Supporting Information for Proteomics DOI 10.1002/pmic.200500072 Peter Nilsson, Linda Paavilainen, Karin Larsson, Jenny dling, Mrten Sundberg, Ann-Catrin Andersson, Caroline Kampf, Anja Persson, Cristina Al-Khalili Szigyarto, Jenny Ottosson, Erik Bjrling, Sophia Hober, Henrik Wernrus, Kenneth Wester, Fredrik Pontn and Mathias Uhlen Towards a human proteome atlas: High-throughput generation of mono-specific antibodies for tissue profiling ª 2005 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim www.proteomics-journal.de Supplementary Table 1 Towards a human proteome atlas Antibody ID Ensembl Gene ID Gene name Gene description 1 HPRK140001 ENSG00000151456 C14orf145 (HUGO ID) ND 2 HPRK140003 ENSG00000100439 ABHD4 (HUGO ID) ABHYDROLASE DOMAIN CONTAINING 4. 3 HPRK140004 ENSG00000100811 YY1 (HUGO ID) TRANSCRIPTIONAL REPRESSOR PROTEIN YY1 (YIN AND YANG 1) (YY-1) (DELTA TRANSCRIP 4 HPRK140006 ENSG00000157379 DHRS1 (HUGO ID) DEHYDROGENASE/REDUCTASE (SDR FAMILY) MEMBER 1; DEHYDROGENASE/REDUCTASE S 5 HPRK140007 ENSG00000165516 KLHDC2 (HUGO ID) KELCH DOMAIN CONTAINING PROTEIN 2 (HEPATOCELLULAR CARCINOMA-ASSOCIATED ANT 6 HPRK140008 ENSG00000182338 ISGF3G (HUGO ID) TRANSCRIPTIONAL REGULATOR ISGF3 GAMMA SUBUNIT (IFN-ALPHA RESPONSIVE TRANSC 7 HPRK140009 ENSG00000100557 C14orf105 (HUGO ID) ND 8 HPRK140010 ENSG00000100836 PABPN1 (HUGO ID) POLY(A) BINDING PROTEIN, NUCLEAR 1; OCULOPHARYNGEAL MUSCULAR DYSTROPHY; PO 9 HPRK140011 ENSG00000131980 AND1_HUMAN (SWISSPROT ID) ACIDIC NUCLEOPLASMIC DNA-BINDING PROTEIN 1 (AND-1). 10 HPRK140012 ENSG00000165588 OTX2 (HUGO ID) HOMEOBOX PROTEIN OTX2. 11 HPRK140013 ENSG00000071246 NM_014909 (RefSeq ID) ND 12 HPRK140014 ENSG00000100450 GZMH (HUGO ID) GRANZYME H PRECURSOR (EC 3.4.21.-) (CYTOTOXIC T-LYMPHOCYTE PROTEINASE) (CATHE 13 HPRK140015 ENSG00000100600 LGMN (HUGO ID) LEGUMAIN PRECURSOR (EC 3.4.22.34) (ASPARAGINYL ENDOPEPTIDASE) (PROTEASE, CYST 14 HPRK140016 ENSG00000100697 DICER1 (HUGO ID) ENDORIBONUCLEASE DICER (EC 3.1.26.-) (HELICASE WITH RNASE MOTIF) (HELICASE-MOI). 15 HPRK140017 ENSG00000100813 ACINUS (HUGO ID) APOPTOTIC CHROMATIN CONDENSATION INDUCER IN THE NUCLEUS (ACINUS). 16 HPRK140018 ENSG00000100868 Y297_HUMAN (SWISSPROT ID) ND 17 HPRK140019 ENSG00000100749 VRK1 (HUGO ID) VACCINIA RELATED KINASE 1; VACCINIA-RELATED KINASE-1. 18 HPRK140020 ENSG00000183032 SLC25A21 (HUGO ID) MITOCHONDRIAL 2-OXODICARBOXYLATE CARRIER. 19 HPRK140021 ENSG00000081181 ARG2 (HUGO ID) ARGINASE II, MITOCHONDRIAL PRECURSOR (EC 3.5.3.1) (NON-HEPATIC ARGINASE) (KIDNEY 20 HPRK140022 ENSG00000100439 ABHD4 (HUGO ID) ABHYDROLASE DOMAIN CONTAINING 4. 21 HPRK140023 ENSG00000100697 DICER1 (HUGO ID) ENDORIBONUCLEASE DICER (EC 3.1.26.-) (HELICASE WITH RNASE MOTIF) (HELICASE-MOI). 22 HPRK140024 ENSG00000140043 ZADH1 (HUGO ID) ZINC BINDING ALCOHOL DEHYDROGENASE, DOMAIN CONTAINING 1. 23 HPRK140025 ENSG00000140006 NM_080666 (RefSeq ID) ND 24 HPRK140027 ENSG00000100664 EIF5 (HUGO ID) EUKARYOTIC TRANSLATION INITIATION FACTOR 5 (EIF-5). 25 HPRK140028 ENSG00000178974 FBXO34 (HUGO ID) F-BOX ONLY PROTEIN 34. 26 HPRK140029 ENSG00000119699 TGFB3 (HUGO ID) TRANSFORMING GROWTH FACTOR BETA 3 PRECURSOR (TGF-BETA 3). 27 HPRK140030 ENSG00000133965 NM_033426 (RefSeq ID) ND 28 HPRK140031 ENSG00000090061 CCNK (HUGO ID) CYCLIN K. 29 HPRK140032 ENSG00000169413 RNASE6 (HUGO ID) RIBONUCLEASE K6 PRECURSOR (EC 3.1.27.-) (RNASE K6). 30 HPRK140033 ENSG00000131966 ACTR10 (HUGO ID) ACTIN-RELATED PROTEIN 10 (HARP11). 31 HPRK140034 ENSG00000176784 Q8N9A6 (SPTREMBL ID) ND 32 HPRK140035 ENSG00000020426 MNAT1 (HUGO ID) CDK-ACTIVATING KINASE ASSEMBLY FACTOR MAT1 (RING FINGER PROTEIN MAT1) (MENAG 33 HPRK140036 ENSG00000100906 NFKBIA (HUGO ID) NF-KAPPAB INHIBITOR ALPHA (MAJOR HISTOCOMPATIBILITY COMPLEX ENHANCER- BINDING Transcript removed from current Ensembl version 34 HPRK140037 ENSG00000179627 ND (20.34c.1); one other transcript 35 HPRK140038 ENSG00000100714 MTHFD1 (HUGO ID) C-1-TETRAHYDROFOLATE SYNTHASE, CYTOPLASMIC (C1-THF SYNTHASE) [INCLUDES: METH 36 HPRK140039 ENSG00000136367 ZFHX2 (HUGO ID) ZINC FINGER HOMEOBOX PROTEIN 2. 37 HPRK140040 ENSG00000130235 NM_032714 (RefSeq ID) ND 38 HPRK140041 ENSG00000140006 NM_080666 (RefSeq ID) ND 39 HPRK140042 ENSG00000151413 C14orf127 (HUGO ID) ND 40 HPRK140043 ENSG00000166126 AMN (HUGO ID) AMNIONLESS PROTEIN PRECURSOR 41 HPRK140044 ENSG00000165591 NM_174912 (RefSeq ID) ND 42 HPRK140045 ENSG00000100578 Y586_HUMAN (SWISSPROT ID) ND 43 HPRK140046 ND ND ND 44 HPRK140047 ND ND ND 45 HPRK140048 ND ND ND 46 HPRK140049 ND ND ND 47 HPRK140050 ND ND ND 48 HPRK140056 ND ND ND 49 HPRK140057 ND ND ND 50 HPRK140058 ND ND ND 51 HPRK140059 ND ND ND 52 HPRK140060 ND ND ND 53 HPRK140064 ND ND ND 54 HPRK140065 ND ND ND 55 HPRK140066 ND ND ND 56 HPRK140069 ENSG00000151320 AKAP6 (HUGO ID) A-KINASE ANCHOR PROTEIN 6 (PROTEIN KINASE A ANCHORING PROTEIN 6) (PRKA6) (A-KINA 57 HPRK140071 ENSG00000100888 HELSNF1 (HUGO ID) CHROMODOMAIN-HELICASE-DNA-BINDING PROTEIN HELSNF1 (HELICASE WITH SNF2 DOMA 58 HPRK140072 ENSG00000139913 C14orf21 (HUGO ID) ND 59 HPRK140073 ENSG00000174373 Q9Y408 (SPTREMBL ID) SIMILAR TO TUBERIN-LIKE PROTEIN 1 (FRAGMENT). 60 HPRK140074 ENSG00000119599 WDR21 (HUGO ID) WD-REPEAT PROTEIN 21 61 HPRK140075 ENSG00000012963 C14orf130 (HUGO ID) ND 62 HPRK140076 ENSG00000140043 ZADH1 (HUGO ID) ZINC BINDING ALCOHOL DEHYDROGENASE, DOMAIN CONTAINING 1. 63 HPRK140077 ENSG00000023608 SNAPC1 (HUGO ID) SNRNA ACTIVATING PROTEIN COMPLEX 43 KDA SUBUNIT (SNAPC 43 KDA SUBUNIT) (PROXIM 64 HPRK140078 ENSG00000133984 SYNJ2BP (HUGO ID) SYNAPTOJANIN 2 BINDING PROTEIN (MITOCHONDRIAL OUTER MEMBRANE PROTEIN 25). 65 HPRK140079 ENSG00000100664 EIF5 (HUGO ID) EUKARYOTIC TRANSLATION INITIATION FACTOR 5 (EIF-5). 66 HPRK140081 ENSG00000140092 FBLN5 (HUGO ID) FIBULIN-5 PRECURSOR (FIBL-5) (DEVELOPMENTAL ARTERIES AND NEURAL CREST EGF-LIKE 67 HPRK140082 ENSG00000165417 GTF2A1 (HUGO ID) TRANSCRIPTION INITIATION FACTOR IIA ALPHA AND BETA CHAINS (TFIIA P35 AND P19 SUBU 68 HPRK140083 ENSG00000165934 CPSF2 (HUGO ID) CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR, 100 KDA SUBUNIT (CPSF 100 KDA 69 HPRK140084 ENSG00000099814 Q9Y4F5 (SPTREMBL ID) ND 70 HPRK140085 ENSG00000100764 PSMC1 (HUGO ID) 26S PROTEASE REGULATORY SUBUNIT 4 (P26S4). Transcript removed from current Ensembl version 71 HPRK140086 ENSG00000185567 ND (20.34c.1); one other transcript (no translation) 72 HPRK140088 ENSG00000183790 Q96DQ3 (SPTREMBL ID) ND 73 HPRK140089 ENSG00000184577 Gene removed from current database (20.34c.1) ND 74 HPRK140090 ENSG00000157227 MMP14 (HUGO ID) MATRIX METALLOPROTEINASE-14 PRECURSOR (EC 3.4.24.-) (MMP-14) (MEMBRANE-TYPE MA 75 HPRK140091 ENSG00000129566 TEP1 (HUGO ID) TELOMERASE-ASSOCIATED PROTEIN 1; TELOMERASE PROTEIN COMPONENT 1. 76 HPRK140092 ENSG00000165894 Q96DE2 (SPTREMBL ID) ND 77 HPRK140093 ENSG00000136305 CIDEB (HUGO ID) CELL DEATH ACTIVATOR CIDE-B (CELL DEATH-INDUCING DFFA-LIKE EFFECTOR B). 78 HPRK140094 ENSG00000100906 NFKBIA (HUGO ID) NF-KAPPAB INHIBITOR ALPHA (MAJOR HISTOCOMPATIBILITY COMPLEX ENHANCER- BINDING 79 HPRK140095 ENSG00000100591 AHSA1 (HUGO ID) ACTIVATOR OF 90 KDA HEAT SHOCK PROTEIN ATPASE HOMOLOG 1 (AHA1) (P38) (HSPC322) 80 HPRK140096 ENSG00000100938 GMPR2 (HUGO ID) GMP REDUCTASE 2 (EC 1.7.1.7) (GUANOSINE 5'-MONOPHOSPHATE OXIDOREDUCTASE 2) (G 81 HPRK140097 ENSG00000100567 PSMA3 (HUGO ID) PROTEASOME SUBUNIT ALPHA TYPE 3 (EC 3.4.25.1) (PROTEASOME COMPONENT C8) (MACR 82 HPRK140098 ENSG00000100784 RPS6KA5 (HUGO ID) RIBOSOMAL PROTEIN S6 KINASE, 90KDA, POLYPEPTIDE 5 ISOFORM A; MITOGEN- AND STRE 83 HPRK140099 ENSG00000100644 HIF1A (HUGO ID) HYPOXIA-INDUCIBLE FACTOR 1 ALPHA (HIF-1 ALPHA) (HIF1 ALPHA) (ARNT INTERACTING PRO 84 HPRK140111 ND ND ND 85 HPRK140112 ND ND ND 86 HPRK140113 ND ND ND 87 HPRK140117 ND ND ND 88 HPRK140119 ND ND ND 89 HPRK140120 ND ND ND 90 HPRK140135 ND ND ND 91 HPRK140140 ND ND ND 92 HPRK220001 ENSG00000133422 K852_HUMAN (SWISSPROT ID) ND 93 HPRK220002 ENSG00000177663 IL17R (HUGO ID) INTERLEUKIN-17 RECEPTOR PRECURSOR (IL-17 RECEPTOR). 94 HPRK220003 ENSG00000130487 NM_138433 (RefSeq ID) ND 95 HPRK220004 ENSG00000182424 NM_152669 (RefSeq ID) ND 96 HPRK220005 ENSG00000100425 BRD1 (HUGO ID) BROMODOMAIN-CONTAINING PROTEIN 1 (BR140-LIKE PROTEIN). 97 HPRK220006 ENSG00000100357 ADSL (HUGO ID) ADENYLOSUCCINATE LYASE (EC 4.3.2.2) (ADENYLOSUCCINASE) (ASL) (ASASE). 98 HPRK220007 ENSG00000100239 K685_HUMAN (SWISSPROT ID) ND 99 HPRK220008 ENSG00000100382 ND ND 100 HPRK220009 ENSG00000180957 PITPN (HUGO ID) PHOSPHATIDYLINOSITOL TRANSFER PROTEIN BETA ISOFORM (PTDINS TRANSFER PROTEIN Transcript removed from current database 101 HPRK220010 ENSG00000183664 ND (19.34a.1), one other transcripts 102 HPRK220011 ENSG00000025708 ECGF1 (HUGO ID) THYMIDINE PHOSPHORYLASE PRECURSOR (EC 2.4.2.4) (TDRPASE) (TP) (PLATELET-DERIVED 103 HPRK220012 ENSG00000100094 NM_020315 (RefSeq ID) ND 104 HPRK220013 ENSG00000099942 CRKL (HUGO ID) CRK-LIKE PROTEIN 105 HPRK220014 ENSG00000099942 CRKL (HUGO ID) CRK-LIKE PROTEIN 106 HPRK220015 ENSG00000172404 NM_145174 (RefSeq ID) HSC3 107 HPRK220016 ENSG00000100220 NM_014306 (RefSeq ID) SIMILAR TO C. ELEGENS HYPOTHETICAL 55.2 KD PROTEIN F16A11.2. 108 HPRK220018 ENSG00000186998 NM_133455 (RefSeq ID) EMILIN AND MULTIMERIN-DOMAIN CONTAINING PROTEIN 1; PUTATIVE EMU1. 109 HPRK220019 ENSG00000093009 CDC45L (HUGO ID) CDC45-RELATED PROTEIN (PORC-PI-1). 110 HPRK220021 ND ND ND 111 HPRK220022 ND ND ND 112 HPRK220023 ENSG00000184164 NM_024324 (RefSeq ID) ND 113 HPRK220024 ND ND ND 114 HPRK220025 ND ND ND 115 HPRK220026 ND ND ND 116 HPRK220027 ENSG00000100241 SBF1 (HUGO ID) SET BINDING FACTOR 1 (SBF1) (MYOTUBULARIN-RELATED PROTEIN 5). 117 HPRK220028 ENSG00000133422