C247R128 CLDN19 < 2e-50 3.3 claudin 19

C238R146 CALR < 2e-50 4.1 calreticulin

281 Probe Gene Symbol p-value log2 FC Description

C095R056 CNDP2 < 2e-50 8.1 cndp dipeptidase 2

(metallopeptidase m20

family)

C092R139 GABRA1 < 2e-50 5.6 gamma-aminobutyric

acid (gaba) a receptor,

alpha 1

C072R114 SPON2 < 2e-50 4.5 spondin 2, extracellular

matrix protein

C134R108 CA10 < 2e-50 3.7 carbonic anhydrase x

C088R148 KIAA1409 < 2e-50 5.1 kiaa1409

C246R033 KIF1B < 2e-50 3.1 kinesin-like protein

kif1b

C096R027 MAPK10 < 2e-50 4.1 mitogen-activated pro-

tein kinase 10

C231R031 < 2e-50 4.7

C039R080 SLC2A3 < 2e-50 4.7 glucose transporter

type 3

C250R026 < 2e-50 4.3

C194R070 SMOX < 2e-50 3.1 spermine oxidase

C079R121 DHRS12 < 2e-50 6.7 dehydrogenase/reductase

sdr family member 12

C076R144 < 2e-50 4.4

C201R044 < 2e-50 3.3

282 Probe Gene Symbol p-value log2 FC Description

C111R066 < 2e-50 3.1

C220R133 TRPC1 < 2e-50 4.8 transient receptor po-

tential cation channel,

subfamily c, member 1

C161R139 NEUROD2 < 2e-50 4.9 neurogenic differentia-

tion 2

C010R101 HAPLN2 < 2e-50 4.1 hyaluronan and proteo-

glycan link protein 2

precursor

C059R117 DPYSL5 < 2e-50 3.8 dihydropyrimidinase-

like 5

C081R169 NMNAT2 < 2e-50 4.1 nicotinamide mononu-

cleotide adenylyltrans-

ferase 2

C217R052 < 2e-50 5.2

C029R044 < 2e-50 3.2

C248R051 RIMS2 < 2e-50 5.4 regulating synaptic

membrane exocytosis 2

C070R079 < 2e-50 4.4

C227R089 NAPB < 2e-50 5.1 n-ethylmaleimide-

sensitive factor attach-

ment protein, beta

C081R135 < 2e-50 3.2

283 Probe Gene Symbol p-value log2 FC Description

C047R163 SERPINI1 < 2e-50 3.3 serpin peptidase in-

hibitor, clade i (neu-

roserpin), member

1

C230R038 FKBP1A < 2e-50 3.7 fk506-binding protein

1a

C061R016 FAM49A < 2e-50 3.5 family with sequence

similarity 49, member a

C214R127 GAD1 < 2e-50 5.1 glutamic acid decar-

boxylase

C082R083 KCNJ11 < 2e-50 3.1 potassium inwardly rec-

tifying channel, subfam-

ily j, member 11

C161R128 SEPT5 < 2e-50 3.3 septin-5

C195R007 ELAVL3 < 2e-50 3.1 elav-like protein 3

C066R090 NPTX1 < 2e-50 3.1 neuronal pentraxin 1

C249R165 < 2e-50 3.3

C118R008 < 2e-50 5.2

C080R077 < 2e-50 3.2

C233R139 < 2e-50 3.6

C080R126 < 2e-50 4.6

C014R163 DYNC1I1 < 2e-50 4.7 dynein, cytoplasmic 1,

intermediate chain 1

284 Probe Gene Symbol p-value log2 FC Description

C208R163 < 2e-50 4.3

C029R017 NEUROD < 2e-50 4.5 neurogenic differentia-

tion factor 1

C096R147 CPLX4 < 2e-50 3.3 complexin 4

C261R058 < 2e-50 4.1

C069R041 < 2e-50 4.5

C248R155 SC4MOL < 2e-50 3.3 sterol-c4-methyl

oxidase-like

C087R018 WBSCR17 < 2e-50 3.2 williams-beuren syn-

drome chromosome

region 17

C243R149 CBLN2 < 2e-50 5.9 cerebellin 2 precursor

protein

C147R163 SEZ6L < 2e-50 4.5 seizure related gene 6

(mouse)-like

C085R029 < 2e-50 3.1

C040R016 < 2e-50 4.1

C140R010 CX43 < 2e-50 5.6 connexin 43

C192R120 < 2e-50 3.8

C072R135 ADK < 2e-50 3.8 adenosine kinase

C006R052 < 2e-50 3.7

C145R144 < 2e-50 3.3

C092R160 < 2e-50 4.8

285 Probe Gene Symbol p-value log2 FC Description

C009R042 SOX1A < 2e-50 4 transcription factor sox-

1a

C220R146 < 2e-50 3.6

C255R093 TAGLN3 < 2e-50 4.5 transgelin 3

C034R069 < 2e-50 4.2

C082R032 SYBU < 2e-50 3 syntabulin

C007R036 < 2e-50 4.9

C153R125 RGS7BPB < 2e-50 3.2 regulator of g-protein

signaling 7-binding pro-

tein b

C227R081 ANK3 < 2e-50 3.5 ankyrin 3, node of ran-

vier (ankyrin g)

C180R047 < 2e-50 3.1

C166R056 < 2e-50 3.2

C179R057 < 2e-50 3.3

C078R052 ITM2C < 2e-50 4 integral membrane pro-

tein 2c

C248R160 TSPAN7 < 2e-50 4 tetraspanin 7

C169R012 < 2e-50 3.5

C222R033 SCG2 < 2e-50 4.1 secretogranin-2 precur-

sor

286 Probe Gene Symbol p-value log2 FC Description

C230R023 FAM19A2 < 2e-50 4.2 family with se-

quence similarity

19 (chemokine (c-c

motif)-like), member a2

C108R116 < 2e-50 5.6

C153R128 < 2e-50 4.4

C183R042 RAB3B < 2e-50 3.9 ras-related protein rab-

3b

C174R029 < 2e-50 3.7

C198R002 < 2e-50 4.1

C151R072 STX1B < 2e-50 5.1 syntaxin 1b2

C154R104 < 2e-50 7.4

C211R158 < 2e-50 3.4

C068R088 NLGN3 < 2e-50 3 neuroligin 3

C143R123 < 2e-50 4.4

C151R155 ENKUR < 2e-50 4 enkurin

C062R072 < 2e-50 6.1

C017R068 < 2e-50 4.8

C139R018 STX1B < 2e-50 3.9 syntaxin 1b2

C035R075 < 2e-50 3.3

287 Probe Gene Symbol p-value log2 FC Description

C053R137 GNG3 < 2e-50 3.9 guanine nucleotide-

binding protein

g(i)/g(s)/g(o) subunit

gamma-3 precursor

C198R112 < 2e-50 3

C054R088 TUBB2A < 2e-50 5.9 tubulin, beta 2a

C131R131 ZGC:86759 < 2e-50 3.3 zgc:86759

C013R048 CLDN6 < 2e-50 3.9 claudin 6

C171R120 < 2e-50 4.7

C074R155 NTNG2 < 2e-50 3.2 netrin-g2 precursor

C069R141 ATP1B4 < 2e-50 6.2 atpase, (na+)/k+

transporting, beta 4

polypeptide

C161R004 SCG3 < 2e-50 4.3 secretogranin iii

C166R013 < 2e-50 7.6

C138R083 < 2e-50 4.3

C060R145 < 2e-50 6.4

C048R151 < 2e-50 3.3

C222R012 < 2e-50 4

C225R082 SPECC1L < 2e-50 3.6 cytospin-a

C118R122 < 2e-50 3.9

288 Probe Gene Symbol p-value log2 FC Description

C162R036 KCNN2 < 2e-50 3.3 small conductance

calcium-activated

potassium channel

protein 2

C176R161 < 2e-50 8.7

C236R157 ZFYVE9 < 2e-50 3 zinc finger, fyve domain

containing 9

C218R084 < 2e-50 6.3

C138R082 CBLN1 < 2e-50 3.9 cerebellin 1 precursor

protein

C087R167 < 2e-50 3.8

C060R022 < 2e-50 3.1

C051R011 FOXG1 < 2e-50 3.5 forkhead box protein g1

C085R092 GCY-31 < 2e-50 3.2 guanylyl cyclase

C014R107 < 2e-50 4.5

C231R106 MLC1 < 2e-50 4.6 membrane protein mlc1

C255R142 < 2e-50 5.4

C120R004 < 2e-50 3.5

C062R125 < 2e-50 3.2

C215R022 GABRA1 < 2e-50 4.3 gamma-aminobutyric

acid (gaba) a receptor,

alpha 1

C143R119 LOC396454 < 2e-50 5.4 purpurin

289 Probe Gene Symbol p-value log2 FC Description

C098R070 < 2e-50 7.6

C087R147 LGI1 < 2e-50 3.1 leucine-rich repeat lgi

family, member 1

C180R064 < 2e-50 5.9

C065R069 CELF4 < 2e-50 3.4 cug-bp- and etr-3-like

factor 4

C187R054 RCVRN < 2e-50 5.4 recoverin

C265R068 NAPB < 2e-50 3.7 n-ethylmaleimide-

sensitive factor attach-

ment protein, beta

C075R025 < 2e-50 3

C024R096 HPRT1 < 2e-50 3.1 hypoxanthine gua-

nine phosphoribosyl

transferase 1

C094R111 < 2e-50 4.8

C154R168 TMEM59 < 2e-50 3 transmembrane protein

59

C118R148 < 2e-50 5.1

C199R160 < 2e-50 3.2

C105R108 < 2e-50 3.2

C244R145 MAP1B < 2e-50 4.1 microtubule-associated

protein 1b

C244R033 < 2e-50 8

290 Probe Gene Symbol p-value log2 FC Description

C223R107 NCS1 < 2e-50 3.4 neuronal calcium sensor

1

C194R136 < 2e-50 7.7

C127R145 < 2e-50 4.6

C012R101 NPTX1 < 2e-50 3.9 neuronal pentraxin 1

C186R111 NDRG4 < 2e-50 3.2 ndrg4-prov protein

C216R055 < 2e-50 4

C010R135 NECAP1 < 2e-50 4.1 necap endocytosis asso-

ciated 1

C229R117 NUDC < 2e-50 6.3 nuclear distribution

gene c homolog (a.

nidulans)

C145R160 < 2e-50 7.5

C150R117 < 2e-50 3.4

C255R010 < 2e-50 3.6

C187R164 < 2e-50 3.9

C068R092 < 2e-50 7.6

C066R112 < 2e-50 3.9

C120R032 LMNB3 < 2e-50 3.5 lamin-l(iii)

C093R133 < 2e-50 3.1

291 Probe Gene Symbol p-value log2 FC Description

C156R076 SLC1A2 < 2e-50 3.2 solute carrier family

1 (glial high affinity

glutamate transporter),

member 2

C134R102 RLBP1 < 2e-50 3.1 retinaldehyde binding

protein 1

C043R134 KIF5A < 2e-50 3.4 kinesin heavy chain iso-

form 5a

C259R093 ZIC2 < 2e-50 3.6 zic finger protein of the

cerebellum 2

C157R025 RCVRN < 2e-50 5.4 recoverin

C197R084 < 2e-50 3.8

C130R117 < 2e-50 4.2

C223R057 < 2e-50 3.4

C064R078 RCVRN < 2e-50 5.2 recoverin

C136R121 RCVRN 3.97e-50 6 recoverin

C155R067 4.41e-50 5.2

C022R139 SAG 5.25e-50 6 s-arrestin

C260R113 1.59e-49 3.3

C263R115 CPNE2 1.62e-49 3.1 copine ii

C142R093 C1ORF187 1.99e-48 3.4 chromosome 1 open

reading frame 187

C238R062 MBP 4.19e-48 4.6 myelin basic protein

292 Probe Gene Symbol p-value log2 FC Description

C195R020 LMO1 1.05e-47 3.6 lim domain only 1

C249R164 8.09e-47 7.2

C240R080 1.29e-46 4.1

C094R102 STMN4 3.61e-46 3.3 stathmin-like 4

C136R144 1.77e-45 6.5

C245R036 SLC32A1 2.07e-45 3.3 solute carrier family 32

(gaba vesicular trans-

porter), member 1

C038R008 2.17e-45 6.4

C168R022 2.60e-45 4.3

C050R072 3.55e-45 6.4

C070R121 4.93e-44 3.9

C017R056 GNAT 5.54e-43 3.4 guanine nucleotide-

binding protein g(t)

subunit alpha

C085R028 7.71e-43 3.3

C112R112 1.11e-42 3.2

C232R096 2.67e-42 3.1

C094R002 4.80e-42 6.1

C034R061 AP3B2 8.54e-42 3.6 ap-3 complex subunit

beta-2

C201R012 1.06e-41 3.2

C024R067 3.38e-41 3.6

293 Probe Gene Symbol p-value log2 FC Description

C216R013 1.25e-40 3.8

C063R092 RCVRN 3.23e-40 5.4 recoverin

C176R097 2.33e-38 5.4

C007R158 4.15e-38 3.8

C217R076 6.39e-38 4.6

C039R132 2.90e-37 4.5

C021R026 ZFP609 1.84e-36 3.5 zinc finger protein 609

C110R043 2.19e-36 7.2

C122R070 DPP10 3.46e-36 3.4 dipeptidyl-peptidase 10

C128R109 DYNLL2 5.38e-36 3.4 dynein light chain-2

C221R103 TUBA1B 3.18e-35 4.8 tubulin alpha-1b chain

C057R005 9.02e-35 3.3

C151R042 TCIRG1 2.81e-34 3.9 vacuolar proton translo-

cating atpase 116 kda

subunit a isoform 3

C105R092 3.39e-33 3.1

C243R085 3.62e-31 4.4

C186R117 LECT2 9.29e-30 3 leukocyte cell-derived

chemotaxin 2

C189R164 1.21e-28 3.5

C017R044 CBLN2 1.75e-28 3.1 cerebellin 2 precursor

protein

C215R086 MAB21L1 6.85e-28 3 protein mab-21-like 1

294 Probe Gene Symbol p-value log2 FC Description

C118R084 1.44e-27 3

C120R113 4.85e-27 3.6

C241R115 OTX2 1.11e-26 3.7 homeobox protein otx2

C260R042 2.31e-26 3.7

C125R076 DPP10 9.30e-26 3.2 dipeptidyl-peptidase 10

C211R042 HS3ST2 8.93e-25 3.4 heparan sulfate

(glucosamine) 3-o-

sulfotransferase 2

C202R040 SCHIP1 2.89e-24 3.1 schwannomin interact-

ing protein 1

C013R024 STX12 3.63e-24 3.1 syntaxin 12

C128R102 BETA3 2.25e-23 3.3 bhlh transcription fac-

tor beta3

C203R133 1.49e-22 4.3

C174R047 HSPA4L 4.33e-21 3.3 heat shock 70 kda pro-

tein 4l

C125R100 4.41e-20 3.4

C068R020 3.64e-19 3.1

C246R126 AP2B1 2.12e-18 3.1 adaptor-related protein

complex 2, beta 1 sub-

unit

C228R080 3.31e-15 3.2

C175R058 PAX6A 8.18e-15 3.5 paired box gene 6a

295 Probe Gene Symbol p-value log2 FC Description

C209R049 4.91e-11 3.5

C019R065 5.92e-11 3.8

C039R142 6.27e-11 5.5

C097R101 1.67e-10 3.1

C120R095 KIAA1467 2.19e-10 3.2 uncharacterized protein

kiaa1467

C011R036 LGI1 5.05e-10 3.4 leucine-rich repeat lgi

family, member 1

C136R154 CCDC92 5.21e-10 5 limkain beta 2

C025R093 4931408A02RIK 2.50e-07 3.7 uncharacterized protein

c21orf63 homolog pre-

cursor

C219R086 3.49e-07 3.1

C026R064 1.66e-06 3.7

C170R059 STMN1 1.72e-06 4 stathmin 1/oncoprotein

18

C240R030 SCN3B 3.71e-05 3.7 sodium channel,

voltage-gated, type

iii, beta

C068R133 CRX-B 0.00326 3.3 homeobox protein otx5-

b

C148R068 DENND5B 0.00563 3 rab6ip1-like protein

C181R017 DPP10 0.00585 3 dipeptidyl-peptidase 10

296 B.2 Gill-Specific Probes

Probe Gene Symbol p-value log2 FC Description

C011R008 CLDN4 < 2e-50 5.60 claudin-4

C016R144 < 2e-50 4.10

C023R110 EPS8L1 < 2e-50 4.60 eps8-like 1

C027R077 Pip5kl1 < 2e-50 4.00 phosphatidylinositol-4-

phosphate 5-kinase-like

1

C028R051 CLDN4 < 2e-50 5.60 claudin-4

C028R073 < 2e-50 5.00

C031R044 AGR3 < 2e-50 6.20 breast cancer mem-

brane protein 11

C035R056 < 2e-50 7.40

C041R097 PLEC < 2e-50 5.40 plectin-1

C048R165 < 2e-50 4.70

C050R132 ARPC1A < 2e-50 4.40 actin related protein

2/3 complex, subunit

1a, 41kda

C071R015 SPINT2 < 2e-50 5.10 serine protease in-

hibitor, kunitz type

2

C073R062 < 2e-50 7.30

C073R075 < 2e-50 4.50

297 Probe Gene Symbol p-value log2 FC Description

C074R021 < 2e-50 4.70

C094R012 < 2e-50 5.40

C094R118 GCM2 < 2e-50 5.70 glial cells missing ho-

molog (drosophila), re-

lated sequence 2

C096R013 < 2e-50 4.50

C098R102 < 2e-50 7.10

C099R099 < 2e-50 6.80

C110R009 < 2e-50 3.80

C116R009 < 2e-50 3.80

C121R058 CLDN4 < 2e-50 5.70 claudin-4

C121R166 < 2e-50 4.90

C124R044 CLDN4 < 2e-50 5.70 claudin-4

C128R004 PTGIS < 2e-50 3.90 prostacyclin synthase

C143R062 < 2e-50 5.10

C149R016 CAPN2 < 2e-50 3.90 calpain 2, (m/ii) large

subunit

C149R022 CLDN4 < 2e-50 7.80 claudin-4

C169R119 < 2e-50 5.00

C170R054 ARAP1 < 2e-50 3.70 centaurin-delta-2

C176R143 ELF3 < 2e-50 4.40 e74-like factor 3

C177R004 BCL10 < 2e-50 3.30 b-cell

leukemia/lymphoma 10

298 Probe Gene Symbol p-value log2 FC Description

C178R006 CAPNS1 < 2e-50 3.30 calpain, small subunit 1

C181R011 ZGC:91985 < 2e-50 5.00 zgc:91985

C183R016 CLDN4 < 2e-50 5.40 claudin-4

C189R067 < 2e-50 7.40

C191R034 KLF4 < 2e-50 5.40 kruppel-like factor 4

(gut)

C191R068 S100A11 < 2e-50 8.60 s100 calcium binding

protein a11 (calgiz-

zarin)

C202R005 EPCAM < 2e-50 5.70 tumor-associated cal-

cium signal transducer

1 precursor

C208R144 < 2e-50 3.70

C213R120 < 2e-50 8.00

C229R078 CLDN3 < 2e-50 6.80 claudin 3

C232R052 < 2e-50 5.20

C233R057 < 2e-50 8.00

C233R106 < 2e-50 6.90

C240R137 < 2e-50 4.90

C242R062 < 2e-50 4.00

C248R016 FAM3C < 2e-50 5.30 protein fam3c precursor

C249R064 DNASE1L3 < 2e-50 3.30 deoxyribonuclease i-like

3

299 Probe Gene Symbol p-value log2 FC Description

C249R077 GPR116 < 2e-50 7.50 g protein-coupled recep-

tor 116

C253R088 DNASE1L3 < 2e-50 6.60 deoxyribonuclease i-like

3

C254R061 < 2e-50 7.40

C260R133 < 2e-50 7.70

C215R002 TPSG1 < 2e-50 6.90 tryptase gamma precur-

sor

C184R075 FAM3C < 2e-50 5.60 protein fam3c precursor

C107R021 < 2e-50 4.90

C184R024 < 2e-50 3.40

C166R069 UPK1A < 2e-50 4.80 uroplakin-1a

C149R049 SPINT1 < 2e-50 4.10 serine peptidase in-

hibitor, kunitz type

1

C044R118 LRRC8E < 2e-50 4.00 leucine-rich repeat-

containing protein

8e

C010R128 AHNAK < 2e-50 5.50 ahnak nucleoprotein

(desmoyokin)

C115R060 < 2e-50 4.90

C119R134 < 2e-50 4.50

300 Probe Gene Symbol p-value log2 FC Description

C059R082 SFT2D2 < 2e-50 4.40 sft2 domain containing

2

C157R084 < 2e-50 6.40

C175R003 < 2e-50 6.20

C248R077 < 2e-50 6.60

C182R143 < 2e-50 5.40

C246R012 HTRA1 < 2e-50 4.30 htra serine peptidase 1

C221R069 DNASE1L3 < 2e-50 5.80 deoxyribonuclease i-like

3

C061R108 CLDN4 < 2e-50 5.80 claudin-4

C253R104 RHBDL2 < 2e-50 3.70 rhomboid, veinlet-like 2

(drosophila)

C108R040 ITPKA < 2e-50 4.60 inositol 1,4,5-

trisphosphate 3-kinase

a

C103R143 < 2e-50 3.70

C237R020 < 2e-50 4.30

C240R073 NFKBIZ < 2e-50 5.10 nf-kappa-b inhibitor

zeta

C195R152 SCEL < 2e-50 7.10 sciellin

C196R049 CAPNS1 < 2e-50 4.00 calpain, small subunit 1

C128R096 < 2e-50 5.20

C038R055 < 2e-50 4.10

301 Probe Gene Symbol p-value log2 FC Description

C081R083 DNASE1L3 < 2e-50 6.20 deoxyribonuclease i-like

3

C102R134 CLDN4 < 2e-50 6.60 claudin-4

C119R025 < 2e-50 3.40

C127R031 < 2e-50 4.40

C203R062 SCEL < 2e-50 7.00 sciellin

C197R110 RHBDL2 < 2e-50 3.50 rhomboid, veinlet-like 2

(drosophila)

C179R010 MYL9 < 2e-50 3.90 myosin, light polypep-

tide 9, regulatory

C107R065 DNASE1L3 < 2e-50 6.00 deoxyribonuclease i-like

3

C099R075 KRT8|KRT8 < 2e-50 5.60 keratin 8|keratin 8

C119R108 < 2e-50 3.90

C055R075 CLDN7B < 2e-50 4.40 claudin-like protein

zf4a22

C185R154 DNASE1L3 < 2e-50 6.10 deoxyribonuclease i-like

3

C014R030 TMEM30B < 2e-50 4.70 transmembrane protein

30b

C027R159 IQGAP1 < 2e-50 3.70 iq motif containing gt-

pase activating protein

1

302 Probe Gene Symbol p-value log2 FC Description

C209R060 < 2e-50 3.70

C058R169 < 2e-50 4.70

C251R145 < 2e-50 3.80

C189R133 ANKRD22 < 2e-50 4.70 ankyrin repeat domain

22

C107R061 < 2e-50 3.70

C167R169 SCEL < 2e-50 6.80 sciellin

C201R005 KRT8|KRT8 < 2e-50 6.00 keratin 8|keratin 8

C031R135 BCL2L12 < 2e-50 4.40 bcl-2-related proline-

rich protein

C099R073 < 2e-50 5.50

C224R065 EVPL < 2e-50 5.80 envoplakin

C075R036 EVPL < 2e-50 8.10 envoplakin

C111R127 < 2e-50 5.40

C015R133 LGALS4 < 2e-50 5.90 l-36 lactose binding pro-

tein

C028R047 ZGC:92849 < 2e-50 4.70 ras-related and

estrogen-regulated

growth inhibitor-like

protein

C025R047 PSD4 < 2e-50 4.30 pleckstrin and sec7 do-

main containing 4

C256R062 < 2e-50 4.70

303 Probe Gene Symbol p-value log2 FC Description

C234R106 < 2e-50 7.30

C123R054 < 2e-50 6.40

C158R121 CAPNS1 < 2e-50 4.00 calpain, small subunit 1

C086R035 CLDN4 < 2e-50 6.00 claudin-4

C165R074 RNF222 < 2e-50 4.00 ring finger protein

loc643904 homolog

C110R016 DLX5A < 2e-50 3.80 distal-less homeobox

gene 5a

C065R048 < 2e-50 5.40

C113R047 < 2e-50 6.90

C247R155 < 2e-50 5.10

C205R098 < 2e-50 6.90

C013R063 < 2e-50 4.10

C155R133 GIMAP7 < 2e-50 7.50 gtpase, imap family

member 7

C221R004 TSPAN15 < 2e-50 3.90 tetraspanin-15

C235R050 PRSS27 < 2e-50 6.50 protease, serine 27

C235R127 < 2e-50 5.80

C176R099 LRRC8E < 2e-50 3.70 leucine-rich repeat-

containing protein

8e

304 Probe Gene Symbol p-value log2 FC Description

C090R026 PSMB7 < 2e-50 3.50 proteasome (prosome,

macropain) subunit,

beta type 7

C229R149 < 2e-50 7.50

C130R161 < 2e-50 6.50

C073R127 MAL < 2e-50 5.50 mal, t-cell differentia-

tion protein

C095R053 GDPD3 < 2e-50 5.60 glycerophosphodiester

phosphodiesterase

domain-containing

protein 3

C042R123 < 2e-50 4.20

C026R019 GLO1 < 2e-50 5.00 glyoxylase 1

C100R093 < 2e-50 7.20

C259R082 PAX1 < 2e-50 5.30 paired box gene 1

C130R106 IQGAP1 < 2e-50 3.70 iq motif containing gt-

pase activating protein

1

C130R020 MRC2 < 2e-50 5.30 mannose receptor, c

type 2

C265R141 < 2e-50 4.20

C209R131 < 2e-50 5.30

C033R122 < 2e-50 5.40

305 Probe Gene Symbol p-value log2 FC Description

C066R083 CLDN7B < 2e-50 4.30 claudin-like protein

zf4a22

C054R107 KCNJ10 < 2e-50 5.50 atp-sensitive inward

rectifier potassium

channel 10

C183R073 < 2e-50 4.20

C146R047 MYOF < 2e-50 4.90 myoferlin

C243R106 PSMB6 < 2e-50 3.00 proteasome (prosome,

macropain) subunit,

beta type, 6

C125R030 < 2e-50 3.70

C137R043 < 2e-50 6.90

C151R100 KRT8|KRT8 < 2e-50 5.50 keratin 8|keratin 8

C067R138 < 2e-50 6.30

C131R048 DHRS13 < 2e-50 5.20 riken cdna 2610209n15

gene

C241R013 CLDND < 2e-50 5.20 claudin d

C155R070 < 2e-50 7.40

C199R053 < 2e-50 3.70

C085R169 < 2e-50 3.20

C244R015 < 2e-50 5.10

C168R146 < 2e-50 3.70

306 Probe Gene Symbol p-value log2 FC Description

C062R106 FERMT1 < 2e-50 4.00 fermitin family homolog

1

C021R014 UPK3B < 2e-50 5.60 uroplakin-3b precursor

C182R151 PTGR1 < 2e-50 3.40 nadp-dependent

leukotriene b4 12-

hydroxydehydrogenase

C112R086 < 2e-50 5.10

C072R036 PSMB6 < 2e-50 3.70 proteasome (prosome,

macropain) subunit,

beta type, 6

C070R046 < 2e-50 6.80

C068R024 SLC37A1 < 2e-50 3.60 solute carrier family 37

(glycerol-3-phosphate

transporter), member 1

C256R160 < 2e-50 3.80

C229R157 < 2e-50 4.00

C102R035 OSBPL6 < 2e-50 6.60 oxysterol binding

protein-like 6

C099R032 < 2e-50 5.30

C209R096 EXOC3L2 < 2e-50 4.50 exocyst complex com-

ponent 3-like protein 2

C026R076 KRT8|KRT8 < 2e-50 6.80 keratin 8|keratin 8

307 Probe Gene Symbol p-value log2 FC Description

C129R124 PSMB7 < 2e-50 3.00 proteasome (prosome,

macropain) subunit,

beta type 7

C163R007 < 2e-50 5.60

C061R147 < 2e-50 4.60

C182R096 < 2e-50 5.50

C067R005 PRSS27 < 2e-50 5.90 protease, serine 27

C146R100 < 2e-50 4.70

C216R048 < 2e-50 3.30

C113R092 < 2e-50 4.70

C215R012 DEGS2 < 2e-50 5.40 sphingolipid delta(4)-

desaturase/c4-

hydroxylase des2

C098R154 FOXC1 < 2e-50 3.10 forkhead box c1

C087R166 RAB11A < 2e-50 4.80 ras-related protein

rab11

C251R085 < 2e-50 7.20

C210R135 < 2e-50 4.40

C023R047 < 2e-50 4.00

C249R073 PAX1 < 2e-50 5.50 paired box gene 1

C237R094 TRIM16|TRIM16 < 2e-50 5.20 tripartite motif-

containing 16|tripartite

motif-containing 16

308 Probe Gene Symbol p-value log2 FC Description

C028R108 RHBG < 2e-50 7.00 rhesus blood group, b

glycoprotein

C088R080 DLX4B < 2e-50 5.50 distal-less homeobox

gene 4b

C230R136 < 2e-50 6.90

C088R076 < 2e-50 3.50

C221R077 CLDN8 < 2e-50 5.30 claudin 8

C072R067 < 2e-50 4.20

C066R027 < 2e-50 6.60

C213R063 < 2e-50 4.00

C163R063 FERMT3 < 2e-50 3.20 fermitin family homolog

3

C092R061 < 2e-50 4.30

C095R081 RHBG < 2e-50 7.10 rhesus blood group, b

glycoprotein

C214R028 < 2e-50 3.90

C010R038 DNASE1L3 < 2e-50 5.90 deoxyribonuclease i-like

3

C173R131 < 2e-50 6.60

C139R061 RGS5 < 2e-50 5.80 regulator of g-protein

signalling 5

C215R145 < 2e-50 3.60

309 Probe Gene Symbol p-value log2 FC Description

C039R114 GSN < 2e-50 5.30 gelsolin (amyloidosis,

finnish type)

C150R156 RHBDD1 < 2e-50 5.80 rhomboid domain-

containing protein

1

C082R105 LCP2 < 2e-50 3.10 lymphocyte cytosolic

protein 2 (sh2 domain

containing leukocyte

protein of 76kda)

C097R059 < 2e-50 3.30

C067R010 OCLN < 2e-50 4.30 occludin

C049R092 < 2e-50 3.50

C152R061 HES1 < 2e-50 3.20 hairy and enhancer of

split 1, (drosophila)

C196R037 < 2e-50 8.80

C012R041 < 2e-50 4.60

C244R012 TBX1 < 2e-50 5.30 t-box 1

C205R145 < 2e-50 5.20

C084R011 DEGS2 < 2e-50 3.40 sphingolipid delta(4)-

desaturase/c4-

hydroxylase des2

C067R059 CAPN5 < 2e-50 4.70 calpain 5

C076R113 TGM5 < 2e-50 4.30 transglutaminase 5

310 Probe Gene Symbol p-value log2 FC Description

C203R087 GSN < 2e-50 5.10 gelsolin (amyloidosis,

finnish type)

C261R014 < 2e-50 3.00

C125R133 SPINT1 < 2e-50 5.10 serine peptidase in-

hibitor, kunitz type

1

C020R092 ANXA2-A < 2e-50 3.80 annexin a2-a

C106R040 TPRG1L < 2e-50 4.30 tumor protein p63-

regulated gene 1-like

protein

C098R068 < 2e-50 5.50

C075R165 < 2e-50 3.80

C235R167 < 2e-50 7.20

C186R068 < 2e-50 7.10

C006R029 AIM1 < 2e-50 5.40 absent in melanoma 1

C092R028 PRSS27 < 2e-50 7.00 protease, serine 27

C107R047 PLOD3 < 2e-50 6.90 procollagen-lysine,

2-oxoglutarate 5-

dioxygenase 3

C215R146 CLDN8 < 2e-50 5.90 claudin 8

C203R084 < 2e-50 5.00

C184R135 ITGAE < 2e-50 3.30 integrin, alpha e,

epithelial-associated

311 Probe Gene Symbol p-value log2 FC Description

C232R023 VAMP8 < 2e-50 4.60 vesicle-associated mem-

brane protein 8

C126R169 FAM3C < 2e-50 4.50 protein fam3c precursor

C053R114 DMRTA1 < 2e-50 5.40 doublesex- and mab-

3-related transcription

factor a1

C048R158 SCEL < 2e-50 6.90 sciellin

C063R163 < 2e-50 4.10

C163R148 GSN < 2e-50 5.30 gelsolin (amyloidosis,

finnish type)

C075R127 TTC22 < 2e-50 3.70 tetratricopeptide repeat

protein 22

C048R068 < 2e-50 3.70

C038R037 < 2e-50 6.80

C235R149 < 2e-50 6.50

C119R059 BTK < 2e-50 4.00 bruton agammaglobu-

linemia tyrosine kinase

C118R056 < 2e-50 3.90

C209R095 < 2e-50 6.50

C089R049 GGH < 2e-50 3.50 gamma-glutamyl hy-

drolase (conjugase,

folylpolygammaglu-

tamyl hydrolase)

312 Probe Gene Symbol p-value log2 FC Description

C204R072 < 2e-50 3.00

C122R041 BTN2A1 < 2e-50 3.80 butyrophilin subfamily

2 member a1 precursor

C068R123 MUC5B < 2e-50 7.00 mucin-5b precursor

C125R087 < 2e-50 4.10

C021R032 < 2e-50 5.20

C079R021 RAMP1 < 2e-50 4.40 receptor (calcitonin) ac-

tivity modifying protein

1

C053R014 < 2e-50 6.10

C124R072 < 2e-50 3.60

C134R125 < 2e-50 5.60

C161R157 < 2e-50 4.20

C127R170 EHF < 2e-50 4.80 ets homologous factor

C247R041 < 2e-50 6.60

C028R057 C20ORF118 < 2e-50 3.30 uncharacterized protein

c20orf118

C125R148 < 2e-50 7.10

C092R144 < 2e-50 4.60

C134R006 < 2e-50 5.70

C216R141 PSMB7 < 2e-50 3.60 proteasome (prosome,

macropain) subunit,

beta type 7

313 Probe Gene Symbol p-value log2 FC Description

C215R130 RAB25 < 2e-50 4.60 rab25, member ras

oncogene family

C070R056 TACSTD2 < 2e-50 4.50 tumor-associated cal-

cium signal transducer

2

C231R067 < 2e-50 4.90

C173R103 < 2e-50 7.20

C260R140 < 2e-50 7.00

C124R148 MAL < 2e-50 6.00 mal, t-cell differentia-

tion protein

C158R098 RHBDL2 < 2e-50 4.00 rhomboid, veinlet-like 2

(drosophila)

C212R121 RGS5 < 2e-50 3.10 regulator of g-protein

signalling 5

C117R018 PRRG2 < 2e-50 3.70 proline-rich gla (g-

carboxyglutamic acid)

polypeptide 2

C159R008 RGS5 < 2e-50 3.00 regulator of g-protein

signalling 5

C027R083 < 2e-50 3.70

C161R007 < 2e-50 3.60

C120R057 < 2e-50 4.60

C235R027 < 2e-50 6.80

314 Probe Gene Symbol p-value log2 FC Description

C051R143 < 2e-50 7.30

C237R112 NADK < 2e-50 4.20 nad kinase

C212R077 < 2e-50 4.00

C138R056 EVPL < 2e-50 5.60 envoplakin

C059R002 TAGLN < 2e-50 3.80 transgelin

C266R047 < 2e-50 4.40

C186R031 FOXF2 < 2e-50 4.00 forkhead box protein f2

C161R073 CLDN4 < 2e-50 4.70 claudin-4

C026R123 PARP15 < 2e-50 3.50 poly (adp-ribose) poly-

merase family, member

15

C266R120 < 2e-50 4.80

C177R113 SYTL4 < 2e-50 3.30 synaptotagmin-like 4

C176R144 DNASE1L3 < 2e-50 5.30 deoxyribonuclease i-like

3

C138R150 < 2e-50 3.30

C180R042 5730559C18RIK < 2e-50 4.50 uncharacterized protein

c1orf106 homolog

C011R085 CA12 < 2e-50 6.90 carbonic anhydrase xii

C170R117 MYH9 < 2e-50 7.00 myosin, heavy polypep-

tide 9, non-muscle

C035R080 < 2e-50 3.10

C176R004 ARAP1 < 2e-50 3.20 centaurin-delta-2

315 Probe Gene Symbol p-value log2 FC Description

C246R138 TACSTD2 < 2e-50 4.40 tumor-associated cal-

cium signal transducer

2

C063R030 TACSTD2 < 2e-50 4.70 tumor-associated cal-

cium signal transducer

2

C006R036 < 2e-50 4.60

C031R035 MCTP2 < 2e-50 4.30 multiple c2 and trans-

membrane domain-

containing protein

2

C181R094 < 2e-50 4.70

C114R119 CXCR4 < 2e-50 3.80 chemokine (c-x-c motif)

receptor 4

C058R147 CAPN9 < 2e-50 6.90 calpain 9

C262R100 PLOD3 < 2e-50 6.40 procollagen-lysine,

2-oxoglutarate 5-

dioxygenase 3

C217R121 < 2e-50 8.30

C214R135 < 2e-50 7.30

C116R098 COL10A1 < 2e-50 5.20 collagen, type x, al-

pha 1(schmid metaphy-

seal chondrodysplasia)

316 Probe Gene Symbol p-value log2 FC Description

C040R125 < 2e-50 4.70

C225R020 < 2e-50 6.90

C248R032 SLC9A3 < 2e-50 5.90 solute carrier family 9,

member 3

C033R059 < 2e-50 4.10

C184R018 COL10A1 < 2e-50 5.20 collagen, type x, al-

pha 1(schmid metaphy-

seal chondrodysplasia)

C169R129 CAPG < 2e-50 6.30 capping protein (actin

filament), gelsolin-like

C026R092 < 2e-50 4.00

C203R162 < 2e-50 6.30

C200R148 < 2e-50 3.40

C101R033 < 2e-50 3.30

C066R127 < 2e-50 4.60

C115R009 ELOVL7 < 2e-50 3.40 elongation of very long

chain fatty acids protein

7

C161R058 < 2e-50 6.80

C167R089 < 2e-50 5.50

C106R076 RGS2 < 2e-50 5.10 regulator of g-protein

signalling 2, 24kda

C018R055 < 2e-50 5.10

317 Probe Gene Symbol p-value log2 FC Description

C099R030 < 2e-50 5.50

C152R035 CLDN4 < 2e-50 5.10 claudin-4

C173R073 < 2e-50 3.60

C252R015 slc4a1 < 2e-50 5.40 solute carrier family

4, anion exchanger,

member 1 (erythrocyte

membrane protein band

3, diego blood group)

C038R045 < 2e-50 3.40

C153R133 < 2e-50 5.30

C189R084 < 2e-50 5.20

C028R125 GDPD2 < 2e-50 3.40 glycerophosphodiester

phosphodiesterase

domain containing 2

C048R157 LYVE1 < 2e-50 3.80 extra cellular link

domain-containing 1

C127R028 < 2e-50 4.70

C119R014 KRT20 < 2e-50 6.90 keratin 20

C251R046 PRSS27 < 2e-50 6.30 protease, serine 27

C089R077 ANXA2 < 2e-50 4.30 annexin a2

C012R016 ANKRD22 < 2e-50 3.60 ankyrin repeat domain

22

C161R117 < 2e-50 7.60

318 Probe Gene Symbol p-value log2 FC Description

C147R127 < 2e-50 4.40

C070R013 GLO1 < 2e-50 4.50 glyoxylase 1

C223R026 < 2e-50 4.00

C142R063 ABCB9 < 2e-50 3.30 atp-binding cassette,

sub-family b (mdr/tap),

member 9

C048R101 < 2e-50 4.90

C110R033 CNOT10 < 2e-50 3.50 ccr4-not transcription

complex subunit 10

C228R005 GPR116 < 2e-50 4.40 g protein-coupled recep-

tor 116

C110R116 < 2e-50 7.00

C034R076 TAGLN < 2e-50 3.90 transgelin

C023R125 < 2e-50 5.40

C169R168 ALOX12B < 2e-50 4.70 arachidonate 12-

lipoxygenase, 12r type

C047R008 AHCYL2 < 2e-50 4.40 putative adenosylhomo-

cysteinase 3

C217R069 RHAG < 2e-50 4.20 rh-associated glycopro-

tein

C196R170 MAL < 2e-50 6.30 mal, t-cell differentia-

tion protein

C120R150 SH2D1A < 2e-50 5.50 sh2 domain protein 1a

319 Probe Gene Symbol p-value log2 FC Description

C022R106 < 2e-50 5.50

C226R077 < 2e-50 6.50

C113R034 CAPN9 < 2e-50 6.60 calpain 9

C032R089 < 2e-50 5.90

C027R047 < 2e-50 3.70

C041R152 RAMP1 < 2e-50 3.70 receptor (calcitonin) ac-

tivity modifying protein

1

C080R142 < 2e-50 4.50

C213R165 RHOF < 2e-50 3.20 ras homolog gene fam-

ily, member f

C225R114 MSLNL < 2e-50 6.00 mesothelin-like protein

precursor

C112R030 FCGBP < 2e-50 5.60 fc fragment of igg bind-

ing protein

C060R062 GPR109A < 2e-50 3.70 g protein-coupled recep-

tor 109a

C151R114 < 2e-50 5.70

C059R006 COL10A1 < 2e-50 4.60 collagen, type x, al-

pha 1(schmid metaphy-

seal chondrodysplasia)

C206R118 < 2e-50 5.60

320 Probe Gene Symbol p-value log2 FC Description

C141R153 RGS2 < 2e-50 4.10 regulator of g-protein

signalling 2, 24kda

C041R105 < 2e-50 3.60

C145R139 FCGBP < 2e-50 3.30 fc fragment of igg bind-

ing protein

C132R128 < 2e-50 4.70

C021R108 MEFV < 2e-50 4.80 mediterranean fever

C236R043 < 2e-50 4.60

C198R087 < 2e-50 3.00

C007R139 < 2e-50 4.80

C137R126 < 2e-50 3.90

C094R166 < 2e-50 5.00

C035R139 CLDN4 < 2e-50 4.40 claudin-4

C193R133 RAB11FIP2 < 2e-50 3.00 rab11 family interacting

protein 2 (class i)

C061R057 PRRG4 < 2e-50 4.80 transmembrane

gamma-

carboxyglutamic acid

protein 4 precursor

C134R086 ACTA2 < 2e-50 3.40 actin, alpha 2, smooth

muscle, aorta

C166R125 < 2e-50 4.20

C196R058 < 2e-50 3.70

321 Probe Gene Symbol p-value log2 FC Description

C121R057 < 2e-50 3.90

C037R009 SGK2 < 2e-50 3.40 serum/glucocorticoid

regulated kinase 2

C224R007 < 2e-50 3.90

C082R137 CA4 < 2e-50 8.80 carbonic anhydrase 4

precursor

C246R120 CLDN4 < 2e-50 4.60 claudin-4

C179R108 < 2e-50 3.30

C038R017 < 2e-50 5.00

C062R008 < 2e-50 7.40

C047R095 PRKCH < 2e-50 4.20 protein kinase c, eta

C215R090 EVPL < 2e-50 5.20 envoplakin

C153R144 < 2e-50 3.50

C153R160 TMEM30B < 2e-50 3.60 transmembrane protein

30b

C114R127 < 2e-50 7.80

C161R063 < 2e-50 4.80

C068R148 < 2e-50 3.10

C058R059 TBC1D24 < 2e-50 4.50 tbc1 domain family

member 24

C243R057 CERK < 2e-50 4.20 ceramide kinase

C261R130 < 2e-50 3.20

322 Probe Gene Symbol p-value log2 FC Description

C092R126 RGS2 < 2e-50 4.60 regulator of g-protein

signalling 2, 24kda

C089R015 GPRC6A < 2e-50 3.70 g-protein coupled recep-

tor family c group 6

member a precursor

C236R062 IFI44 < 2e-50 3.60 interferon-induced pro-

tein 44

C130R073 KRT8|KRT8 < 2e-50 5.60 keratin 8|keratin 8

C165R007 NEK1 < 2e-50 4.70 nima (never in mitosis

gene a)-related kinase 1

C087R008 < 2e-50 5.30

C103R050 ZC3H15 < 2e-50 6.40 likely ortholog of mouse

immediate early re-

sponse, erythropoietin

4

C165R057 < 2e-50 3.30

C041R167 PECAM1 < 2e-50 3.50 platelet/endothelial

cell adhesion molecule

(cd31 antigen)

C134R144 GRHL1 < 2e-50 3.40 grainyhead-like protein

1 homolog

323 Probe Gene Symbol p-value log2 FC Description

C174R006 ART1 < 2e-50 4.60 gpi-linked nad(p)(+)–

arginine adp-

ribosyltransferase 1

precursor

C141R115 < 2e-50 3.40

C233R015 < 2e-50 5.60

C130R166 < 2e-50 3.80

C137R107 GREM1 < 2e-50 3.30 gremlin 1 homolog, cys-

teine knot superfamily

(xenopus laevis)

C157R087 < 2e-50 3.70

C087R070 TNNI1 < 2e-50 3.40 troponin i, skeletal, slow

1

C262R050 S100A1 < 2e-50 5.00 s100 calcium binding

protein a1

C222R103 DNASE1L3 < 2e-50 3.60 deoxyribonuclease i-like

3

C191R096 CAPN9 < 2e-50 4.70 calpain 9

C030R042 ABCB1B < 2e-50 6.10 atp-binding cassette,

sub-family b (mdr/tap),

member 1b

C220R018 < 2e-50 3.30

324 Probe Gene Symbol p-value log2 FC Description

C085R130 SPINT1 < 2e-50 3.90 serine peptidase in-

hibitor, kunitz type

1

C168R092 < 2e-50 5.40

C021R111 < 2e-50 4.50

C077R062 < 2e-50 4.10

C150R130 < 2e-50 3.80

C223R094 < 2e-50 4.00

C067R128 < 2e-50 3.90

C072R001 DBNL < 2e-50 4.30 drebrin-like

C225R123 CD276 < 2e-50 4.40 cd276 antigen

C009R091 FBLN1 < 2e-50 4.70 fibulin 1

C092R081 < 2e-50 3.20

C043R149 GJB3 < 2e-50 3.40 gap junction beta-3 pro-

tein

C077R022 RAMP1 < 2e-50 3.50 receptor (calcitonin) ac-

tivity modifying protein

1

C134R038 < 2e-50 3.90

C234R033 SPINT2 < 2e-50 4.60 serine protease in-

hibitor, kunitz type

2

325 Probe Gene Symbol p-value log2 FC Description

C151R003 TRIM16|TRIM16 < 2e-50 3.30 tripartite motif-

containing 16|tripartite

motif-containing 16

C119R115 PITX1 < 2e-50 3.10 pituitary homeobox 1

C140R008 FOXQ1 < 2e-50 3.70 forkhead box q1

C193R122 LCK < 2e-50 3.50 lymphocyte-specific

protein tyrosine kinase

C043R057 TNNI1 < 2e-50 3.30 troponin i, skeletal, slow

1

C026R060 WAS < 2e-50 3.20 wiskott-aldrich syn-

drome protein

C050R020 < 2e-50 5.20

C152R082 MPO < 2e-50 6.80 myeloperoxidase

C141R025 < 2e-50 3.20

C051R015 < 2e-50 4.50

C264R144 LITAF < 2e-50 3.10 lipopolysaccharide-

induced tnf factor

C021R083 KRT8|KRT8 < 2e-50 6.40 keratin 8|keratin 8

C040R079 CLDN5 < 2e-50 4.90 claudin 5

C082R079 < 2e-50 3.90

C040R022 < 2e-50 3.90

C055R137 ZAP70 < 2e-50 4.00 zeta-chain (tcr) associ-

ated protein kinase

326 Probe Gene Symbol p-value log2 FC Description

C263R081 < 2e-50 3.40

C130R095 < 2e-50 3.70

C208R056 < 2e-50 3.30

C060R081 C1QTNF9 < 2e-50 3.80 spermatogenesis associ-

ated 13

C032R100 MPO < 2e-50 4.20 myeloperoxidase

C210R076 < 2e-50 3.90

C115R102 LDLRAP1 < 2e-50 3.90 low density lipoprotein

receptor adaptor pro-

tein 1

C162R093 ZNF217 < 2e-50 4.30 zinc finger protein 217

C211R123 < 2e-50 3.40

C080R104 SPINT1 < 2e-50 3.80 serine peptidase in-

hibitor, kunitz type

1

C103R049 < 2e-50 5.60

C042R155 ANG < 2e-50 6.10 angiogenin, ribonucle-

ase a family, member 1

C245R152 < 2e-50 3.90

C187R046 MSLNL < 2e-50 4.60 mesothelin-like protein

precursor

C042R122 < 2e-50 4.40

327 Probe Gene Symbol p-value log2 FC Description

C217R104 TWIST2 < 2e-50 3.80 twist homolog 2

(drosophila)

C106R090 < 2e-50 4.50

C162R077 < 2e-50 6.80

C212R001 < 2e-50 5.10

C134R079 TSPAN1 < 2e-50 3.10 similar to tetraspanin-1

(tspan-1) (tetraspan

net-1) (tetraspanin

tm4-c)

C231R108 < 2e-50 4.20

C240R068 < 2e-50 4.60

C140R014 PRSS27 < 2e-50 5.20 protease, serine 27

C061R008 FGFBP1|LOC783341 < 2e-50 4.20 fibroblast growth fac-

tor binding protein

1|fibroblast growth

factor-binding protein 1

precursor

C053R002 RHCG1 < 2e-50 3.70 ammonium transporter

rh type c 1

C254R010 < 2e-50 4.10

C033R159 DTX3L < 2e-50 6.40 deltex 3-like

(drosophila)

C048R116 < 2e-50 4.10

328 Probe Gene Symbol p-value log2 FC Description

C068R106 < 2e-50 6.50

C237R060 BARX1 < 2e-50 4.10 barh-like homeobox 1

C041R138 RV1301|MT1340 < 2e-50 3.50 uncharacterized protein

rv1301/mt1340|uncharacterized

protein rv1301/mt1340

C097R132 < 2e-50 3.10

C093R094 < 2e-50 4.10

C019R109 < 2e-50 5.10

C177R101 MYBPC1 < 2e-50 3.60 myosin binding protein

c, slow type

C082R039 SPINT1 < 2e-50 3.20 serine peptidase in-

hibitor, kunitz type

1

C157R039 < 2e-50 5.00

C179R085 TNNI1 < 2e-50 3.50 troponin i, skeletal, slow

1

C076R078 TSPAN8 < 2e-50 4.40 tetraspanin 8

C024R155 GIMAP7 < 2e-50 3.70 gtpase, imap family

member 7

C262R042 < 2e-50 3.60

C226R095 HEBP2 < 2e-50 5.50 heme binding protein 2

C126R068 < 2e-50 7.20

C220R045 < 2e-50 3.10

329 Probe Gene Symbol p-value log2 FC Description

C262R125 HSD17B2 < 2e-50 3.30 estradiol 17-beta-

dehydrogenase 2

C237R040 < 2e-50 5.10

C233R097 < 2e-50 4.30

C231R155 < 2e-50 3.70

C081R086 < 2e-50 6.90

C098R130 < 2e-50 4.00

C068R007 GCM2 < 2e-50 3.00 glial cells missing ho-

molog (drosophila), re-

lated sequence 2

C230R051 < 2e-50 3.00

C031R027 < 2e-50 6.80

C099R058 < 2e-50 6.10

C233R065 COL6A2 < 2e-50 5.70 collagen, type vi, alpha

2

C048R024 KCNJ1 < 2e-50 5.10 atp-sensitive inward

rectifier potassium

channel 1

C065R124 < 2e-50 4.40

C014R157 CEACAM1 < 2e-50 4.70 carcinoembryonic

antigen-related cell

adhesion molecule 1

precursor

330 Probe Gene Symbol p-value log2 FC Description

C249R098 < 2e-50 6.20

C149R039 CAMSAP1B < 2e-50 4.40 calmodulin-regulated

spectrin-associated

protein 1

C108R095 CP1 < 2e-50 3.10 cysteine proteinase-1

C211R137 < 2e-50 6.40

C210R157 FLI1 < 2e-50 3.30 friend leukemia virus in-

tegration 1

C095R051 MYBPC1 < 2e-50 3.60 myosin binding protein

c, slow type

C108R111 < 2e-50 4.90

C071R132 CLIC4 < 2e-50 3.40 chloride intracellular

channel 4

C012R054 FAM3C < 2e-50 4.70 protein fam3c precursor

C002R029 FABP6 < 2e-50 3.50 fatty acid binding

protein 6, ileal (gas-

trotropin)

C020R081 TNNT1 < 2e-50 3.40 troponin t1, skeletal,

slow

C122R152 < 2e-50 3.80

C050R158 DLX4A < 2e-50 5.60 homeobox protein dlx4a

C047R096 < 2e-50 3.50

C177R026 < 2e-50 5.80

331 Probe Gene Symbol p-value log2 FC Description

C182R071 < 2e-50 6.80

C050R007 TAP2 < 2e-50 3.20 transporter 2, atp-

binding cassette,

sub-family b (mdr/tap)

C168R108 6.97e-50 5.80

C160R049 TNNT2 2.35e-49 4.10 troponin t type 2 (car-

diac)

C131R170 4.23e-49 3.70

C117R124 5.46e-49 4.50

C063R079 1.33e-48 3.50

C217R035 ZGC:92849 1.16e-45 3.70 ras-related and

estrogen-regulated

growth inhibitor-like

protein

C050R001 3.36e-43 3.80

C075R040 3.97e-43 3.80

C002R121 3.89e-42 3.70

C134R154 DBI 1.16e-41 5.30 diazepam binding in-

hibitor (gaba receptor

modulator, acyl-

coenzyme a binding

protein)

C019R156 1.86e-41 7.00

332 Probe Gene Symbol p-value log2 FC Description

C146R092 STARD10 1.22e-39 3.50 start domain containing

10

C114R015 3.24e-38 4.10

C153R102 7.84e-38 3.10

C146R159 SHROOM3 4.85e-37 3.30 protein shroom3

C189R025 PAX1 7.06e-37 3.80 paired box gene 1

C122R116 1.35e-36 3.00

C127R005 BANK1 4.17e-35 3.50 b-cell scaffold protein

with ankyrin repeats

C006R085 2.97e-33 3.50

C133R115 3.21e-33 3.90

C064R034 4.54e-33 3.10

C027R053 1.40e-32 4.40

C120R154 RAB25 1.26e-31 3.60 rab25, member ras

oncogene family

C098R110 2.28e-31 4.70

C010R109 4.24e-31 4.00

C172R149 RERGL 3.66e-30 4.20 ras-related and

estrogen-regulated

growth inhibitor-like

protein

C001R024 6.03e-30 3.60

C257R032 6.14e-29 4.90

333 Probe Gene Symbol p-value log2 FC Description

C179R125 SNAI2 2.06e-28 4.50 snail homolog 2

(drosophila)

C222R131 TNNI2 3.46e-28 4.10 troponin i type 2 (skele-

tal, fast)

C219R065 PTGIS 8.31e-28 3.40 prostacyclin synthase

C104R025 1.68e-26 4.30

C234R046 9.48e-26 5.20

C113R012 1.16e-25 3.90

C087R048 PRSS21 3.72e-25 4.40 protease, serine, 21

(testisin)

C084R162 6.93e-24 3.50

C113R076 9.56e-24 3.50

C099R061 GIMAP7 3.29e-23 5.00 gtpase, imap family

member 7

C055R110 GBGT1 1.45e-22 4.60 globoside alpha-1,3-n-

acetylgalactosaminyltransferase

1

C242R099 2.47e-20 4.90

C265R148 1.01e-19 3.20

C092R076 3.55e-18 4.80

C086R094 NOXA1 3.50e-17 3.80 nadph oxidase activator

1

C204R048 SLC4A1AP 4.24e-17 3.80 kanadaptin

334 Probe Gene Symbol p-value log2 FC Description

C013R081 RNF152 8.12e-17 3.00 ring finger protein 152

C244R099 2.71e-16 4.40

C254R039 5.25e-16 3.10

C144R048 1.67e-15 6.20

C100R078 1.85e-15 3.10

C201R022 GNL1 3.10e-15 3.40 guanine nucleotide-

binding protein-like

1

C101R166 3.32e-15 3.70

C141R050 1.07e-14 4.00

C197R010 6.87e-14 3.40

C007R107 8.25e-14 3.20

C095R167 ACP2 2.57e-13 3.30 acid phosphatase 2,

lysosomal

C037R122 3.30e-13 3.50

C222R137 4.09e-13 5.90

C061R006 SAMD9 5.94e-13 4.30 sterile alpha motif do-

main containing 9

C145R146 3.72e-12 3.70

C054R169 5.00e-12 3.00

C082R063 9.14e-12 3.10

C101R105 BANK1 2.06e-11 3.00 b-cell scaffold protein

with ankyrin repeats

335 Probe Gene Symbol p-value log2 FC Description

C204R114 GALNT6 2.47e-11 4.40 udp-n-acetyl-alpha-d-

galactosamine:polypeptide

n-

acetylgalactosaminyltransferase

6

C147R149 PADI2 2.56e-11 3.30 peptidyl arginine deimi-

nase, type ii

C064R127 GMPPAA 4.41e-11 3.50 mannose-1-phosphate

guanyltransferase

alpha-a

C071R121 5.05e-11 3.30

C068R165 ORMDL1 7.25e-11 3.30 orm1-like 1 (s. cere-

visiae)

C090R099 4.03e-10 5.90

C174R150 1.25e-09 3.90

C054R043 2.36e-09 4.90

C022R068 4.04e-09 3.20

C233R070 4.10e-09 4.20

C007R132 6.17e-09 3.80

C047R128 APCDD1L 9.55e-09 4.50 protein apcdd1-like pre-

cursor

C209R121 1.31e-08 4.40

C038R126 2.17e-08 5.00

336 Probe Gene Symbol p-value log2 FC Description

C247R111 CYLD 3.01e-08 4.40 cylindromatosis (turban

tumor syndrome)

C187R144 1.01e-07 5.00

C016R137 TG 1.25e-07 4.60 thyroglobulin

C244R127 TRIM29 5.92e-07 3.60 tripartite motif protein

29

C108R094 7.06e-07 4.70

C013R046 8.57e-07 4.60

C120R083 1.08e-06 4.70

C157R135 CDX1 1.25e-06 3.90 caudal type homeobox

transcription factor 1

C242R114 CLDN23 3.85e-06 3.20 claudin-23

C201R069 5.64e-05 4.50

C120R005 6.68e-05 3.30

C087R031 0.000139 4.20

C044R002 CCDC87 0.000234 3.60 coiled-coil domain-

containing protein

87

C220R032 0.000463 3.80

C038R107 0.001065 3.40

C010R045 PFDN2 0.001969 3.60 prefoldin subunit 2

C167R111 0.002109 4.10

337 Probe Gene Symbol p-value log2 FC Description

C265R126 NKX2-3 0.002126 3.30 nk2 transcription factor

homolog c (drosophila)

C010R042 IRF2 0.004193 3.40 interferon regulatory

factor 2

C009R054 N4BP1 0.004621 3.10 nedd4 binding protein 1

C031R096 GPR183 0.005264 3.20 ebv-induced g-protein

coupled receptor 2

C111R159 SCUBE2 0.005475 4.50 signal peptide, cub

and egf-like domain-

containing protein 2

precursor

B.3 Liver-Specific Probes

Probe Gene Symbol p-value log2 FC Description

C008R134 SERPINF2 < 2e-50 8.10 serine (or cysteine) pep-

tidase inhibitor, clade f,

member 2

C013R102 FGB < 2e-50 7.30 fibrinogen beta chain

338 Probe Gene Symbol p-value log2 FC Description

C014R084 PCBD1 < 2e-50 3.30 pterin 4 alpha

carbinolamine de-

hydratase/dimerization

cofactor of hepatocyte

nuclear factor 1 alpha

(tcf1) 1

C015R034 CLDN10 < 2e-50 6.20 dna segment, chr 14, er-

ato doi 728, expressed

C016R093 C4B < 2e-50 7.40 complement component

4b (childo blood group)

C018R088 < 2e-50 6.10

C018R138 < 2e-50 7.30

C020R017 SULT2B1 < 2e-50 4.80 sulfotransferase family,

cytosolic, 2b, member 1

C021R132 SERPINC1 < 2e-50 7.70 serine (or cysteine) pep-

tidase inhibitor, clade

c (antithrombin), mem-

ber 1

C022R104 < 2e-50 8.10

C024R043 < 2e-50 7.00

C024R090 < 2e-50 6.80

C025R056 < 2e-50 6.50

339 Probe Gene Symbol p-value log2 FC Description

C026R077 AKR1D1 < 2e-50 6.90 aldo-keto reductase

family 1, member d1

(delta 4-3-ketosteroid-

5-beta-reductase)

C026R130 CYP8B1 < 2e-50 4.70 cytochrome p450, fam-

ily 8, subfamily b,

polypeptide 1

C027R055 FGB < 2e-50 4.90 fibrinogen beta chain

C029R129 PNP < 2e-50 7.60 purine-nucleoside phos-

phorylase

C031R049 RBP2 < 2e-50 7.20 retinol binding protein

2, cellular

C032R077 ABHD12 < 2e-50 3.50 riken cdna 6330583m11

gene

C037R088 GSTZ1 < 2e-50 4.40 glutathione transferase

zeta 1 (maleylacetoac-

etate isomerase)

C037R111 < 2e-50 8.00

C038R018 < 2e-50 6.50

C038R084 CFB < 2e-50 7.50 complement factor b

C038R130 CYP4B1 < 2e-50 4.80 cytochrome p450, fam-

ily 4, subfamily b,

polypeptide 1

340 Probe Gene Symbol p-value log2 FC Description

C038R164 < 2e-50 4.70

C040R046 RDH12 < 2e-50 6.90 retinol dehydrogenase

12 (all-trans and 9-cis)

C043R064 UGT2A3 < 2e-50 5.40 udp glucuronosyltrans-

ferase 2 family, polypep-

tide a3

C044R024 SORD < 2e-50 3.60 sorbitol dehydrogenase

C048R164 < 2e-50 7.30

C052R143 < 2e-50 6.50

C055R099 < 2e-50 4.90

C059R031 < 2e-50 7.20

C059R155 C8B < 2e-50 8.00 complement component

c8 beta chain precursor

C060R167 HC < 2e-50 8.20 hemolytic complement

C062R107 PLG < 2e-50 8.90 plasminogen

C062R160 APOB < 2e-50 7.30 apolipoprotein b (in-

cluding ag(x) antigen)

C066R106 ACMSD|ACMSD < 2e-50 8.00 aminocarboxymuconate

semialdehyde

decarboxylase|aminocarboxymuconate

semialdehyde decar-

boxylase

C068R085 < 2e-50 7.30

341 Probe Gene Symbol p-value log2 FC Description

C069R066 < 2e-50 6.90

C069R139 < 2e-50 5.60

C070R031 < 2e-50 7.40

C071R099 CFP < 2e-50 8.00 complement factor

properdin

C072R021 APOH < 2e-50 6.70 apolipoprotein h

C073R099 < 2e-50 6.70

C075R028 < 2e-50 4.10

C075R045 F10 < 2e-50 8.00 coagulation factor x

C075R050 < 2e-50 6.60

C079R044 < 2e-50 6.20

C080R029 < 2e-50 8.50

C080R158 < 2e-50 8.00

C081R121 < 2e-50 5.10

C082R128 CIDEB < 2e-50 5.20 cell death-inducing dna

fragmentation factor,

alpha subunit-like

effector b

C082R129 FTCD < 2e-50 7.40 formiminotransferase

cyclodeaminase

C083R094 < 2e-50 7.50

C087R142 C1R < 2e-50 7.70 complement c1r sub-

component precursor

342 Probe Gene Symbol p-value log2 FC Description

C089R027 CFB < 2e-50 7.50 complement factor b

C089R094 < 2e-50 7.20

C093R034 < 2e-50 6.90

C093R047 BHMT < 2e-50 5.70 zgc:123027

C094R074 < 2e-50 8.10

C094R156 KNG1 < 2e-50 8.50 kininogen-1 precursor

C095R050 C1QTNF3 < 2e-50 5.70 c1q and tumor necrosis

factor related protein 3

C096R115 KIN < 2e-50 8.40 antigenic determinant

of rec-a protein

C098R030 SERPINF2 < 2e-50 8.20 serine (or cysteine) pep-

tidase inhibitor, clade f,

member 2

C100R030 < 2e-50 7.00

C100R117 < 2e-50 7.00

C105R100 MIOX < 2e-50 8.10 inositol oxygenase

C105R121 ABHD12 < 2e-50 5.30 riken cdna 6330583m11

gene

C106R028 < 2e-50 4.40

C107R143 HSD3B7 < 2e-50 3.90 3 beta-hydroxysteroid

dehydrogenase type 7

343 Probe Gene Symbol p-value log2 FC Description

C108R007 PCBD1 < 2e-50 3.30 pterin 4 alpha

carbinolamine de-

hydratase/dimerization

cofactor of hepatocyte

nuclear factor 1 alpha

(tcf1) 1

C109R020 < 2e-50 7.90

C110R067 < 2e-50 7.00

C110R103 ST3GAL5 < 2e-50 6.00 st3 beta-galactoside

alpha-2,3-

sialyltransferase 5

C111R028 < 2e-50 8.00

C111R089 HSPG2 < 2e-50 6.70 heparan sulfate proteo-

glycan 2 (perlecan)

C112R056 < 2e-50 8.20

C112R069 APOH < 2e-50 6.90 apolipoprotein h

C113R120 < 2e-50 4.70

C115R131 < 2e-50 7.20

C117R121 TTPA < 2e-50 7.10 tocopherol (alpha)

transfer protein (ataxia

(friedreich-like) with

vitamin e deficiency)

344 Probe Gene Symbol p-value log2 FC Description

C119R098 C1R < 2e-50 6.30 complement c1r sub-

component precursor

C120R011 SERPING1 < 2e-50 6.40 serpin peptidase in-

hibitor, clade g (c1

inhibitor), member 1,

(angioedema, heredi-

tary)

C121R078 C8G < 2e-50 7.20 complement component

8, gamma polypeptide

C122R109 F10 < 2e-50 7.80 coagulation factor x

C122R113 < 2e-50 5.40

C124R014 < 2e-50 8.60

C125R057 SLCO1B2 < 2e-50 6.40 solute carrier family 21

(organic anion trans-

porter), member 6

C126R143 C1QTNF3 < 2e-50 6.50 c1q and tumor necrosis

factor related protein 3

C126R166 HRSP12 < 2e-50 8.10 similar to ribonuclease

uk114 (14.5 kda transla-

tional inhibitor protein)

(p14.5) (uk114 antigen

homolog)

345 Probe Gene Symbol p-value log2 FC Description

C129R085 LECT2 < 2e-50 6.30 leukocyte cell-derived

chemotaxin 2

C131R029 < 2e-50 7.50

C131R091 < 2e-50 3.90

C131R107 < 2e-50 6.80

C133R037 < 2e-50 6.50

C134R042 C4BPA < 2e-50 7.40 complement component

4 binding protein, alpha

C134R121 LECT2 < 2e-50 6.20 leukocyte cell-derived

chemotaxin 2

C137R063 < 2e-50 8.40

C139R038 < 2e-50 8.10

C139R071 PCBD1 < 2e-50 3.20 pterin 4 alpha

carbinolamine de-

hydratase/dimerization

cofactor of hepatocyte

nuclear factor 1 alpha

(tcf1) 1

C142R082 HSPG2 < 2e-50 6.90 heparan sulfate proteo-

glycan 2 (perlecan)

C145R012 SERPINF2 < 2e-50 7.40 serine (or cysteine) pep-

tidase inhibitor, clade f,

member 2

346 Probe Gene Symbol p-value log2 FC Description

C149R147 KNG1 < 2e-50 8.60 kininogen-1 precursor

C151R119 < 2e-50 7.60

C153R004 < 2e-50 7.20

C153R114 CLEC4E < 2e-50 8.80 c-type lectin domain

family 4, member e

C154R154 < 2e-50 7.40

C155R089 RAB20 < 2e-50 3.10 rab20, member ras

oncogene family

C157R017 PLA2G12B < 2e-50 7.20 phospholipase a2, group

xiib

C160R103 < 2e-50 6.70

C162R011 < 2e-50 7.10

C163R019 RBP2 < 2e-50 7.70 retinol binding protein

2, cellular

C164R071 < 2e-50 7.90

C164R142 LECT2 < 2e-50 6.20 leukocyte cell-derived

chemotaxin 2

C165R105 NME4 < 2e-50 7.70 non-metastatic cells 4,

protein expressed in

C166R151 < 2e-50 6.10

C168R003 < 2e-50 5.40

C169R076 F10 < 2e-50 6.60 coagulation factor x

C171R075 < 2e-50 6.30

347 Probe Gene Symbol p-value log2 FC Description

C171R152 SLC27A2 < 2e-50 6.80 solute carrier family 27

(fatty acid transporter),

member 2

C173R046 SLC37A4 < 2e-50 4.60 solute carrier family 37

(glycerol-6-phosphate

transporter), member 4

C175R025 < 2e-50 7.40

C176R044 < 2e-50 8.10

C179R097 CRYM < 2e-50 4.60 crystallin, mu

C181R147 TMEM220 < 2e-50 3.70 transmembrane protein

loc388335

C183R084 C1QL2 < 2e-50 6.90 complement component

1, q subcomponent-like

2

C183R124 < 2e-50 6.90

C183R131 < 2e-50 5.90

C185R036 < 2e-50 7.00

C185R087 PLA1A < 2e-50 4.80 zgc:77160

C186R014 CLDN10 < 2e-50 7.20 dna segment, chr 14, er-

ato doi 728, expressed

C186R066 CPN1 < 2e-50 5.40 carboxypeptidase n,

polypeptide 1, 50kd

348 Probe Gene Symbol p-value log2 FC Description

C188R157 agxt < 2e-50 6.30 alanine-glyoxylate

aminotransferase

C189R140 GSTT1 < 2e-50 5.60 glutathione s-

transferase theta

1

C191R125 GSTT1 < 2e-50 4.60 glutathione s-

transferase theta

1

C196R087 < 2e-50 8.20

C197R024 < 2e-50 8.10

C197R071 ITIH2 < 2e-50 7.00 inter-alpha (globulin)

inhibitor h2

C197R106 CFB < 2e-50 8.80 complement factor b

C199R118 QPRT < 2e-50 4.30 quinolinate phos-

phoribosyltransferase

(nicotinate-nucleotide

pyrophosphorylase

(carboxylating))

C201R010 HPX < 2e-50 7.30 hemopexin

C203R114 < 2e-50 6.70

C205R143 < 2e-50 7.70

C206R022 < 2e-50 6.40

C206R149 < 2e-50 7.30

349 Probe Gene Symbol p-value log2 FC Description

C209R124 < 2e-50 8.60

C210R018 SERPINA10 < 2e-50 8.00 serine (or cysteine) pep-

tidase inhibitor, clade a

(alpha-1 antiproteinase,

antitrypsin), member

10

C211R104 DCXR < 2e-50 3.50 dicarbonyl l-xylulose re-

ductase

C211R152 < 2e-50 6.20

C211R161 TIMP2 < 2e-50 6.60 tissue inhibitor of met-

taloproteinase 2

C214R122 NCAPG < 2e-50 4.20 condensin complex sub-

unit 3

C215R007 PGLYRP2 < 2e-50 7.50 peptidoglycan recogni-

tion protein 2

C216R056 TIMP2 < 2e-50 5.70 tissue inhibitor of met-

taloproteinase 2

C216R074 LOC304000 < 2e-50 4.60 immunoglobulin super-

family member 5 pre-

cursor

C217R032 IGFALS < 2e-50 7.20 insulin-like growth

factor binding protein,

acid labile subunit

350 Probe Gene Symbol p-value log2 FC Description

C219R097 < 2e-50 8.70

C221R073 FTCD < 2e-50 7.20 formiminotransferase

cyclodeaminase

C221R134 < 2e-50 6.60

C223R118 TM4SF4 < 2e-50 6.50 transmembrane 4 su-

perfamily member 4

C223R134 HABP2 < 2e-50 8.50 hyaluronan-binding

protein 2 precursor

C223R167 < 2e-50 6.10

C225R110 < 2e-50 7.00

C228R017 HPX < 2e-50 6.20 hemopexin

C230R159 < 2e-50 6.70

C231R017 < 2e-50 6.50

C232R143 PCBD1 < 2e-50 3.30 pterin 4 alpha

carbinolamine de-

hydratase/dimerization

cofactor of hepatocyte

nuclear factor 1 alpha

(tcf1) 1

C235R007 < 2e-50 6.70

C235R032 FABP10A < 2e-50 6.10 fatty acid-binding pro-

tein, liver

351 Probe Gene Symbol p-value log2 FC Description

C236R145 SERPIND1 < 2e-50 8.20 serine (or cysteine) pro-

teinase inhibitor, clade

d, member 1

C237R038 VTN < 2e-50 5.90 vitronectin

C239R074 < 2e-50 7.40

C241R039 < 2e-50 5.60

C241R088 < 2e-50 7.10

C242R049 IGFBP2A < 2e-50 3.90 insulin-like growth

factor-binding protein 2

precursor

C243R046 < 2e-50 4.10

C243R060 CRYM < 2e-50 4.70 crystallin, mu

C243R063 < 2e-50 6.00

C245R082 C3 < 2e-50 8.20 complement component

3

C246R031 MARVELD2 < 2e-50 3.90 marvel domain contain-

ing 2

C247R116 < 2e-50 8.20

C249R134 DAO < 2e-50 3.40 d-amino-acid oxidase

C251R116 CRYM < 2e-50 4.50 crystallin, mu

C253R121 CFH < 2e-50 7.70 complement factor h

C256R107 CFP < 2e-50 8.30 complement factor

properdin

352 Probe Gene Symbol p-value log2 FC Description

C257R139 < 2e-50 5.80

C258R148 GCSH < 2e-50 4.50 glycine cleavage system

protein h (aminomethyl

carrier)

C259R015 TM4SF5 < 2e-50 7.60 transmembrane 4 l six

family member 5

C260R126 HPN < 2e-50 5.30 serine protease hepsin

C260R145 PCBD1 < 2e-50 3.20 pterin 4 alpha

carbinolamine de-

hydratase/dimerization

cofactor of hepatocyte

nuclear factor 1 alpha

(tcf1) 1

C250R042 KYNU < 2e-50 4.20 kynureninase

C026R121 < 2e-50 7.10

C183R040 < 2e-50 3.50

C073R015 PRHOXNB < 2e-50 7.90 2-oxo-4-hydroxy-

4-carboxy-5-

ureidoimidazoline

decarboxylase

C009R126 HSPG2 < 2e-50 6.20 heparan sulfate proteo-

glycan 2 (perlecan)

C220R118 < 2e-50 8.60

353 Probe Gene Symbol p-value log2 FC Description

C042R027 < 2e-50 4.80

C235R058 FTCD < 2e-50 7.10 formiminotransferase

cyclodeaminase

C195R013 SULT2B1 < 2e-50 4.80 sulfotransferase family,

cytosolic, 2b, member 1

C041R046 SLC5A1 < 2e-50 4.60 solute carrier family

5 (sodium/glucose co-

transporter), member

1

C054R124 < 2e-50 8.10

C012R044 CLEC4E < 2e-50 7.30 c-type lectin domain

family 4, member e

C066R007 TIMP2 < 2e-50 5.80 tissue inhibitor of met-

taloproteinase 2

C040R168 < 2e-50 8.20

C206R138 APOB < 2e-50 6.90 apolipoprotein b (in-

cluding ag(x) antigen)

C145R001 CRP < 2e-50 6.30 c-reactive protein

C056R016 GSTT1 < 2e-50 6.20 glutathione s-

transferase theta

1

C102R113 KYNU < 2e-50 4.30 kynureninase

354 Probe Gene Symbol p-value log2 FC Description

C042R141 FAM176B < 2e-50 3.00 transmembrane protein

c1orf78 homolog

C245R081 SERPINC1 < 2e-50 7.80 serine (or cysteine) pep-

tidase inhibitor, clade

c (antithrombin), mem-

ber 1

C109R159 GSTT1 < 2e-50 6.10 glutathione s-

transferase theta

1

C175R160 < 2e-50 7.60

C006R056 MSRB2 < 2e-50 4.60 methionine-r-sulfoxide

reductase b2, mitochon-

drial precursor

C052R108 < 2e-50 4.70

C216R105 GSTT1 < 2e-50 6.10 glutathione s-

transferase theta

1

C262R091 ZGC:153346 < 2e-50 4.10 glycerate kinase

C210R107 HPX < 2e-50 8.00 hemopexin

C186R150 < 2e-50 6.40

C043R018 < 2e-50 7.40

355 Probe Gene Symbol p-value log2 FC Description

C064R071 TTPA < 2e-50 6.10 tocopherol (alpha)

transfer protein (ataxia

(friedreich-like) with

vitamin e deficiency)

C017R166 SDR16C5 < 2e-50 3.50 epidermal retinal dehy-

drogenase 2

C251R122 FAH < 2e-50 5.30 fumarylacetoacetate

hydrolase (fumarylace-

toacetase)

C162R069 GSTT1 < 2e-50 6.20 glutathione s-

transferase theta

1

C176R119 < 2e-50 5.00

C101R063 KYNU < 2e-50 4.40 kynureninase

C038R042 HRSP12 < 2e-50 8.50 similar to ribonuclease

uk114 (14.5 kda transla-

tional inhibitor protein)

(p14.5) (uk114 antigen

homolog)

C012R074 PGLYRP2 < 2e-50 7.00 peptidoglycan recogni-

tion protein 2

356 Probe Gene Symbol p-value log2 FC Description

C063R132 PKM2 < 2e-50 5.90 cytosolic thyroid

hormone binding pro-

tein/pyruvate kinase

type m2

C155R103 MASP1 < 2e-50 4.60 complement-activating

component of ra-

reactive factor precur-

sor

C159R128 < 2e-50 6.30

C046R028 RBP1 < 2e-50 4.20 retinol binding protein

1, cellular

C158R007 ABCG8 < 2e-50 6.00 atp-binding cassette,

sub-family g (white),

member 8

C211R045 PXMP2 < 2e-50 3.00 peroxisomal membrane

protein 2

C089R070 FGB < 2e-50 4.80 fibrinogen beta chain

C009R089 DECR2 < 2e-50 3.40 zgc:85626

C085R044 < 2e-50 6.80

C254R048 ANGPTL3 < 2e-50 7.30 angiopoietin-like 3

C135R162 MST1 < 2e-50 7.10 hepatocyte growth

factor-like protein

precursor

357 Probe Gene Symbol p-value log2 FC Description

C207R051 PXMP2 < 2e-50 3.70 peroxisomal membrane

protein 2

C144R122 ATIC < 2e-50 3.40 5-aminoimidazole-4-

carboxamide ribonu-

cleotide formyltrans-

ferase/imp cyclohydro-

lase

C237R077 F5 < 2e-50 6.10 coagulation factor v

(proaccelerin, labile

factor)

C071R101 PCK2 < 2e-50 5.00 phosphoenolpyruvate

carboxykinase 2 (mito-

chondrial)

C160R105 PKM2 < 2e-50 5.80 cytosolic thyroid

hormone binding pro-

tein/pyruvate kinase

type m2

C094R001 Glud1 < 2e-50 3.50 glutamate dehydroge-

nase 1

C210R148 < 2e-50 4.60

C240R048 < 2e-50 4.80

C181R076 DAO < 2e-50 3.50 d-amino-acid oxidase

358 Probe Gene Symbol p-value log2 FC Description

C195R112 LRG1 < 2e-50 5.50 leucine-rich alpha-2-

glycoprotein 1

C045R145 < 2e-50 8.10

C233R028 PCBD1 < 2e-50 3.20 pterin 4 alpha

carbinolamine de-

hydratase/dimerization

cofactor of hepatocyte

nuclear factor 1 alpha

(tcf1) 1

C222R114 QSOX1 < 2e-50 3.80 quiescin q6

C246R022 ITI-HC3 < 2e-50 7.70 inter-alpha-trypsin in-

hibitor heavy chain h3

precursor

C035R112 HAL < 2e-50 6.60 histidine ammonia lyase

C261R057 < 2e-50 6.10

C047R153 AGXT2L1 < 2e-50 5.40 alanine–glyoxylate

aminotransferase 2-like

1

C092R080 HNMT < 2e-50 5.30 histamine n-

methyltransferase

C068R031 < 2e-50 3.70

C119R076 1700112E06RIK < 2e-50 6.60 riken cdna 1700112e06

gene

359 Probe Gene Symbol p-value log2 FC Description

C111R045 < 2e-50 8.20

C130R056 APOF < 2e-50 3.20 apolipoprotein f

C216R093 < 2e-50 6.00

C118R063 FAH < 2e-50 5.10 fumarylacetoacetate

hydrolase (fumarylace-

toacetase)

C172R094 MYOZ2 < 2e-50 3.70 zgc:77803

C003R067 < 2e-50 6.50

C206R064 < 2e-50 4.40

C156R147 < 2e-50 8.50

C164R025 F10 < 2e-50 7.80 coagulation factor x

C248R055 SERPINA1 < 2e-50 6.40 serpin peptidase in-

hibitor, clade a (alpha-1

antiproteinase, antit-

rypsin), member 1

C100R168 RBP1 < 2e-50 3.10 retinol binding protein

1, cellular

C035R122 < 2e-50 6.20

C066R154 CYP46A1 < 2e-50 4.20 cytochrome p450, fam-

ily 46, subfamily a,

polypeptide 1

C204R168 SFXN2 < 2e-50 4.10 sideroflexin 2

360 Probe Gene Symbol p-value log2 FC Description

C056R132 BAAT < 2e-50 4.00 bile acid-coenzyme

a: amino acid n-

acyltransferase

C151R089 CLDN3 < 2e-50 3.30 claudin 3

C130R069 < 2e-50 3.50

C032R117 SFXN2 < 2e-50 4.00 sideroflexin 2

C158R123 ABCB11 < 2e-50 6.90 atp-binding cassette,

sub-family b (mdr/tap),

member 11

C088R039 HAO1 < 2e-50 4.90 hydroxyacid oxidase

(glycolate oxidase) 1

C028R118 SLC16A1 < 2e-50 4.10 solute carrier family 16

member 1

C234R132 < 2e-50 7.00

C037R078 FTCD < 2e-50 6.20 formiminotransferase

cyclodeaminase

C146R034 MIOX < 2e-50 7.90 inositol oxygenase

C083R134 IWS1 < 2e-50 4.40 riken cdna 1700069o15

gene

C113R015 DMBT1 < 2e-50 4.00 deleted in malignant

brain tumors 1

C203R094 AMY2 < 2e-50 8.10 amylase 2, pancreatic

C103R093 < 2e-50 7.60

361 Probe Gene Symbol p-value log2 FC Description

C021R028 < 2e-50 5.60

C137R137 F5 < 2e-50 6.00 coagulation factor v

(proaccelerin, labile

factor)

C167R106 < 2e-50 3.50

C034R155 F5 < 2e-50 6.20 coagulation factor v

(proaccelerin, labile

factor)

C050R003 CFP < 2e-50 7.40 complement factor

properdin

C110R017 < 2e-50 3.60

C099R106 CYP2D3 < 2e-50 4.90 cytochrome p450, fam-

ily 2, subfamily d,

polypeptide 13

C004R114 F9 < 2e-50 7.50 coagulation factor ix

(plasma thromboplastic

component, christmas

disease, hemophilia b)

C266R115 < 2e-50 7.40

C021R104 < 2e-50 6.80

C226R139 Glud1 < 2e-50 3.50 glutamate dehydroge-

nase 1

362 Probe Gene Symbol p-value log2 FC Description

C123R155 HHIPL1 < 2e-50 4.60 hhip-like protein 1 pre-

cursor

C081R058 F12 < 2e-50 7.50 coagulation factor xii

precursor

C046R085 CYP46A1 < 2e-50 4.30 cytochrome p450, fam-

ily 46, subfamily a,

polypeptide 1

C049R143 < 2e-50 6.40

C108R155 < 2e-50 7.30

C152R009 CYP4B1 < 2e-50 3.40 cytochrome p450, fam-

ily 4, subfamily b,

polypeptide 1

C078R146 < 2e-50 3.60

C180R125 < 2e-50 7.70

C137R164 < 2e-50 7.80

C261R047 < 2e-50 5.40

C226R007 < 2e-50 5.70

C112R154 LAMP3 < 2e-50 3.80 lysosomal-associated

membrane protein 3

C075R023 < 2e-50 6.10

C019R112 CYP46A1 < 2e-50 4.40 cytochrome p450, fam-

ily 46, subfamily a,

polypeptide 1

363 Probe Gene Symbol p-value log2 FC Description

C065R017 UGT2A2 < 2e-50 3.60 udp-

glucuronosyltransferase

2a2 precursor

C215R138 BHMT < 2e-50 5.90 zgc:123027

C087R135 < 2e-50 4.50

C133R140 < 2e-50 5.20

C036R168 CYP4B1 < 2e-50 3.20 cytochrome p450, fam-

ily 4, subfamily b,

polypeptide 1

C165R049 ZGC:153346 < 2e-50 4.10 glycerate kinase

C221R036 < 2e-50 3.10

C083R095 HAO1 < 2e-50 6.50 hydroxyacid oxidase

(glycolate oxidase) 1

C171R087 < 2e-50 7.50

C037R093 ACOX3 < 2e-50 3.70 acyl-coenzyme a oxi-

dase 3, pristanoyl

C015R021 CYB5A < 2e-50 3.20 cytochrome b5

C230R123 GSTT1 < 2e-50 5.70 glutathione s-

transferase theta

1

C056R064 APCS < 2e-50 6.60 serum amyloid p-

component

C159R143 < 2e-50 6.30

364 Probe Gene Symbol p-value log2 FC Description

C127R024 NDRG1 < 2e-50 4.10 protein ndrg1

C063R009 C8A < 2e-50 7.60 complement component

c8 alpha chain precursor

C232R090 < 2e-50 3.90

C128R047 ANGPTL3 < 2e-50 7.10 angiopoietin-like 3

C177R072 TMEM30A < 2e-50 3.60 cell cycle control pro-

tein 50a

C262R082 CALU < 2e-50 4.20 calumenin

C193R091 LRRC15 < 2e-50 4.30 leucine-rich repeat-

containing protein 15

precursor

C024R165 IYD < 2e-50 3.30 chromosome 6 open

reading frame 71

C020R143 NCEH1 < 2e-50 3.60 arylacetamide

deacetylase-like 1

C206R066 CYP46A1 < 2e-50 4.20 cytochrome p450, fam-

ily 46, subfamily a,

polypeptide 1

C191R164 < 2e-50 3.20

C146R063 RNF19A < 2e-50 5.10 e3 ubiquitin-protein lig-

ase rnf19a

C136R068 SCARB2 < 2e-50 5.60 scavenger receptor class

b, member 2

365 Probe Gene Symbol p-value log2 FC Description

C214R158 < 2e-50 4.00

C140R146 ETNK1 < 2e-50 6.50 ethanolamine kinase 1

C132R139 TAT < 2e-50 7.00 tyrosine aminotrans-

ferase

C142R021 GRHPR < 2e-50 3.90 glyoxylate reduc-

tase/hydroxypyruvate

reductase

C037R051 < 2e-50 6.70

C224R024 < 2e-50 7.20

C165R028 UGT2A2 < 2e-50 3.70 udp-

glucuronosyltransferase

2a2 precursor

C048R121 SERPINF2 < 2e-50 7.10 serine (or cysteine) pep-

tidase inhibitor, clade f,

member 2

C090R166 CYP2J2 < 2e-50 7.10 cytochrome p450,

family 2, subfamily j,

polypeptide 2

C210R084 AHCY-B < 2e-50 3.10 adenosylhomocysteinase

b

C212R146 < 2e-50 4.60

C057R119 HACL1 < 2e-50 3.50 phytanoyl-coa 2-

hydroxylase 2

366 Probe Gene Symbol p-value log2 FC Description

C085R057 < 2e-50 3.70

C180R154 < 2e-50 7.40

C040R075 FETUB < 2e-50 5.40 fetuin b

C230R067 MAN1C1 < 2e-50 3.60 mannosyl-

oligosaccharide 1,2-

alpha-mannosidase

ic

C107R110 UGT2A2 < 2e-50 3.30 udp-

glucuronosyltransferase

2a2 precursor

C024R136 Slc47a2 < 2e-50 3.20 hypothetical protein

flj31196

C224R097 LAMP3 < 2e-50 3.60 lysosomal-associated

membrane protein 3

C020R079 GLDC < 2e-50 3.10 dna segment, chr 19,

wayne state university

57, expressed

C189R170 LAMP3 < 2e-50 3.50 lysosomal-associated

membrane protein 3

C210R038 LACZ < 2e-50 7.10 beta-galactosidase

C251R018 Glud1 < 2e-50 3.40 glutamate dehydroge-

nase 1

367 Probe Gene Symbol p-value log2 FC Description

C098R112 PPP1R9A < 2e-50 4.70 protein phosphatase 1,

regulatory (inhibitor)

subunit 9a

C193R016 < 2e-50 3.40

C251R096 < 2e-50 5.00

C063R021 CYP4V2|CYP4V2 < 2e-50 5.00 cytochrome p450,

family 4, subfam-

ily v, polypeptide

2|cytochrome p450,

family 4, subfamily v,

polypeptide 2

C056R096 < 2e-50 3.00

C081R132 A1CF < 2e-50 5.40 apobec1 complementa-

tion factor

C068R023 < 2e-50 3.60

C137R067 CYP2U1 < 2e-50 7.10 cytochrome p450 2u1

C067R143 < 2e-50 4.00

C138R066 < 2e-50 4.30

C073R153 RRBP1 < 2e-50 4.10 ribosome binding pro-

tein 1 homolog 180kda

(dog)

C167R122 < 2e-50 3.20

C112R035 < 2e-50 6.90

368 Probe Gene Symbol p-value log2 FC Description

C223R099 CHIA < 2e-50 5.70 chitinase, acidic

C019R066 BATF3 < 2e-50 5.00 basic leucine zipper

transcriptional factor

atf-like 3

C251R097 RGD1305689 < 2e-50 3.90 similar to dna segment,

chr 14, erato doi 449,

expressed

C182R148 URAH < 2e-50 6.60 5-hydroxyisourate

hydrolase

C183R121 CFP < 2e-50 4.90 complement factor

properdin

C055R119 PCK1 < 2e-50 3.60 phosphoenolpyruvate

carboxykinase 1, cy-

tosolic

C031R056 TDO2B < 2e-50 8.00 tryptophan 2,3-

dioxygenase

C089R116 < 2e-50 3.00

C196R143 FBP1 < 2e-50 3.70 fructose-1,6-

bisphosphatase 1

C134R103 < 2e-50 5.10

C117R137 < 2e-50 5.60

C019R157 < 2e-50 5.40

369 Probe Gene Symbol p-value log2 FC Description

C169R077 Glud1 < 2e-50 3.80 glutamate dehydroge-

nase 1

C256R156 SERPIND1 < 2e-50 7.60 serine (or cysteine) pro-

teinase inhibitor, clade

d, member 1

C149R165 < 2e-50 3.00

C031R073 HGD < 2e-50 5.20 homogentisate 1, 2-

dioxygenase

C055R046 < 2e-50 4.10

C081R022 CHIA < 2e-50 5.60 chitinase, acidic

C169R162 < 2e-50 7.60

C244R069 SUCLG2 < 2e-50 3.30 succinate-coa ligase,

gdp-forming, beta

subunit

C121R085 ALDOB < 2e-50 5.60 aldolase b, fructose-

bisphosphate

C195R037 FBP1 < 2e-50 3.60 fructose-1,6-

bisphosphatase 1

C074R104 < 2e-50 3.60

C186R078 < 2e-50 6.20

C052R030 UGT2A1 < 2e-50 6.30 udp glucuronosyltrans-

ferase 2 family, polypep-

tide a1

370 Probe Gene Symbol p-value log2 FC Description

C144R062 ME1 < 2e-50 4.00 malic enzyme 1,

nadp(+)-dependent,

cytosolic

C028R053 ERCC5 < 2e-50 3.20 excision repair cross-

complementing rodent

repair deficiency, com-

plementation group 5

C179R029 < 2e-50 8.10

C145R081 CPB2 < 2e-50 7.70 carboxypeptidase b2

(plasma)

C076R051 PRPS2 < 2e-50 3.30 ribose-phosphate py-

rophosphokinase 2

C259R078 CHIA < 2e-50 5.50 chitinase, acidic

C012R105 < 2e-50 8.20

C046R110 < 2e-50 4.00

C070R128 FGB < 2e-50 8.00 fibrinogen beta chain

C079R086 GCSH < 2e-50 4.20 glycine cleavage system

protein h (aminomethyl

carrier)

C266R135 HAO2 < 2e-50 4.40 hydroxyacid oxidase 2

C244R159 < 2e-50 6.00

371 Probe Gene Symbol p-value log2 FC Description

C103R140 DGAT2L1-A < 2e-50 3.90 diacylglycerol o-

acyltransferase 2 like

1

C164R018 agxt < 2e-50 7.90 alanine-glyoxylate

aminotransferase

C119R090 PPP1R3D < 2e-50 5.10 protein phosphatase 1,

regulatory subunit 3d

C254R062 ITI-HC3 < 2e-50 7.50 inter-alpha-trypsin in-

hibitor heavy chain h3

precursor

C075R116 < 2e-50 5.90

C073R070 DNTTIP2 < 2e-50 3.10 deoxynucleotidyltransferase

terminal-interacting

protein 2

C126R013 UGT2A2 < 2e-50 4.20 udp-

glucuronosyltransferase

2a2 precursor

C076R050 IGFBP2A < 2e-50 3.90 insulin-like growth

factor-binding protein 2

precursor

C112R032 TLE1 < 2e-50 4.10 transducin-like en-

hancer protein 1

372 Probe Gene Symbol p-value log2 FC Description

C240R115 QPCT < 2e-50 4.00 glutaminyl-peptide

cyclotransferase (glu-

taminyl cyclase)

C111R056 < 2e-50 3.70

C256R151 HGD < 2e-50 5.10 homogentisate 1, 2-

dioxygenase

C030R094 < 2e-50 3.70

C094R096 < 2e-50 3.20

C020R071 CYP39A1 < 2e-50 3.70 cytochrome p450 39a1

C203R085 SLC22A18 < 2e-50 3.40 solute carrier family 22

member 18

C153R066 NR1H4 < 2e-50 4.70 nuclear receptor sub-

family 1, group h, mem-

ber 4

C146R141 KCNC1 < 2e-50 6.00 potassium voltage gated

channel, shaw-related

subfamily, member 1

C001R030 TIMP2 < 2e-50 5.60 tissue inhibitor of met-

taloproteinase 2

C101R094 MSI2 < 2e-50 5.30 musashi homolog 2

(drosophila)

C133R065 < 2e-50 4.30

C180R148 ADK < 2e-50 4.40 adenosine kinase

373 Probe Gene Symbol p-value log2 FC Description

C113R026 CFHR1 < 2e-50 7.70 complement factor h-

related protein 1 pre-

cursor

C132R155 < 2e-50 7.00

C017R006 LAMP3 < 2e-50 3.30 lysosomal-associated

membrane protein 3

C124R025 ACT2 < 2e-50 6.90 actin, alpha sarcom-

eric/cardiac

C073R091 DNAJC22 < 2e-50 5.10 dnaj homolog subfamily

b member 15

C191R156 CFB < 2e-50 6.80 complement factor b

C024R164 < 2e-50 8.00

C266R141 < 2e-50 3.80

C013R163 F10 < 2e-50 5.00 coagulation factor x

C110R167 < 2e-50 5.20

C222R047 IDO2 < 2e-50 3.50 indoleamine 2,3-

dioxygenase-like protein

1

C062R018 ACOT1 < 2e-50 4.10 acyl-coenzyme a

thioesterase 1

C073R079 < 2e-50 5.00

C266R134 CYP2D14 < 2e-50 5.40 cytochrome p450 2d14

374 Probe Gene Symbol p-value log2 FC Description

C185R005 ACT2 < 2e-50 6.80 actin, alpha sarcom-

eric/cardiac

C111R114 SPCC61.03 < 2e-50 3.60 spcc61.03 protein

C170R047 PIPOX < 2e-50 3.80 pipecolic acid oxidase

C124R022 ACT2 < 2e-50 6.30 actin, alpha sarcom-

eric/cardiac

C033R094 SLC27A2 < 2e-50 4.30 solute carrier family 27

(fatty acid transporter),

member 2

C066R069 CYB5R2 < 2e-50 5.80 nadh-cytochrome b5 re-

ductase 2

C053R153 < 2e-50 6.80

C030R168 ABCG5 < 2e-50 5.90 atp-binding cassette

sub-family g member 5

C222R099 < 2e-50 6.30

C153R019 COX18 < 2e-50 5.40 synaptotagmin-like 1

C103R153 PSME4 < 2e-50 5.00 proteasome activator

complex subunit 4

C231R074 F9 < 2e-50 7.00 coagulation factor ix

(plasma thromboplastic

component, christmas

disease, hemophilia b)

C175R118 < 2e-50 3.10

375 Probe Gene Symbol p-value log2 FC Description

C203R073 PYGM < 2e-50 3.20 phosphorylase, glyco-

gen; muscle (mcardle

syndrome, glycogen

storage disease type v)

C133R006 UGT2A1 < 2e-50 4.60 udp glucuronosyltrans-

ferase 2 family, polypep-

tide a1

C098R029 < 2e-50 6.80

C193R155 < 2e-50 3.20

C258R029 ADK < 2e-50 4.30 adenosine kinase

C060R138 CRELD2 < 2e-50 3.50 cysteine-rich with egf-

like domains 2

C044R116 < 2e-50 3.70

C196R076 < 2e-50 7.10

C054R104 HC < 2e-50 7.20 hemolytic complement

C003R096 ART4 < 2e-50 6.70 adp-ribosyltransferase

4 (dombrock blood

group)

C089R033 SFXN2 < 2e-50 3.70 sideroflexin 2

C018R078 < 2e-50 6.80

C139R140 FBP1 < 2e-50 3.50 fructose-1,6-

bisphosphatase 1

C210R077 < 2e-50 7.50

376 Probe Gene Symbol p-value log2 FC Description

C042R086 < 2e-50 3.70

C197R125 SHISA4 < 2e-50 3.10 transmembrane protein

58 precursor

C235R054 C4B < 2e-50 5.60 complement component

4b (childo blood group)

C147R112 QPCT < 2e-50 3.80 glutaminyl-peptide

cyclotransferase (glu-

taminyl cyclase)

C126R062 < 2e-50 3.70

C063R130 < 2e-50 7.60

C098R164 SLC27A2 < 2e-50 5.90 solute carrier family 27

(fatty acid transporter),

member 2

C049R053 COMTD1 < 2e-50 7.70 catechol-o-

methyltransferase

domain containing 1

C041R095 ACT2 < 2e-50 6.80 actin, alpha sarcom-

eric/cardiac

C198R062 CP < 2e-50 3.80 ceruloplasmin (ferroxi-

dase)

C041R119 PGLYRP2 < 2e-50 6.30 peptidoglycan recogni-

tion protein 2

C041R033 < 2e-50 7.50

377 Probe Gene Symbol p-value log2 FC Description

C201R127 < 2e-50 4.80

C189R088 < 2e-50 3.90

C184R030 < 2e-50 3.50

C177R031 HKR1 < 2e-50 3.40 hansenula mrakii killer

toxin-resistant protein 1

precursor

C025R066 SLCO1C1 < 2e-50 5.90 solute carrier organic

anion transporter fam-

ily member 1c1

C258R028 < 2e-50 5.90

C022R069 < 2e-50 6.70

C257R161 < 2e-50 3.20

C149R170 < 2e-50 3.40

C133R139 < 2e-50 5.70

C211R062 LRG1 < 2e-50 3.10 leucine-rich alpha-2-

glycoprotein 1

C126R050 APLP1 < 2e-50 3.40 amyloid beta (a4)

precursor-like protein 1

C093R116 < 2e-50 7.90

C028R039 MID1IP1A < 2e-50 6.90 gastrulation-specific

protein g12

C253R126 ACT2 < 2e-50 6.90 actin, alpha sarcom-

eric/cardiac

378 Probe Gene Symbol p-value log2 FC Description

C013R107 < 2e-50 6.70

C196R096 PLG < 2e-50 6.30 plasminogen

C090R093 < 2e-50 7.00

C255R053 NUPR1 < 2e-50 4.40 p8 protein (candidate of

metastasis 1)

C104R041 DNAJC3 < 2e-50 4.30 dnaj (hsp40) homolog,

subfamily c, member 3

C065R066 SLC29A1 < 2e-50 5.90 solute carrier family

29 (nucleoside trans-

porters), member 1

C209R080 < 2e-50 3.30

C187R124 SARDH < 2e-50 3.70 sarcosine dehydroge-

nase, mitochondrial

precursor

C014R137 PAH < 2e-50 6.80 phenylalanine-4-

hydroxylase

C019R059 MST1 < 2e-50 4.20 hepatocyte growth

factor-like protein

precursor

C046R101 DTNBP1 < 2e-50 3.90 dystrobrevin binding

protein 1

379 Probe Gene Symbol p-value log2 FC Description

C188R031 SERPINF2 < 2e-50 5.20 serine (or cysteine) pep-

tidase inhibitor, clade f,

member 2

C130R150 < 2e-50 7.20

C192R100 < 2e-50 5.90

C074R160 < 2e-50 7.30

C264R049 CFH < 2e-50 5.70 complement factor h

C081R032 HC < 2e-50 4.70 hemolytic complement

C251R028 < 2e-50 5.80

C233R042 < 2e-50 3.80

C075R125 PLA2G12B < 2e-50 3.70 phospholipase a2, group

xiib

C084R059 NR0B2 < 2e-50 4.10 nuclear receptor sub-

family 0, group b, mem-

ber 2

C159R112 LECT2 < 2e-50 4.80 leukocyte cell-derived

chemotaxin 2

C138R079 < 2e-50 6.50

C173R145 ZNF135 < 2e-50 5.00 zinc finger protein 135

(clone phz-17)

C074R090 CYP2J2 < 2e-50 3.50 cytochrome p450,

family 2, subfamily j,

polypeptide 2

380 Probe Gene Symbol p-value log2 FC Description

C175R046 ITIH3 < 2e-50 5.10 inter-alpha (globulin)

inhibitor h3

C205R147 WDR18 < 2e-50 5.00 wd repeat domain 18

C097R110 < 2e-50 3.70

C177R069 COMTD1 < 2e-50 7.90 catechol-o-

methyltransferase

domain containing 1

C030R146 < 2e-50 3.90

C128R027 UPP2 < 2e-50 5.40 uridine phosphorylase 2

C111R100 TEF < 2e-50 3.00 thyrotrophic embryonic

factor

C197R139 < 2e-50 6.40

C176R050 < 2e-50 4.70

C230R036 < 2e-50 6.80

C064R132 < 2e-50 5.30

C037R039 CYP4V2|CYP4V2 < 2e-50 6.20 cytochrome p450,

family 4, subfam-

ily v, polypeptide

2|cytochrome p450,

family 4, subfamily v,

polypeptide 2

381 Probe Gene Symbol p-value log2 FC Description

C227R043 PRG4 < 2e-50 5.50 hypothetical protein,

similar to megakary-

ocyte stimulating factor

precursor and cartilage

superficial zone protein

C218R073 PRPS2 < 2e-50 3.00 ribose-phosphate py-

rophosphokinase 2

C084R126 XIRP1 < 2e-50 3.50 xin actin-binding

repeat-containing pro-

tein 1

C180R033 < 2e-50 7.30

C210R004 TDO2B < 2e-50 4.30 tryptophan 2,3-

dioxygenase

C137R002 < 2e-50 7.70

C218R007 AQP8 < 2e-50 3.70 aquaporin 8

C119R071 CFH < 2e-50 8.20 complement factor h

C085R124 < 2e-50 3.90

C126R033 PRSS27 < 2e-50 4.30 protease, serine 27

C263R083 CES2 < 2e-50 5.30 carboxylesterase 2 (in-

testine, liver)

C243R167 ALLC < 2e-50 3.90 zgc:91799

C034R030 C2 < 2e-50 5.50 complement c2 precur-

sor

382 Probe Gene Symbol p-value log2 FC Description

C068R161 ITLN1 < 2e-50 4.70 intelectin a

C018R009 < 2e-50 4.50

C126R142 CYP2J2 < 2e-50 4.30 cytochrome p450,

family 2, subfamily j,

polypeptide 2

C184R020 NUCB2 < 2e-50 3.20 nucleobindin 2

C093R050 CYP8B1 < 2e-50 3.40 cytochrome p450, fam-

ily 8, subfamily b,

polypeptide 1

C097R050 SDR16C5 < 2e-50 3.40 epidermal retinal dehy-

drogenase 2

C261R022 ALDOB < 2e-50 5.20 aldolase b, fructose-

bisphosphate

C193R030 ZFP91|U05342 < 2e-50 5.20 ciliary neurotrophic

factor|zinc finger pro-

tein 91

C249R083 DEPTOR < 2e-50 3.50 dep domain-containing

protein 6

C060R054 SLC25A1 < 2e-50 3.00 tricarboxylate trans-

port protein, mitochon-

drial precursor

383 Probe Gene Symbol p-value log2 FC Description

C209R001 PNAT10 < 2e-50 4.40 arylamine n-

acetyltransferase,

pineal gland isozyme

nat-10

C258R095 KMO < 2e-50 4.50 kynurenine 3-

monooxygenase

(kynurenine 3-

hydroxylase)

C115R133 PRF1 < 2e-50 3.80 perforin 1 (pore forming

protein)

C011R131 COLEC10 < 2e-50 4.20 collectin-10 precursor

C235R133 ITIH2 < 2e-50 6.60 inter-alpha (globulin)

inhibitor h2

C051R149 < 2e-50 4.60

C082R122 < 2e-50 3.20

C020R074 HNF4A < 2e-50 4.20 hepatocyte nuclear fac-

tor 4-alpha

C111R008 foxa2 < 2e-50 4.90 forkhead box a2

C021R053 SLC29A1 < 2e-50 5.20 solute carrier family

29 (nucleoside trans-

porters), member 1

C178R063 SCO6247 < 2e-50 3.60 allantoinase

384 Probe Gene Symbol p-value log2 FC Description

C207R003 NR0B2 < 2e-50 4.80 nuclear receptor sub-

family 0, group b, mem-

ber 2

C217R049 < 2e-50 4.50

C207R122 < 2e-50 3.90

C116R044 PCK1 < 2e-50 4.10 phosphoenolpyruvate

carboxykinase 1, cy-

tosolic

C172R152 foxa2 < 2e-50 5.00 forkhead box a2

C206R127 < 2e-50 4.80

C176R164 < 2e-50 3.60

C093R057 DNAJC3 < 2e-50 4.50 dnaj (hsp40) homolog,

subfamily c, member 3

C166R126 PCK2 < 2e-50 4.30 phosphoenolpyruvate

carboxykinase 2 (mito-

chondrial)

C150R141 CFB < 2e-50 5.70 complement factor b

C137R077 DNAJC3 < 2e-50 4.70 dnaj (hsp40) homolog,

subfamily c, member 3

C164R049 MTTP < 2e-50 4.10 microsomal triglyceride

transfer protein

C235R018 DIABLO < 2e-50 6.40 diablo homolog

(drosophila)

385 Probe Gene Symbol p-value log2 FC Description

C201R032 < 2e-50 6.60

C236R038 PHYH < 2e-50 3.10 phytanoyl-coa hydroxy-

lase

C175R112 DPYS < 2e-50 3.20 dihydropyrimidinase

C049R021 ITLN2 < 2e-50 8.00 intelectin 2

C003R040 PECI < 2e-50 3.20 peroxisomal d3,d2-

enoyl-coa isomerase

C133R010 < 2e-50 3.00

C113R166 SLC27A2 < 2e-50 4.10 solute carrier family 27

(fatty acid transporter),

member 2

C103R067 GPR63 < 2e-50 3.80 g protein-coupled recep-

tor 63

C254R079 < 2e-50 3.20

C001R112 PUF60 < 2e-50 4.70 fuse-binding protein-

interacting repressor

C201R011 COMTD1 < 2e-50 7.70 catechol-o-

methyltransferase

domain containing 1

C146R154 ITLN1 < 2e-50 7.10 intelectin a

C049R031 ADNP < 2e-50 3.50 activity-dependent neu-

roprotector

C057R114 < 2e-50 3.50

386 Probe Gene Symbol p-value log2 FC Description

C198R010 < 2e-50 6.50

C069R048 PBLD2 < 2e-50 3.10 phenazine biosynthesis-

like domain-containing

protein 2

C153R100 APOA4 < 2e-50 7.50 apolipoprotein a-iv

C017R008 ITIH3 < 2e-50 5.90 inter-alpha (globulin)

inhibitor h3

C096R017 KMO < 2e-50 4.90 kynurenine 3-

monooxygenase

(kynurenine 3-

hydroxylase)

C097R094 PKM2 < 2e-50 5.30 cytosolic thyroid

hormone binding pro-

tein/pyruvate kinase

type m2

C009R140 STEAP4 < 2e-50 4.80 steap family member 4

C181R021 CIDEB < 2e-50 3.40 cell death-inducing dna

fragmentation factor,

alpha subunit-like

effector b

C219R011 TFCP2L1 < 2e-50 5.50 transcription factor

cp2-like 1

387 Probe Gene Symbol p-value log2 FC Description

C165R037 ACSS2 < 2e-50 3.30 acyl-coa synthetase

short-chain family

member 2

C110R060 UGT2A2 < 2e-50 3.90 udp-

glucuronosyltransferase

2a2 precursor

C042R136 < 2e-50 7.00

C255R056 G6PC < 2e-50 4.40 glucose-6-phosphatase,

catalytic (glycogen

storage disease type i,

von gierke disease)

C124R111 CREB3L3 < 2e-50 5.00 camp-responsive

element-binding protein

3-like protein 3-a

C254R083 CTSO < 2e-50 3.20 cathepsin o

C230R033 F7 < 2e-50 7.40 coagulation factor vii

precursor

C064R107 < 2e-50 4.60

C126R106 ACOT3 < 2e-50 4.30 acyl-coa thioesterase 3

C177R064 < 2e-50 4.00

C113R129 MFAP4 < 2e-50 8.20 microfibrillar-

associated protein

4

388 Probe Gene Symbol p-value log2 FC Description

C139R073 NUCB2 < 2e-50 4.00 nucleobindin 2

C082R080 ASMTL < 2e-50 3.70 acetylserotonin o-

methyltransferase-like

C119R111 foxa2 < 2e-50 4.40 forkhead box a2

C077R134 ALDH6A1 < 2e-50 4.10 aldehyde dehydroge-

nase family 6, subfamily

a1

C195R073 F9 < 2e-50 4.50 coagulation factor ix

(plasma thromboplastic

component, christmas

disease, hemophilia b)

C204R061 < 2e-50 5.20

C038R004 IL1R1 < 2e-50 3.10 interleukin-1 receptor

type i precursor

C107R097 PDK3 < 2e-50 3.80 pyruvate dehydrogenase

kinase, isoenzyme 3

C264R124 < 2e-50 4.10

C033R147 CYP24A1 < 2e-50 5.20 cytochrome p450, fam-

ily 24, subfamily a,

polypeptide 1

C199R106 < 2e-50 3.20

C124R161 FTCD < 2e-50 5.10 formiminotransferase

cyclodeaminase

389 Probe Gene Symbol p-value log2 FC Description

C162R149 FTCD < 2e-50 5.20 formiminotransferase

cyclodeaminase

C094R132 P4HA1 < 2e-50 3.40 procollagen-proline,

2-oxoglutarate 4-

dioxygenase (proline

4-hydroxylase), alpha

polypeptide ii

C031R022 SORD < 2e-50 3.10 sorbitol dehydrogenase

C193R045 ELOVL6 < 2e-50 5.00 elovl family member 6,

elongation of long chain

fatty acids (yeast)

C236R166 MUG1 < 2e-50 5.00 murinoglobulin 1

C013R030 PLG < 2e-50 6.90 plasminogen

C001R133 MINPP1 < 2e-50 4.10 multiple inositol

polyphosphate his-

tidine phosphatase

1

C125R012 U05342|ZFP91 < 2e-50 3.60 zinc finger protein

91|ciliary neurotrophic

factor

C178R151 < 2e-50 4.80

C150R082 STEAP4 < 2e-50 3.90 steap family member 4

C252R122 < 2e-50 5.40

390 Probe Gene Symbol p-value log2 FC Description

C195R083 CYP24A1 < 2e-50 5.70 cytochrome p450, fam-

ily 24, subfamily a,

polypeptide 1

C076R063 PBLD < 2e-50 3.60 phenazine biosynthesis-

like domain-containing

protein

C234R030 < 2e-50 3.30

C147R040 DNM2 < 2e-50 4.00 dynamin-2

C235R074 < 2e-50 5.90

C015R154 KMO < 2e-50 4.80 kynurenine 3-

monooxygenase

(kynurenine 3-

hydroxylase)

C162R004 UGT1A2 < 2e-50 3.40 udp glucuronosyltrans-

ferase 1 family, polypep-

tide a2

C184R064 HAL < 2e-50 6.30 histidine ammonia lyase

C266R036 GRN < 2e-50 3.10 granulin

C067R165 < 2e-50 5.60

C070R155 < 2e-50 4.70

C120R089 DHRS13 < 2e-50 3.00 riken cdna 2610209n15

gene

C205R096 < 2e-50 7.80

391 Probe Gene Symbol p-value log2 FC Description

C050R021 Glud1 < 2e-50 3.20 glutamate dehydroge-

nase 1

C089R059 < 2e-50 3.50

C262R149 < 2e-50 6.30

C037R087 NR0B2 < 2e-50 4.30 nuclear receptor sub-

family 0, group b, mem-

ber 2

C029R083 < 2e-50 3.10

C050R139 < 2e-50 7.90

C064R157 < 2e-50 5.20

C251R073 ALLC < 2e-50 4.80 zgc:91799

C130R009 ASMTL < 2e-50 3.00 acetylserotonin o-

methyltransferase-like

C111R070 < 2e-50 4.30

C053R152 TYMP < 2e-50 4.10 thymidine phosphory-

lase

C230R165 ZP4 < 2e-50 6.60 zona pellucida glycopro-

tein 4

C053R105 ALDH1L2 < 2e-50 3.20 probable 10-

formyltetrahydrofolate

dehydrogenase aldh1l2

392 Probe Gene Symbol p-value log2 FC Description

C251R144 ITGAX < 2e-50 3.60 integrin, alpha x (com-

plement component 3

receptor 4 subunit)

C087R153 < 2e-50 5.70

C075R021 PHYHD1 < 2e-50 3.10 phytanoyl-coa dioxyge-

nase domain-containing

protein 1

C143R083 C7 < 2e-50 4.70 complement component

7

C041R060 UGT2A1 < 2e-50 3.40 udp glucuronosyltrans-

ferase 2 family, polypep-

tide a1

C237R122 UGT1A9 < 2e-50 3.20 udp-

glucuronosyltransferase

1-9 precursor

C146R022 F9 < 2e-50 5.00 coagulation factor ix

(plasma thromboplastic

component, christmas

disease, hemophilia b)

C039R053 < 2e-50 5.80

C030R107 STEAP4 < 2e-50 5.30 steap family member 4

C247R082 < 2e-50 4.10

C127R051 < 2e-50 4.20

393 Probe Gene Symbol p-value log2 FC Description

C101R129 < 2e-50 4.50

C218R096 C3 < 2e-50 3.30 complement component

3

C104R112 < 2e-50 3.30

C123R157 CYP7A1 < 2e-50 5.00 cytochrome p450, fam-

ily 7, subfamily a,

polypeptide 1

C138R074 < 2e-50 4.00

C018R058 PYGL < 2e-50 3.10 glycogen phosphory-

lase, liver form

C173R141 < 2e-50 3.10

C121R131 < 2e-50 5.90

C135R141 < 2e-50 3.60

C158R024 ZP4 < 2e-50 6.20 zona pellucida glycopro-

tein 4

C135R087 ADK < 2e-50 3.00 adenosine kinase

C139R106 MYCBP2 < 2e-50 3.10 probable e3 ubiquitin-

protein ligase mycbp2

C172R104 F5 < 2e-50 5.30 coagulation factor v

(proaccelerin, labile

factor)

C241R103 < 2e-50 6.00

394 Probe Gene Symbol p-value log2 FC Description

C120R007 QPCT < 2e-50 3.20 glutaminyl-peptide

cyclotransferase (glu-

taminyl cyclase)

C226R119 < 2e-50 4.20

C169R109 ITIH2 < 2e-50 5.60 inter-alpha (globulin)

inhibitor h2

C265R053 < 2e-50 5.80

C245R106 < 2e-50 3.00

C230R156 UGT1A6 < 2e-50 3.80 udp-

glucuronosyltransferase

1-6 precursor

C253R012 APOA4 < 2e-50 5.20 apolipoprotein a-iv

C105R105 STEAP4 < 2e-50 5.20 steap family member 4

C209R018 USP28 < 2e-50 4.10 ubiquitin specific pepti-

dase 28

C039R070 < 2e-50 5.50

C023R065 CRIM1 < 2e-50 3.30 cysteine rich transmem-

brane bmp regulator 1

(chordin-like)

C251R103 XDH < 2e-50 3.90 xanthine dehydrogenase

C113R048 < 2e-50 4.50

395 Probe Gene Symbol p-value log2 FC Description

C206R122 IGFBP2A < 2e-50 4.80 insulin-like growth

factor-binding protein 2

precursor

C134R089 < 2e-50 3.40

C071R161 < 2e-50 6.20

C169R146 < 2e-50 3.60

C138R029 MAT2A < 2e-50 3.80 methionine adenosyl-

transferase ii, alpha

C184R113 UCP3 < 2e-50 5.80 uncoupling protein 3

(mitochondrial, proton

carrier)

C128R016 < 2e-50 4.40

C151R107 AKR1B1 < 2e-50 3.20 aldo-keto reductase

family 1, member b1

(aldose reductase)

C093R004 < 2e-50 5.20

C245R076 BAAT 4.22e-49 5.30 bile acid-coenzyme

a: amino acid n-

acyltransferase

396 Probe Gene Symbol p-value log2 FC Description

C042R055 CYP4V2|CYP4V2 3.26e-47 3.10 cytochrome p450,

family 4, subfam-

ily v, polypeptide

2|cytochrome p450,

family 4, subfamily v,

polypeptide 2

C084R003 SLC2A2 2.19e-45 4.00 solute carrier family

2, facilitated glucose

transporter member 2

C143R103 ST3GAL4 3.22e-44 3.30 cmp-n-

acetylneuraminate-

beta-galactosamide-

alpha-2,3-

sialyltransferase

C161R148 IGFBP1 7.15e-44 5.90 insulin-like growth

factor-binding protein 1

precursor

C038R167 PLXNB3 1.09e-43 3.20 plexin-b3 precursor

C042R127 1.89e-42 3.50

C097R144 5.54e-42 5.70

C255R112 ITIH4 8.21e-42 3.30 inter-alpha-trypsin in-

hibitor heavy chain h4

precursor

397 Probe Gene Symbol p-value log2 FC Description

C027R095 1.46e-41 3.90

C260R076 1.55e-41 5.00

C132R074 1.81e-37 6.50

C078R006 2.90e-37 5.10

C259R026 TAT 3.34e-37 3.80 tyrosine aminotrans-

ferase

C082R088 6.75e-35 3.40

C236R035 DGAT2 1.50e-33 3.20 diacylglycerol o-

acyltransferase homolog

2 (mouse)

C043R129 CYP24A1 1.62e-33 4.20 cytochrome p450, fam-

ily 24, subfamily a,

polypeptide 1

C002R063 2.73e-32 4.10

C182R074 2.95e-32 4.10

C244R066 ENTPD8 1.07e-31 3.60 ectonucleoside triphos-

phate diphosphohydro-

lase 8

C100R072 CDH17 2.14e-31 3.80 cadherin 17, li cadherin

(liver-intestine)

C156R114 9.99e-31 3.20

C240R110 3.16e-30 5.20

C252R030 A2M 1.17e-28 3.10 alpha-2-macroglobulin

398 Probe Gene Symbol p-value log2 FC Description

C162R131 CDH17 1.74e-28 3.60 cadherin 17, li cadherin

(liver-intestine)

C007R039 SLC2A2 2.90e-26 3.30 solute carrier family

2, facilitated glucose

transporter member 2

C046R102 PHYHD1 2.16e-25 4.60 phytanoyl-coa dioxyge-

nase domain-containing

protein 1

C139R075 6.54e-24 3.20

C197R085 9.65e-24 4.40

C150R016 F10 3.46e-23 3.30 coagulation factor x

C115R035 5.73e-21 3.10

C035R008 GCK 8.64e-20 4.20 glucokinase

C138R086 MGEA5 2.20e-19 4.00 meningioma ex-

pressed antigen 5

(hyaluronidase)

C001R132 4.46e-18 3.70

C016R121 NR5A2 2.25e-16 5.20 nuclear receptor sub-

family 5, group a, mem-

ber 2

C033R164 AHSG 2.63e-16 3.60 alpha-2-hs-glycoprotein

precursor

399 Probe Gene Symbol p-value log2 FC Description

C009R111 GATA4-B 2.91e-15 3.00 transcription factor

gata-4

C138R093 3.71e-15 5.30

C217R117 2.24e-08 3.40

C260R104 4.94e-07 3.30

C171R035 CLDN3 2.05e-06 4.60 claudin 3

C116R150 4.54e-05 4.60

C158R107 CHIA 0.000565 3.20 chitinase, acidic

C052R084 ACY1 0.000603 3.80 riken cdna 1110014j22

gene

B.4 Muscle-Specific Probes

Probe Gene Symbol p-value log2 FC Description

C001R048 < 2e-50 7.20

C004R153 TMOD4 < 2e-50 6.80 tropomodulin 4

C011R069 ALDOA < 2e-50 6.30 aldolase a

C011R086 CKM|CKM < 2e-50 6.30 creatine kinase,

muscle|creatine ki-

nase, muscle

C011R098 TMOD4 < 2e-50 7.00 tropomodulin 4

C011R110 Casq1 < 2e-50 6.70 calsequestrin 1 (fast-

twitch, skeletal muscle)

400 Probe Gene Symbol p-value log2 FC Description

C013R018 TMOD4 < 2e-50 5.60 tropomodulin 4

C013R052 SLC25A5 < 2e-50 5.30 solute carrier family 25

(mitochondrial carrier;

adenine nucleotide

translocator), member

5

C013R062 < 2e-50 7.00

C017R120 < 2e-50 4.20

C021R009 LDB3 < 2e-50 7.30 lim domain binding 3

C021R126 EHBP1L1 < 2e-50 3.20 eh domain binding pro-

tein 1-like 1

C031R029 PGM1 < 2e-50 5.20 phosphoglucomutase 1

C032R090 BCAP29 < 2e-50 6.70 b-cell receptor-

associated protein

29

C034R016 < 2e-50 4.00

C035R145 GAPDH < 2e-50 6.00 glyceraldehyde-3-

phosphate dehydroge-

nase

C036R025 ACTA1 < 2e-50 6.80 actin, alpha 1, skeletal

muscle

C037R041 GPI < 2e-50 4.50 glucose phosphate iso-

merase

401 Probe Gene Symbol p-value log2 FC Description

C039R088 CKM|CKM < 2e-50 6.90 creatine kinase,

muscle|creatine ki-

nase, muscle

C041R012 CKMT2 < 2e-50 6.50 similar to creatine ki-

nase, mitochondrial 2

C041R082 CKM|CKM < 2e-50 7.10 creatine kinase,

muscle|creatine ki-

nase, muscle

C043R053 < 2e-50 7.30

C043R152 ALDOA < 2e-50 5.70 aldolase a

C044R153 < 2e-50 6.50

C045R080 < 2e-50 7.90

C046R157 < 2e-50 4.40

C047R005 < 2e-50 3.90

C048R081 BRP16 < 2e-50 7.90 brain protein 16

C049R003 ENO3 < 2e-50 4.00 enolase 1, (alpha)

C050R084 ALDOA < 2e-50 5.30 aldolase a

C050R123 < 2e-50 7.20

C051R017 < 2e-50 7.10

C052R013 < 2e-50 4.90

C052R082 EEF2 < 2e-50 4.60 eukaryotic translation

elongation factor 2

C052R144 ENO3 < 2e-50 5.30 enolase 1, (alpha)

402 Probe Gene Symbol p-value log2 FC Description

C056R120 < 2e-50 6.40

C057R103 < 2e-50 6.40

C058R020 ENO3 < 2e-50 4.30 enolase 1, (alpha)

C058R047 < 2e-50 5.80

C058R099 KBTBD12 < 2e-50 5.80 kelch domain-

containing protein

6

C061R059 PACSIN2 < 2e-50 4.20 protein kinase c and ca-

sein kinase substrate in

neurons 2

C061R079 CKM|CKM < 2e-50 6.20 creatine kinase,

muscle|creatine ki-

nase, muscle

C061R134 NEXN < 2e-50 4.80 nexilin

C061R152 NEFH < 2e-50 5.40 neurofilament, heavy

polypeptide 200kda

C062R053 CKM|CKM < 2e-50 6.00 creatine kinase,

muscle|creatine ki-

nase, muscle

C063R112 RPL3 < 2e-50 4.80 ribosomal protein l3

C064R031 < 2e-50 7.10

C065R163 OLA1 < 2e-50 6.60 gtp-binding protein

ptd004

403 Probe Gene Symbol p-value log2 FC Description

C066R135 TMOD4 < 2e-50 5.40 tropomodulin 4

C068R078 < 2e-50 8.60

C073R030 ALDOA < 2e-50 5.80 aldolase a

C073R054 < 2e-50 5.80

C077R050 < 2e-50 4.40

C080R099 BVES < 2e-50 4.40 blood vessel epicardial

substance

C080R132 < 2e-50 6.10

C083R044 LDB3 < 2e-50 6.90 lim domain binding 3

C084R060 < 2e-50 5.70

C086R055 SVIL < 2e-50 3.10 supervillin

C088R005 ADSSL1 < 2e-50 4.50 adenylosuccinate syn-

thase like 1

C088R131 TMOD4 < 2e-50 5.50 tropomodulin 4

C089R011 < 2e-50 4.20

C089R021 < 2e-50 4.30

C089R155 < 2e-50 7.20

C090R012 < 2e-50 4.80

C091R132 ACT2 < 2e-50 4.90 actin, alpha sarcom-

eric/cardiac

C091R142 ACT2 < 2e-50 5.20 actin, alpha sarcom-

eric/cardiac

C092R085 < 2e-50 4.90

404 Probe Gene Symbol p-value log2 FC Description

C094R044 < 2e-50 6.20

C096R058 TMOD4 < 2e-50 5.40 tropomodulin 4

C096R154 ADSL < 2e-50 3.80 adenylosuccinate lyase

C097R071 < 2e-50 5.30

C097R079 < 2e-50 3.90

C097R124 < 2e-50 6.70

C100R066 < 2e-50 5.00

C100R102 MYBPH < 2e-50 7.80 myosin binding protein

h

C102R103 ALDOA < 2e-50 4.30 aldolase a

C105R061 TMOD2 < 2e-50 4.70 tropomodulin 2

C107R100 LDB3 < 2e-50 6.70 lim domain binding 3

C107R168 KCNJ11 < 2e-50 4.50 potassium inwardly rec-

tifying channel, subfam-

ily j, member 11

C109R049 < 2e-50 6.80

C109R074 TMOD4 < 2e-50 5.40 tropomodulin 4

C110R039 Casq1 < 2e-50 6.90 calsequestrin 1 (fast-

twitch, skeletal muscle)

C111R047 KBTBD10 < 2e-50 6.70 kelch repeat and btb

(poz) domain contain-

ing 10

C111R078 < 2e-50 4.20

405 Probe Gene Symbol p-value log2 FC Description

C114R022 < 2e-50 5.70

C114R152 < 2e-50 4.60

C114R170 TMOD4 < 2e-50 5.40 tropomodulin 4

C117R014 ALDOA < 2e-50 4.80 aldolase a

C117R081 ALDOA < 2e-50 5.00 aldolase a

C120R082 FBP2 < 2e-50 6.90 fructose-1,6-

bisphosphatase 2

C120R105 CKM|CKM < 2e-50 7.60 creatine kinase,

muscle|creatine ki-

nase, muscle

C121R015 ATP2A2 < 2e-50 5.00 atpase, ca++ trans-

porting, cardiac muscle,

slow twitch 2

C122R068 THTPA < 2e-50 4.70 thiamine triphos-

phatase

C122R076 MYOZ1 < 2e-50 7.30 myozenin 1

C124R105 < 2e-50 6.80

C125R071 SMYD1 < 2e-50 6.00 set and mynd domain

containing 1

C128R073 CKM|CKM < 2e-50 7.20 creatine kinase,

muscle|creatine ki-

nase, muscle

406 Probe Gene Symbol p-value log2 FC Description

C128R160 CKM|CKM < 2e-50 8.40 creatine kinase,

muscle|creatine ki-

nase, muscle

C129R017 PGM1 < 2e-50 3.50 phosphoglucomutase 1

C130R010 ALDOA < 2e-50 4.50 aldolase a

C130R051 PTGES3 < 2e-50 5.40 prostaglandin e syn-

thase 3 (cytosolic)

C131R165 < 2e-50 7.30

C133R072 TMOD4 < 2e-50 5.60 tropomodulin 4

C133R136 < 2e-50 5.60

C135R074 KBTBD10 < 2e-50 5.80 kelch repeat and btb

(poz) domain contain-

ing 10

C137R129 CKM|CKM < 2e-50 7.60 creatine kinase,

muscle|creatine ki-

nase, muscle

C138R017 BCAP29 < 2e-50 6.50 b-cell receptor-

associated protein

29

C138R045 PYGM < 2e-50 5.40 phosphorylase, glyco-

gen; muscle (mcardle

syndrome, glycogen

storage disease type v)

407 Probe Gene Symbol p-value log2 FC Description

C138R096 ALDOA < 2e-50 6.60 aldolase a

C139R078 TMOD4 < 2e-50 6.30 tropomodulin 4

C140R023 < 2e-50 7.00

C142R098 LDB3 < 2e-50 7.40 lim domain binding 3

C143R060 < 2e-50 6.50

C143R170 < 2e-50 4.80

C146R105 PYGM < 2e-50 6.30 phosphorylase, glyco-

gen; muscle (mcardle

syndrome, glycogen

storage disease type v)

C147R141 ALDOA < 2e-50 4.40 aldolase a

C149R059 < 2e-50 5.60

C149R123 NEXN < 2e-50 5.00 nexilin

C149R131 ACT2 < 2e-50 4.00 actin, alpha sarcom-

eric/cardiac

C150R120 TMOD4 < 2e-50 5.50 tropomodulin 4

C150R133 ACT2 < 2e-50 5.20 actin, alpha sarcom-

eric/cardiac

C152R055 KBTBD10 < 2e-50 7.10 kelch repeat and btb

(poz) domain contain-

ing 10

C157R054 ACT2 < 2e-50 7.00 actin, alpha sarcom-

eric/cardiac

408 Probe Gene Symbol p-value log2 FC Description

C157R130 < 2e-50 5.80

C158R106 < 2e-50 5.50

C158R110 < 2e-50 6.40

C162R146 < 2e-50 5.10

C165R018 USP28 < 2e-50 3.90 ubiquitin specific pepti-

dase 28

C169R048 HSPA8|HSPA8 < 2e-50 4.80 heat shock 70kda pro-

tein 8|heat shock 70kda

protein 8

C169R138 < 2e-50 6.50

C172R021 ENO3 < 2e-50 6.40 enolase 1, (alpha)

C172R083 TMOD4 < 2e-50 5.50 tropomodulin 4

C177R017 < 2e-50 8.60

C177R095 < 2e-50 6.70

C177R165 TMOD4 < 2e-50 5.40 tropomodulin 4

C178R027 ALDOA < 2e-50 5.20 aldolase a

C180R001 TMOD4 < 2e-50 5.40 tropomodulin 4

C180R083 TMOD4 < 2e-50 5.40 tropomodulin 4

C181R002 FAM135A < 2e-50 4.20 protein fam135a

C181R064 GAMT < 2e-50 3.50 zgc:123136

C181R109 < 2e-50 5.90

C182R138 < 2e-50 7.70

C185R090 TMOD4 < 2e-50 5.50 tropomodulin 4

409 Probe Gene Symbol p-value log2 FC Description

C186R086 GPI < 2e-50 5.70 glucose phosphate iso-

merase

C187R131 BIN1 < 2e-50 6.70 myc box-dependent-

interacting protein

1

C188R025 < 2e-50 5.70

C189R154 TRDN < 2e-50 5.60 triadin

C190R137 < 2e-50 4.10

C192R010 < 2e-50 8.30

C194R145 RPL3 < 2e-50 5.10 ribosomal protein l3

C201R021 < 2e-50 6.50

C201R161 < 2e-50 5.10

C202R123 SH3BGR < 2e-50 5.20 sh3-binding domain

glutamic acid-rich

protein

C202R141 ABRA < 2e-50 6.80 actin-binding rho-

activating protein

C204R023 < 2e-50 5.90

C204R026 < 2e-50 6.50

C204R032 ACT2 < 2e-50 4.80 actin, alpha sarcom-

eric/cardiac

C207R091 < 2e-50 7.60

410 Probe Gene Symbol p-value log2 FC Description

C209R077 ACT2 < 2e-50 5.30 actin, alpha sarcom-

eric/cardiac

C209R101 Casq1 < 2e-50 7.50 calsequestrin 1 (fast-

twitch, skeletal muscle)

C209R137 < 2e-50 5.90

C211R109 SMYD2 < 2e-50 4.30 set and mynd domain

containing 2

C212R042 ACT2 < 2e-50 8.30 actin, alpha sarcom-

eric/cardiac

C215R019 < 2e-50 5.70

C215R154 ALDOA < 2e-50 4.40 aldolase a

C216R035 < 2e-50 4.40

C219R020 PACSIN2 < 2e-50 4.80 protein kinase c and ca-

sein kinase substrate in

neurons 2

C219R093 ACT2 < 2e-50 5.00 actin, alpha sarcom-

eric/cardiac

C222R148 DHRS7B < 2e-50 7.30 dehydrogenase/reductase

sdr family member 7b

C223R041 SMYD1 < 2e-50 7.10 set and mynd domain

containing 1

C223R058 PGAM2 < 2e-50 5.20 phosphoglycerate mu-

tase 2 (muscle)

411 Probe Gene Symbol p-value log2 FC Description

C223R085 ASB2 < 2e-50 4.40 ankyrin repeat and socs

box-containing protein

2

C223R110 < 2e-50 5.70

C226R069 < 2e-50 7.00

C227R053 < 2e-50 5.50

C228R019 < 2e-50 6.40

C228R110 < 2e-50 5.30

C229R132 SMYD1 < 2e-50 8.40 set and mynd domain

containing 1

C230R014 < 2e-50 6.90

C232R115 ACT2 < 2e-50 5.40 actin, alpha sarcom-

eric/cardiac

C232R135 < 2e-50 7.40

C233R105 PGM2 < 2e-50 3.20 zgc:77113

C233R116 < 2e-50 6.60

C233R148 CKM|CKM < 2e-50 5.40 creatine kinase,

muscle|creatine ki-

nase, muscle

C233R164 DCUN1D2 < 2e-50 4.40 dcn1, defective in cullin

neddylation 1, domain

containing 2 (s. cere-

visiae)

412 Probe Gene Symbol p-value log2 FC Description

C234R096 DHRS7B < 2e-50 6.30 dehydrogenase/reductase

sdr family member 7b

C234R098 TRIM35|TRIM35 < 2e-50 7.20 tripartite motif-

containing 35|tripartite

motif-containing 35

C238R086 < 2e-50 5.60

C241R052 < 2e-50 4.80

C243R059 < 2e-50 7.40

C243R110 < 2e-50 4.90

C244R022 ALDOA < 2e-50 4.20 aldolase a

C246R003 MYBPC2 < 2e-50 7.40 myosin binding protein

c, fast-type

C247R085 ACT2 < 2e-50 5.00 actin, alpha sarcom-

eric/cardiac

C249R080 < 2e-50 7.40

C250R111 < 2e-50 4.70

C250R114 < 2e-50 3.40

C250R130 ACT2 < 2e-50 6.00 actin, alpha sarcom-

eric/cardiac

C253R048 TMOD4 < 2e-50 6.20 tropomodulin 4

C258R089 ACT2 < 2e-50 5.20 actin, alpha sarcom-

eric/cardiac

C260R157 ENO3 < 2e-50 4.50 enolase 1, (alpha)

413 Probe Gene Symbol p-value log2 FC Description

C261R071 TMOD4 < 2e-50 5.50 tropomodulin 4

C261R148 TPI1 < 2e-50 4.30 triosephosphate iso-

merase 1

C263R053 < 2e-50 6.70

C263R118 PGM2 < 2e-50 3.50 zgc:77113

C264R043 TMOD4 < 2e-50 5.60 tropomodulin 4

C060R130 < 2e-50 6.90

C094R169 < 2e-50 4.90

C206R039 < 2e-50 5.10

C178R056 PHS1 < 2e-50 6.60 hypothetical 24.5 kda

protein in sap185-bck1

intergenic region

C167R036 < 2e-50 6.20

C053R083 < 2e-50 3.90

C247R045 < 2e-50 3.50

C039R055 HRC < 2e-50 6.40 histidine rich calcium

binding protein

C196R133 CKM|CKM < 2e-50 8.20 creatine kinase,

muscle|creatine ki-

nase, muscle

C154R103 Casq1 < 2e-50 6.10 calsequestrin 1 (fast-

twitch, skeletal muscle)

414 Probe Gene Symbol p-value log2 FC Description

C203R149 FSD2 < 2e-50 3.70 fibronectin type iii and

spry domain-containing

protein 2

C066R056 INO80D < 2e-50 5.80 uncharacterized protein

flj20309

C165R106 < 2e-50 4.20

C056R129 ALDOA < 2e-50 3.40 aldolase a

C084R040 MATR3 < 2e-50 4.70 matrin 3

C138R160 LDB3 < 2e-50 7.40 lim domain binding 3

C263R019 MYBPC2 < 2e-50 6.10 myosin binding protein

c, fast-type

C123R152 < 2e-50 6.20

C028R126 MYBPC2 < 2e-50 7.20 myosin binding protein

c, fast-type

C184R078 ABRA < 2e-50 6.20 actin-binding rho-

activating protein

C256R040 PQLC3 < 2e-50 4.50 pq loop repeat contain-

ing 3

C209R068 SMYD1 < 2e-50 7.70 set and mynd domain

containing 1

C205R090 CDK12 < 2e-50 3.70 cell division cycle 2-

related protein kinase 7

415 Probe Gene Symbol p-value log2 FC Description

C016R125 RAMP1 < 2e-50 3.80 receptor (calcitonin) ac-

tivity modifying protein

1

C185R162 ASPH < 2e-50 4.90 aspartate beta-

hydroxylase

C150R023 < 2e-50 6.10

C117R125 < 2e-50 3.20

C107R157 ADSSL1 < 2e-50 4.10 adenylosuccinate syn-

thase like 1

C141R134 < 2e-50 4.60

C122R020 TXNIP < 2e-50 5.30 thioredoxin interacting

protein

C156R098 TXLNB < 2e-50 6.20 taxilin beta

C028R026 KLHL31 < 2e-50 6.20 riken cdna d930047p17

gene

C113R132 < 2e-50 3.20

C191R067 < 2e-50 3.10

C107R158 FSD2 < 2e-50 3.00 fibronectin type iii and

spry domain-containing

protein 2

C113R134 PGK1 < 2e-50 4.40 phosphoglycerate ki-

nase 1

416 Probe Gene Symbol p-value log2 FC Description

C019R161 APOBEC2 < 2e-50 6.90 apolipoprotein b mrna

editing enzyme, cat-

alytic polypeptide-like 2

C116R033 KBTBD12 < 2e-50 5.00 kelch domain-

containing protein

6

C247R010 KBTBD12 < 2e-50 3.50 kelch domain-

containing protein

6

C073R146 GAPDH < 2e-50 4.60 glyceraldehyde-3-

phosphate dehydroge-

nase

C243R062 DCUN1D2 < 2e-50 3.70 dcn1, defective in cullin

neddylation 1, domain

containing 2 (s. cere-

visiae)

C053R010 GPI < 2e-50 4.90 glucose phosphate iso-

merase

C098R135 < 2e-50 4.60

C064R038 CAV3 < 2e-50 4.00 caveolin 3

417 Probe Gene Symbol p-value log2 FC Description

C241R063 CHORDC1 < 2e-50 5.30 cysteine and histidine-

rich domain (chord)-

containing, zinc binding

protein 1

C129R137 < 2e-50 5.40

C180R068 < 2e-50 3.30

C162R060 SCAMP1 < 2e-50 5.30 riken cdna 4930505m11

gene

C243R143 < 2e-50 5.30

C038R169 PGM2 < 2e-50 4.70 zgc:77113

C007R024 < 2e-50 5.80

C071R143 SRL < 2e-50 5.60 im:6899248

C201R067 < 2e-50 4.50

C040R052 AMPD1 < 2e-50 7.30 adenosine monophos-

phate deaminase 1

(isoform m)

C220R073 USP28 < 2e-50 3.30 ubiquitin specific pepti-

dase 28

C186R105 BAG2 < 2e-50 3.80 bcl2-associated athano-

gene 2

C208R072 MYOZ2 < 2e-50 4.70 zgc:77803

C248R149 ACYP2 < 2e-50 3.30 acylphosphatase-2

C188R003 < 2e-50 3.60

418 Probe Gene Symbol p-value log2 FC Description

C113R055 < 2e-50 6.50

C168R075 DUSP27 < 2e-50 3.50 inactive dual specificity

phosphatase 27

C177R052 ALDH3A2 < 2e-50 3.90 aldehyde dehydroge-

nase 3 family, member

a2

C084R051 MYOM2 < 2e-50 6.40 myomesin (m-protein)

2, 165kda

C248R166 < 2e-50 3.00

C047R084 P2RX5 < 2e-50 6.20 p2x purinoceptor 5

C081R030 PTGFR < 2e-50 3.30 prostaglandin f2-alpha

receptor

C067R069 DD25 < 2e-50 4.60 hypothetical protein

dd25

C252R039 < 2e-50 4.20

C027R168 < 2e-50 5.10

C118R017 APOBEC2 < 2e-50 3.60 apolipoprotein b mrna

editing enzyme, cat-

alytic polypeptide-like 2

C243R073 TMEM38A < 2e-50 5.60 zgc:77831

C165R169 ASPH < 2e-50 6.90 aspartate beta-

hydroxylase

419 Probe Gene Symbol p-value log2 FC Description

C187R085 ADSSL1 < 2e-50 4.00 adenylosuccinate syn-

thase like 1

C054R062 NNT < 2e-50 3.60 nicotinamide nucleotide

transhydrogenase

C182R001 < 2e-50 6.20

C148R033 DES < 2e-50 6.40 desmin

C143R091 Cmya5 < 2e-50 4.70 cardiomyopathy associ-

ated 5

C113R060 < 2e-50 5.20

C018R117 < 2e-50 3.00

C181R149 PHKB < 2e-50 3.10 phosphorylase kinase,

beta

C086R149 < 2e-50 6.10

C142R032 CHORDC1 < 2e-50 5.80 cysteine and histidine-

rich domain (chord)-

containing, zinc binding

protein 1

C153R070 < 2e-50 4.80

C123R099 RNF115 < 2e-50 3.20 zinc finger protein 364

C138R117 MYH3 < 2e-50 4.30 myosin-3

C120R157 ALDOA < 2e-50 7.70 aldolase a

C121R093 < 2e-50 7.90

C197R063 < 2e-50 3.40

420 Probe Gene Symbol p-value log2 FC Description

C224R049 < 2e-50 5.60

C261R044 ACTN4 < 2e-50 7.10 alpha-actinin-4

C253R018 < 2e-50 4.70

C133R137 < 2e-50 3.10

C133R131 SLC25A5 < 2e-50 6.80 solute carrier family 25

(mitochondrial carrier;

adenine nucleotide

translocator), member

5

C195R054 < 2e-50 7.30

C104R105 < 2e-50 5.80

C170R035 < 2e-50 6.90

C173R066 ZGC:158664 < 2e-50 7.60 ptrf/sdpr family protein

C159R015 NEXN < 2e-50 5.20 nexilin

C110R031 IGSF22 < 2e-50 8.60 immunoglobulin super-

family member 22

C032R054 AGL < 2e-50 3.60 amylo-1, 6-

glucosidase, 4-alpha-

glucanotransferase

(glycogen debranch-

ing enzyme, glycogen

storage disease type iii)

421 Probe Gene Symbol p-value log2 FC Description

C101R086 METTL11A < 2e-50 3.40 upf0351 protein c9orf32

homolog

C253R132 < 2e-50 3.70

C263R147 TRAFD1 < 2e-50 4.30 traf-type zinc finger

domain-containing

protein 1

C136R053 PDLIM7 < 2e-50 5.30 pdz and lim domain 7

C053R089 TTN|TTN < 2e-50 5.60 titin|titin

C096R146 NUP188 < 2e-50 3.40 nucleoporin nup188 ho-

molog

C157R001 < 2e-50 3.40

C066R097 ITGB1BP3 < 2e-50 5.60 integrin beta 1 binding

protein 3

C078R139 < 2e-50 6.20

C063R057 TXNIP < 2e-50 5.10 thioredoxin interacting

protein

C192R139 SRL < 2e-50 5.50 im:6899248

C192R154 HOXB8A < 2e-50 3.40 homeo box b8a

C128R066 < 2e-50 3.80

C020R012 < 2e-50 3.80

C237R101 < 2e-50 3.50

C079R073 CFL2 < 2e-50 3.10 cofilin 2, muscle

422 Probe Gene Symbol p-value log2 FC Description

C210R081 SLC25A12 < 2e-50 3.00 solute carrier family 25

(mitochondrial carrier,

aralar), member 12

C234R039 < 2e-50 3.40

C089R101 < 2e-50 4.80

C049R036 STOM < 2e-50 4.00 stomatin

C184R130 < 2e-50 4.50

C154R088 SLC25A12 < 2e-50 4.50 solute carrier family 25

(mitochondrial carrier,

aralar), member 12

C208R027 < 2e-50 4.80

C137R142 PABPC4 < 2e-50 5.50 poly(a) binding pro-

tein, cytoplasmic 4

(inducible form)

C053R112 COL28A1 < 2e-50 3.20 collagen alpha-1(xxviii)

chain precursor

C091R125 < 2e-50 4.40

C053R019 < 2e-50 4.60

C073R166 PDK3 < 2e-50 4.00 pyruvate dehydrogenase

kinase, isoenzyme 3

C003R120 CLIC5 < 2e-50 4.10 chloride intracellular

channel 5

423 Probe Gene Symbol p-value log2 FC Description

C250R010 NNT < 2e-50 3.50 nicotinamide nucleotide

transhydrogenase

C236R013 DES < 2e-50 4.80 desmin

C057R055 XIRP2 < 2e-50 6.20 xin actin-binding

repeat-containing pro-

tein 2

C199R051 TMEM41AA < 2e-50 4.20 transmembrane protein

41a precursor

C228R149 < 2e-50 3.00

C264R084 < 2e-50 4.60

C214R057 < 2e-50 6.00

C179R098 NNT < 2e-50 3.50 nicotinamide nucleotide

transhydrogenase

C098R022 ADSSL1 < 2e-50 3.50 adenylosuccinate syn-

thase like 1

C222R002 PABPC4 < 2e-50 4.30 poly(a) binding pro-

tein, cytoplasmic 4

(inducible form)

C065R162 SMYD1 < 2e-50 4.40 set and mynd domain

containing 1

C145R066 ZGC:92542 < 2e-50 5.00 zgc:92542

C232R003 VPS13C < 2e-50 3.20 vacuolar protein sorting

13c (yeast)

424 Probe Gene Symbol p-value log2 FC Description

C129R111 < 2e-50 3.90

C176R064 < 2e-50 4.60

C141R112 MPV17L2 < 2e-50 3.50 uncharacterized protein

fksg24 homolog

C127R094 IGSF22 < 2e-50 7.30 immunoglobulin super-

family member 22

C088R091 TNNI2 < 2e-50 5.20 troponin i type 2 (skele-

tal, fast)

C263R120 < 2e-50 5.40

C162R024 < 2e-50 3.90

C056R050 PABPC4 < 2e-50 3.80 poly(a) binding pro-

tein, cytoplasmic 4

(inducible form)

C052R166 < 2e-50 3.30

C061R074 < 2e-50 3.70

C046R081 TRPM7 < 2e-50 4.50 transient receptor po-

tential cation channel,

subfamily m, member 7

C193R054 TTN|TTN < 2e-50 4.20 titin|titin

C042R028 ME3 < 2e-50 4.60 malic enzyme 3,

nadp(+)-dependent,

mitochondrial

C205R068 < 2e-50 3.20

425 Probe Gene Symbol p-value log2 FC Description

C118R021 < 2e-50 6.20

C074R154 CHRNE < 2e-50 3.60 acetylcholine recep-

tor subunit epsilon

precursor

C085R048 APOO < 2e-50 3.00 hypothetical protein

mgc4825

C072R116 < 2e-50 3.80

C159R129 FLNC < 2e-50 3.10 filamin c, gamma (actin

binding protein 280)

C128R024 < 2e-50 4.60

C144R169 < 2e-50 4.60

C197R062 < 2e-50 4.30

C220R124 MYOZ2 < 2e-50 6.90 zgc:77803

C013R158 SMYD1 < 2e-50 4.50 set and mynd domain

containing 1

C200R149 < 2e-50 6.10

C076R024 ANKRD9 < 2e-50 5.30 ankyrin repeat domain

9

C073R026 DDIT4L < 2e-50 3.80 dna-damage-inducible

transcript 4-like

C266R127 SMYD1 < 2e-50 4.40 set and mynd domain

containing 1

C210R112 < 2e-50 4.20

426 Probe Gene Symbol p-value log2 FC Description

C102R043 MYOZ1 < 2e-50 7.00 myozenin 1

C185R084 < 2e-50 4.70

C026R061 NEURL2 < 2e-50 4.80 neuralized-like 2

(drosophila)

C186R055 TMEM41AA < 2e-50 4.60 transmembrane protein

41a precursor

C248R151 < 2e-50 6.00

C252R114 < 2e-50 3.90

C178R026 FLNC < 2e-50 3.10 filamin c, gamma (actin

binding protein 280)

C089R152 PPP1R3D < 2e-50 5.20 protein phosphatase 1,

regulatory subunit 3d

C248R080 < 2e-50 4.20

C175R023 RBFOX1L < 2e-50 6.00 fox-1 homolog-like pro-

tein 1

C193R142 PHKG1 < 2e-50 4.90 phosphorylase kinase,

gamma 1 (muscle)

C131R006 < 2e-50 6.80

C062R056 RBFOX1L < 2e-50 6.40 fox-1 homolog-like pro-

tein 1

C025R036 ZGC:158664 < 2e-50 4.70 ptrf/sdpr family protein

C199R008 SRL < 2e-50 4.30 im:6899248

427 Probe Gene Symbol p-value log2 FC Description

C151R033 DHRS7B < 2e-50 3.10 dehydrogenase/reductase

sdr family member 7b

C164R029 SRL < 2e-50 6.70 im:6899248

C011R159 SRL < 2e-50 6.60 im:6899248

C256R034 LDB3 < 2e-50 6.70 lim domain binding 3

C151R012 < 2e-50 5.80

C087R088 TMOD3 < 2e-50 5.00 tropomodulin-3

C091R016 APOBEC2 < 2e-50 3.60 apolipoprotein b mrna

editing enzyme, cat-

alytic polypeptide-like 2

C121R032 < 2e-50 3.80

C188R113 < 2e-50 6.90

C186R059 RTN2 < 2e-50 6.60 reticulon 2

C228R082 < 2e-50 6.10

C111R145 RIN3 < 2e-50 3.40 ras and rab interactor 3

C179R074 GMPR < 2e-50 3.80 guanosine monophos-

phate reductase

C233R062 < 2e-50 6.20

C245R100 FBP1 < 2e-50 5.10 fructose-1,6-

bisphosphatase 1

C213R117 < 2e-50 3.20

428 Probe Gene Symbol p-value log2 FC Description

C079R057 Kbtbd5 < 2e-50 5.10 kelch repeat and btb

(poz) domain contain-

ing 5

C113R085 PPM1A < 2e-50 3.90 protein phosphatase 1a,

magnesium dependent,

alpha isoform

C188R142 < 2e-50 3.30

C178R113 < 2e-50 3.70

C163R092 < 2e-50 3.30

C051R138 < 2e-50 3.50

C109R157 < 2e-50 3.60

C258R027 IGSF22 < 2e-50 7.70 immunoglobulin super-

family member 22

C047R143 EEF2 < 2e-50 5.70 eukaryotic translation

elongation factor 2

C053R003 < 2e-50 5.20

C177R107 < 2e-50 3.20

C144R149 < 2e-50 4.60

C232R124 DHRS7B < 2e-50 4.40 dehydrogenase/reductase

sdr family member 7b

429 Probe Gene Symbol p-value log2 FC Description

C185R041 MTHFD2 < 2e-50 5.00 methylenetetrahydrofolate

dehydrogenase (nad+

dependent), methenyl-

tetrahydrofolate cyclo-

hydrolase

C169R060 < 2e-50 5.50

C178R121 SRL < 2e-50 6.50 im:6899248

C026R018 PPP1CB < 2e-50 3.90 protein phosphatase 1,

catalytic subunit, beta

isoform

C014R129 < 2e-50 5.50

C215R133 LRRC20 < 2e-50 3.80 leucine rich repeat con-

taining 20

C122R092 SMYD1 < 2e-50 5.50 set and mynd domain

containing 1

C053R050 TTN|TTN < 2e-50 6.40 titin|titin

C195R170 CACNG1 < 2e-50 4.80 voltage-dependent cal-

cium channel gamma-1

subunit

C197R142 < 2e-50 5.50

C163R095 TXLNB < 2e-50 5.90 taxilin beta

C246R046 FGF3 < 2e-50 5.50 fibroblast growth factor

3

430 Probe Gene Symbol p-value log2 FC Description

C192R136 < 2e-50 4.40

C194R144 < 2e-50 4.10

C205R158 TXLNB < 2e-50 5.60 taxilin beta

C266R146 NOC2L < 2e-50 4.80 nucleolar complex pro-

tein 2 homolog

C256R063 ALDOCB < 2e-50 7.80 fructose-bisphosphate

aldolase c

C194R147 GMPR < 2e-50 4.60 guanosine monophos-

phate reductase

C011R075 SLC41A1 < 2e-50 4.00 solute carrier family 41

member 1

C087R148 < 2e-50 3.50

C148R064 KDM4B < 2e-50 4.40 jmjc domain-containing

histone demethylation

protein 3b

C090R043 ZMYND17 < 2e-50 4.20 zinc finger, mynd-type

containing 17

C144R158 TECR < 2e-50 5.70 synaptic glycoprotein

sc2

C237R114 ETNK1 < 2e-50 4.60 ethanolamine kinase 1

C043R143 FLII < 2e-50 8.30 flightless i homolog

(drosophila)

C133R016 MYH3 < 2e-50 4.90 myosin-3

431 Probe Gene Symbol p-value log2 FC Description

C138R033 < 2e-50 5.80

C249R024 LDB3 < 2e-50 6.70 lim domain binding 3

C252R090 < 2e-50 3.90

C198R091 HSP90A.1 < 2e-50 6.70 heat shock protein 90-

alpha

C104R120 < 2e-50 3.50

C244R004 DDIT4L < 2e-50 3.70 dna-damage-inducible

transcript 4-like

C104R151 < 2e-50 3.40

C143R143 RPS2 < 2e-50 7.20 ribosomal protein s2

C136R087 < 2e-50 4.10

C080R019 EIF4E2 < 2e-50 3.10 eukaryotic translation

initiation factor 4e

member 2

C248R132 KLHL31 < 2e-50 5.70 riken cdna d930047p17

gene

C058R124 < 2e-50 5.90

C224R038 SH3BGR < 2e-50 3.80 sh3-binding domain

glutamic acid-rich

protein

C265R092 RTN2 < 2e-50 6.30 reticulon 2

C108R019 SLC38A3 < 2e-50 4.70 solute carrier family 38,

member 3

432 Probe Gene Symbol p-value log2 FC Description

C231R157 < 2e-50 3.30

C244R091 PHKB < 2e-50 3.00 phosphorylase kinase,

beta

C104R095 < 2e-50 7.10

C063R010 PYGM < 2e-50 7.00 phosphorylase, glyco-

gen; muscle (mcardle

syndrome, glycogen

storage disease type v)

C059R084 TMEM182 < 2e-50 3.70 hypothetical protein

flj30294

C051R050 < 2e-50 3.20

C023R004 HSPB11 < 2e-50 4.10 heat shock protein beta-

11

C090R011 STAC3 < 2e-50 3.50 sh3 and cysteine-rich

domain-containing pro-

tein 3

C106R056 TRDN < 2e-50 4.10 triadin

C163R131 MYOG < 2e-50 3.80 myogenin

C181R087 < 2e-50 3.90

C029R016 < 2e-50 4.90

C041R004 TRDN < 2e-50 3.70 triadin

C112R052 < 2e-50 4.00

C004R141 < 2e-50 5.90

433 Probe Gene Symbol p-value log2 FC Description

C131R116 PHKB < 2e-50 3.10 phosphorylase kinase,

beta

C020R165 PACSIN3 < 2e-50 3.90 protein kinase c and ca-

sein kinase ii substrate

protein 3

C040R081 < 2e-50 4.50

C196R165 MLF1 < 2e-50 4.50 similar to myeloid

leukemia factor 1

C182R095 < 2e-50 4.70

C186R102 CTCF < 2e-50 4.50 ccctc-binding factor

(zinc finger protein)

C155R156 < 2e-50 4.40

C181R067 < 2e-50 4.50

C135R160 < 2e-50 3.90

C076R020 MAP1LC3A < 2e-50 6.20 microtubule-associated

protein 1 light chain 3

alpha

C069R003 < 2e-50 4.60

C189R120 < 2e-50 6.00

C090R081 CRYAB < 2e-50 3.10 alpha-crystallin b chain

C213R110 < 2e-50 4.90

434 Probe Gene Symbol p-value log2 FC Description

C257R160 PYGM < 2e-50 6.20 phosphorylase, glyco-

gen; muscle (mcardle

syndrome, glycogen

storage disease type v)

C030R001 < 2e-50 3.20

C051R121 UGP2 < 2e-50 3.30 udp-glucose pyrophos-

phorylase 2

C046R130 < 2e-50 4.20

C223R081 GATM < 2e-50 6.90 glycine amidino-

transferase (l-

arginine:glycine

amidinotransferase)

C059R005 TMEM38A < 2e-50 6.30 zgc:77831

C114R013 TXLNB < 2e-50 4.70 taxilin beta

C217R001 < 2e-50 5.50

C088R112 < 2e-50 3.80

C207R082 EIF4A1 < 2e-50 3.20 eukaryotic translation

initiation factor 4a,

isoform 1

C153R033 MCOLN2 < 2e-50 3.40 mucolipin-2

C123R106 < 2e-50 4.90

435 Probe Gene Symbol p-value log2 FC Description

C135R128 SLCO1B3 < 2e-50 4.10 solute carrier organic

anion transporter fam-

ily member 1b3

C225R142 ARSA < 2e-50 3.20 arylsulfatase a

C077R090 GYG1 < 2e-50 3.20 glycogenin 1

C007R038 TTN|TTN < 2e-50 5.30 titin|titin

C104R068 < 2e-50 4.80

C207R001 EHBP1L1 < 2e-50 4.20 eh domain binding pro-

tein 1-like 1

C119R116 CSPG5 < 2e-50 3.50 chondroitin sulfate pro-

teoglycan 5

C087R093 SMTNL2 < 2e-50 3.50 riken cdna d130058i21

gene

C121R162 ITGB1BP3 < 2e-50 5.30 integrin beta 1 binding

protein 3

C013R148 < 2e-50 3.90

C216R131 TRDN < 2e-50 3.50 triadin

C173R167 WDR82 < 2e-50 4.80 zgc:55453

C028R170 < 2e-50 3.70

C178R033 < 2e-50 3.30

C023R160 PGAM2 < 2e-50 6.50 phosphoglycerate mu-

tase 2 (muscle)

C161R075 ANXA6 < 2e-50 3.20 annexin a6

436 Probe Gene Symbol p-value log2 FC Description

C195R072 AGL < 2e-50 4.60 amylo-1, 6-

glucosidase, 4-alpha-

glucanotransferase

(glycogen debranch-

ing enzyme, glycogen

storage disease type iii)

C088R046 ACOT12 < 2e-50 3.50 acyl-coenzyme a

thioesterase 12

C217R011 < 2e-50 3.30

C096R096 ITGB1BP3 < 2e-50 5.20 integrin beta 1 binding

protein 3

C121R115 < 2e-50 3.10

C116R006 < 2e-50 3.30

C258R079 AGL < 2e-50 3.90 amylo-1, 6-

glucosidase, 4-alpha-

glucanotransferase

(glycogen debranch-

ing enzyme, glycogen

storage disease type iii)

C091R019 KLHL31 < 2e-50 6.30 riken cdna d930047p17

gene

C255R102 < 2e-50 5.10

C221R082 < 2e-50 3.20

437 Probe Gene Symbol p-value log2 FC Description

C159R152 PKM2 < 2e-50 4.30 cytosolic thyroid

hormone binding pro-

tein/pyruvate kinase

type m2

C081R165 < 2e-50 3.70

C212R115 HSP90A.1 < 2e-50 5.60 heat shock protein 90-

alpha

C238R069 MYOZ2 < 2e-50 3.20 zgc:77803

C047R007 TCAP < 2e-50 5.90 titin-cap (telethonin)

C027R031 < 2e-50 4.10

C121R053 KBTBD12 < 2e-50 3.60 kelch domain-

containing protein

6

C076R028 < 2e-50 4.40

C249R116 PVALB2 < 2e-50 5.00 parvalbumin 2

C247R090 ZSWIM5 < 2e-50 3.80 zinc finger swim

domain-containing

protein 5

C103R102 EPHX1 < 2e-50 4.40 epoxide hydrolase 1, mi-

crosomal

C230R037 MAT2A < 2e-50 5.20 methionine adenosyl-

transferase ii, alpha

438 Probe Gene Symbol p-value log2 FC Description

C229R038 HSP90A.1 < 2e-50 5.30 heat shock protein 90-

alpha

C084R128 OBSCN < 2e-50 3.40 hypothetical protein

flj14124

C228R009 HSP90A.1 < 2e-50 6.10 heat shock protein 90-

alpha

C182R017 < 2e-50 3.50

C264R125 ITGB1BP3 < 2e-50 4.90 integrin beta 1 binding

protein 3

C180R101 < 2e-50 4.80

C002R123 ASB12 < 2e-50 3.40 ankyrin repeat and socs

box-containing protein

12

C151R165 GAPDH < 2e-50 6.30 glyceraldehyde-3-

phosphate dehydroge-

nase

C147R067 < 2e-50 4.60

C014R034 TTN|TTN < 2e-50 4.10 titin|titin

C151R127 PVALB2 < 2e-50 5.10 parvalbumin 2

C189R129 ASNSD1 < 2e-50 3.70 asparagine synthetase

domain containing 1

C015R007 IMPA1 < 2e-50 3.30 inositol monophos-

phatase

439 Probe Gene Symbol p-value log2 FC Description

C213R092 TTN|TTN < 2e-50 5.50 titin|titin

C142R030 < 2e-50 3.10

C150R089 SRPK1 < 2e-50 3.30 sfrs protein kinase 1

C023R133 < 2e-50 3.60

C254R055 XIRP1 < 2e-50 3.50 xin actin-binding

repeat-containing pro-

tein 1

C011R035 APOB < 2e-50 3.90 apolipoprotein b (in-

cluding ag(x) antigen)

C065R057 SDR16C5 < 2e-50 4.10 epidermal retinal dehy-

drogenase 2

C171R151 < 2e-50 3.40

C250R047 SLC43A3|SLC43A3 < 2e-50 3.60 solute carrier family 43,

member 3|solute carrier

family 43, member 3

C133R087 CAV3 < 2e-50 4.50 caveolin 3

C005R133 < 2e-50 3.40

C187R140 < 2e-50 4.30

C200R154 < 2e-50 4.20

C021R155 SMTNL2 < 2e-50 4.60 riken cdna d130058i21

gene

C049R101 OTX1 < 2e-50 4.20 orthodenticle homolog 1

440 Probe Gene Symbol p-value log2 FC Description

C211R141 GYS1 < 2e-50 3.60 glycogen synthase 1

(muscle)

C207R014 < 2e-50 3.50

C247R014 SMYD2 < 2e-50 3.60 set and mynd domain

containing 2

C243R129 < 2e-50 3.20

C037R060 TRIM63 < 2e-50 5.70 tripartite motif-

containing 63

C254R155 < 2e-50 4.10

C236R001 TTN|TTN < 2e-50 4.00 titin|titin

C135R153 SAMM50 < 2e-50 3.60 sorting and assembly

machinery compo-

nent 50 homolog (s.

cerevisiae)

C212R021 TTN|TTN < 2e-50 5.40 titin|titin

C205R164 < 2e-50 4.00

C080R122 < 2e-50 3.40

C150R033 ANKRD9 < 2e-50 4.70 ankyrin repeat domain

9

C195R121 < 2e-50 3.50

C211R056 CKM|CKM < 2e-50 3.10 creatine kinase,

muscle|creatine ki-

nase, muscle

441 Probe Gene Symbol p-value log2 FC Description

C187R108 GRIN3B < 2e-50 3.30 glutamate [nmda] re-

ceptor subunit 3b pre-

cursor

C238R023 < 2e-50 4.20

C133R099 MYT1L < 2e-50 4.20 myelin transcription

factor 1-like protein

C154R119 ACOT12 < 2e-50 3.40 acyl-coenzyme a

thioesterase 12

C131R053 < 2e-50 6.50

C169R047 < 2e-50 3.50

C068R012 DQX1 < 2e-50 3.70 atp-dependent rna heli-

case dqx1

C113R107 PFKM < 2e-50 4.60 phosphofructokinase,

muscle

C250R084 < 2e-50 4.20

C063R052 < 2e-50 4.00

C022R003 < 2e-50 6.00

C102R132 < 2e-50 6.60

C198R038 ABCF2 < 2e-50 3.70 atp-binding cassette,

sub-family f (gcn20),

member 2

C239R167 < 2e-50 3.20

442 Probe Gene Symbol p-value log2 FC Description

C017R131 PKM2 < 2e-50 4.00 cytosolic thyroid

hormone binding pro-

tein/pyruvate kinase

type m2

C265R116 TPI1 < 2e-50 4.10 triosephosphate iso-

merase 1

C243R005 < 2e-50 4.90

C068R145 < 2e-50 3.80

C258R071 < 2e-50 3.60

C034R087 TRIM63 < 2e-50 5.40 tripartite motif-

containing 63

C111R137 GMPR < 2e-50 3.50 guanosine monophos-

phate reductase

C001R070 < 2e-50 4.80

C255R040 LDB3 < 2e-50 5.00 lim domain binding 3

C043R095 XIRP2 < 2e-50 3.10 xin actin-binding

repeat-containing pro-

tein 2

C058R068 TRIM63 < 2e-50 6.60 tripartite motif-

containing 63

C263R056 NEURL2 < 2e-50 4.20 neuralized-like 2

(drosophila)

C166R099 ACTN3 < 2e-50 4.70 actinin alpha 3

443 Probe Gene Symbol p-value log2 FC Description

C047R111 MYOT < 2e-50 3.60 myotilin

C084R067 GYPC < 2e-50 3.20 glycophorin-c

C005R032 < 2e-50 3.90

C130R158 ZGC:136906 < 2e-50 3.90 dual specificity phos-

phatase dupd1

C190R076 ELMO3 < 2e-50 3.40 engulfment and cell

motility 3

C160R061 UNC45B < 2e-50 4.30 unc-45 homolog b (c. el-

egans)

C259R055 < 2e-50 3.10

C206R169 ASB16 < 2e-50 4.50 ankyrin repeat and socs

box protein 16

C233R074 < 2e-50 3.80

C167R077 < 2e-50 3.30

C153R037 ACTC1 < 2e-50 4.30 actin, alpha, cardiac

muscle

C054R036 TSC22D3 < 2e-50 3.90 tsc22 domain family 3

C214R023 BTG4-B < 2e-50 3.90 maternal b9.15 protein

C017R062 MLF1 < 2e-50 3.80 similar to myeloid

leukemia factor 1

C256R075 SARDH < 2e-50 3.80 sarcosine dehydroge-

nase, mitochondrial

precursor

444 Probe Gene Symbol p-value log2 FC Description

C026R101 DNAJA4 < 2e-50 4.20 dnaj (hsp40) homolog,

subfamily a, member 4

C068R134 KLHL31 < 2e-50 3.20 riken cdna d930047p17

gene

C154R164 < 2e-50 3.00

C012R061 IMPDH2 < 2e-50 3.30 similar to inosine

5-phosphate dehydroge-

nase 2

C183R018 < 2e-50 3.40

C030R046 PTGES3 < 2e-50 3.70 prostaglandin e syn-

thase 3 (cytosolic)

C204R134 6.21e-48 3.20

C181R018 TRDN 2.81e-43 3.10 triadin

C006R104 ACTN2 1.59e-42 3.50 actinin alpha 2

C243R086 2.65e-40 3.00

C182R131 TTN|TTN 4.75e-39 4.80 titin|titin

C126R030 PPP2R3C 3.00e-38 3.30 riken cdna 4930511a21

gene

C102R119 1.74e-35 3.30

C240R141 1.65e-34 3.50

445 Probe Gene Symbol p-value log2 FC Description

C207R116 CALCOCO1 2.94e-32 3.70 calcium-binding and

coiled-coil domain-

containing protein

1

C054R063 1.08e-29 3.00

C148R166 MYOT 1.88e-27 3.70 myotilin

C244R014 2.35e-27 3.20

C041R169 2.97e-27 3.20

C042R056 DTNA 2.37e-26 3.20 dystrobrevin, alpha

C224R022 1.72e-24 3.00

C005R105 1.48e-21 3.20

C037R011 LRRC20 3.29e-21 4.10 leucine rich repeat con-

taining 20

C229R054 ASB5 1.44e-20 3.40 ankyrin repeat and socs

box protein 5

C168R011 2.26e-17 3.50

C109R032 TNNI1 1.31e-16 3.80 troponin i, skeletal, slow

1

C063R077 FLNC 3.55e-16 3.70 filamin c, gamma (actin

binding protein 280)

C164R102 5.45e-14 3.50

C001R058 ANXA6 1.02e-13 3.60 annexin a6

446 Probe Gene Symbol p-value log2 FC Description

C069R063 DUSP26 1.19e-12 3.80 dual specificity phos-

phatase 26 (putative)

C202R086 3.30e-11 3.30

C266R142 TPI1 3.35e-11 3.50 triosephosphate iso-

merase 1

C041R100 4.51e-11 3.10

C262R047 TXNDC15 1.46e-09 3.30 riken cdna 2310047h23

gene

C143R069 2.11e-08 3.50

C073R167 6.53e-05 3.70

C156R066 SLC7A7 0.000205 3.20 solute carrier fam-

ily 7 (cationic amino

acid transporter, y+

system), member 7

C225R084 RASGEF1BA 0.002021 3.60 ras-gef domain-

containing family

member 1b

447 Appendix C

Tissue-Specific Functional Enrichment

C.1 Brain-Specific Enrichment

Description ID Probes Genes Raw Pval Corrected SameAs

Score Pval

negative regula- GO:0031397 255 63 0.68 0.00 0.00

tion of protein

ubiquitination

regulation of GO:0051438 253 63 0.68 0.00 0.00

ubiquitin-protein

ligase activity

regulation of lig- GO:0051340 257 65 0.67 0.00 0.00

ase activity

448 Description ID Probes Genes Raw Pval Corrected SameAs

Score Pval regulation of GO:0051439 233 54 0.69 0.00 0.00 ubiquitin-protein ligase activity in- volved in mitotic cell cycle positive regula- GO:0051437 219 49 0.70 0.00 0.00 tion of ubiquitin- protein ligase activity involved in mitotic cell cycle negative regu- GO:0051352 220 53 0.69 0.00 0.00 GO:0051444 lation of ligase activity hline negative GO:0051444 220 53 0.69 0.00 0.00 GO:0051352 regulation of ubiquitin-protein ligase activity positive regula- GO:0051443 230 53 0.69 0.00 0.00 tion of ubiquitin- protein ligase activity

449 Description ID Probes Genes Raw Pval Corrected SameAs

Score Pval positive regu- GO:0051351 234 55 0.68 0.00 0.00 lation of ligase activity anaphase- GO:0031145 210 47 0.69 0.00 0.00 promoting complex- dependent proteasomal ubiquitin- dependent pro- tein catabolic process negative regula- GO:0051436 212 49 0.68 0.00 0.00 tion of ubiquitin- protein ligase activity involved in mitotic cell cycle protein polymer- GO:0051258 97 25 0.74 0.00 0.00 ization ferric iron trans- GO:0015682 82 19 0.77 0.00 0.00 GO:0033572 port

450 Description ID Probes Genes Raw Pval Corrected SameAs

Score Pval

transferrin trans- GO:0033572 82 19 0.77 0.00 0.00 GO:0015682

port

C.2 Gill-Specific Enrichment

Description ID Probes Genes Raw Pval Corrected SameAs

Score Pval

regulation of GO:0061041 62 24 0.77 0.00 0.00

wound healing

C.3 Liver-Specific Enrichment

Description ID Probes Genes Raw Pval Corrected SameAs

Score Pval

organic acid GO:0016054 246 82 0.67 0.00 0.00 GO:0046395

catabolic process

carboxylic acid GO:0046395 246 82 0.67 0.00 0.00 GO:0016054

catabolic process

alcohol catabolic GO:0046164 137 41 0.73 0.00 0.00

process

carbohydrate GO:0016052 196 57 0.69 0.00 0.00

catabolic process

451 Description ID Probes Genes Raw Pval Corrected SameAs

Score Pval cellular carbohy- GO:0044275 160 47 0.71 0.00 0.00 drate catabolic process glucose metabolic GO:0006006 203 63 0.68 0.00 0.00 process amine catabolic GO:0009310 170 54 0.69 0.00 0.00 process monosaccharide GO:0046365 125 36 0.72 0.00 0.00 catabolic process monosaccharide GO:0046364 93 28 0.75 0.00 0.00 biosynthetic process hexose metabolic GO:0019318 277 90 0.64 0.00 0.00 process glucose catabolic GO:0006007 113 32 0.73 0.00 0.00 process cellular amino GO:0009063 151 49 0.69 0.00 0.00 acid catabolic process hexose catabolic GO:0019320 123 35 0.72 0.00 0.00 process

452 Description ID Probes Genes Raw Pval Corrected SameAs

Score Pval

dicarboxylic acid GO:0043648 84 32 0.72 0.00 0.00

metabolic process

alcohol biosyn- GO:0046165 128 46 0.68 0.00 0.00

thetic process

pentose metabolic GO:0019321 35 11 0.84 0.00 0.00

process

gluconeogenesis GO:0006094 50 14 0.79 0.00 0.01

cellular modi- GO:0006575 189 65 0.64 0.00 0.01

fied amino acid

metabolic process

C.4 Muscle-Specific Enrichment

Description ID Probes Genes Raw Pval Corrected SameAs

Score Pval

glucose metabolic GO:0006006 203 63 0.69 0.00 0.00

process

alcohol catabolic GO:0046164 137 41 0.73 0.00 0.00

process

hexose metabolic GO:0019318 277 90 0.65 0.00 0.00

process

453 Description ID Probes Genes Raw Pval Corrected SameAs

Score Pval monosaccharide GO:0046365 125 36 0.73 0.00 0.00 catabolic process hexose catabolic GO:0019320 123 35 0.72 0.00 0.00 process cellular carbohy- GO:0044275 160 47 0.69 0.00 0.00 drate catabolic process glucose catabolic GO:0006007 113 32 0.72 0.00 0.00 process carbohydrate GO:0016052 196 57 0.66 0.00 0.00 catabolic process

NADPH regener- GO:0006740 36 10 0.85 0.00 0.00 ation pentose metabolic GO:0019321 35 11 0.83 0.00 0.01 process translational ini- GO:0006413 235 52 0.66 0.00 0.01 tiation

454 Appendix D

Pathogen-Specific Functional Enrichment

D.1 Microsporidia-Specific Enrichment

No significant enrichment.

D.2 Gill Chlamydia-Specific Enrichment

Description ID Probes Genes Raw Pval Corrected SameAs

Score Pval

positive regula- GO:0051437 219 49 0.77 0.00 0.00

tion of ubiquitin-

protein ligase

activity involved

in mitotic cell

cycle

455 Description ID Probes Genes Raw Pval Corrected SameAs

Score Pval anaphase- GO:0031145 210 47 0.78 0.00 0.00 promoting complex- dependent proteasomal ubiquitin- dependent pro- tein catabolic process positive regula- GO:0051443 230 53 0.76 0.00 0.00 tion of ubiquitin- protein ligase activity regulation of GO:0051439 233 54 0.75 0.00 0.00 ubiquitin-protein ligase activity in- volved in mitotic cell cycle positive regu- GO:0051351 234 55 0.75 0.00 0.00 lation of ligase activity

456 Description ID Probes Genes Raw Pval Corrected SameAs

Score Pval negative regula- GO:0051436 212 49 0.75 0.00 0.00 tion of ubiquitin- protein ligase activity involved in mitotic cell cycle positive regula- GO:0031398 293 78 0.70 0.00 0.00 tion of protein ubiquitination regulation of GO:0051438 253 63 0.71 0.00 0.00 ubiquitin-protein ligase activity negative regu- GO:0051352 220 53 0.73 0.00 0.00 GO:0051444 lation of ligase activity negative regula- GO:0051444 220 53 0.73 0.00 0.00 GO:0051352 tion of ubiquitin- protein ligase activity regulation of lig- GO:0051340 257 65 0.70 0.00 0.00 ase activity

457 Description ID Probes Genes Raw Pval Corrected SameAs

Score Pval

negative regula- GO:0031397 255 63 0.70 0.00 0.00

tion of protein

ubiquitination

translational ini- GO:0006413 235 52 0.71 0.00 0.00

tiation

D.3 Parvovirus-Specific Enrichment

No significant enrichment.

458