Table S2: Chromosome 3p Pathway Genes Identified from Screening Across Two Expression Platforms

FC Symbol GenBank UNIGENE PDNN TITLE Locus

1 SF3A2 BC004434 Hs.115232 0.28 splicing factor 3a, subunit 2, 66kDa chr19:2199430-2199629 (+) 2 CALM3 NM_005184 Hs.334330 0.28 calmodulin 3 (phosphorylase kinase, delta) chr19:51805438-51805776 (+) sema domain, immunoglobulin domain (Ig), secreted, 3 SEMA3E NM_012431 Hs.440730 0.34 3E chr7:82605551-82605845 (-) 4 FTL AI345238 Hs.433670 0.36 ferritin, light polypeptide chr19:54161829-54161939 (-) 5 HMGA1 NM_002131 Hs.57301 0.38 high mobility group AT-hook 1 chr6:34260376-34260800 (+) 6 LCN7 NM_022164 Hs.173508 0.39 lipocalin 7 chr1:31555225-31555734 (+) 7 AXL AI467916 Hs.83341 0.41 AXL receptor tyrosine kinase chr19:46457495-46457995 (+) 8 SSRP1 NM_003146 Hs.79162 0.41 structure specific recognition protein 1 chr11:56868898-56869303 (-) 9 RPL7 BG389744 Hs.421257 0.42 ribosomal protein L7 chr8:74252865-74254461 (-) 10 HSPCA AF028832 Hs.446579 0.44 heat shock 90kDa protein 1, alpha chr14:100537677-100537990 (-) 11 NAP1L1 BC002387 Hs.419776 0.45 nucleosome assembly protein 1-like 1 chr12:74727750-74728056 (-) 12 MCAM M29277 Hs.511397 0.46 melanoma cell adhesion molecule chr11:118717466-118717851 (-) 13 GTPBP3 AL524262 Hs.334885 0.46 GTP binding protein 3 (mitochondrial) chr19:17314051-17314489 (+) 14 PDAP1 NM_014891 Hs.278426 0.48 PDGFA associated protein 1 chr7:98605489-98609424 (-) 15 CS BC000105 Hs.430606 0.50 citrate synthase chr12:54951825-54952313 (-) 16 HSPCB AF275719 Hs.74335 0.50 heat shock 90kDa protein 1, beta chr6:44267648-44268236 (+) 17 ZNF262 AA521508 Hs.150390 2.00 zinc finger protein 262 chr1:35312852-35313425 (+) 18 NUP98 AA527238 Hs.112255 2.01 nucleoporin 98kDa chr11:3661465-3662115 (-) 19 PRKCDBP AI088622 Hs.434044 2.02 protein kinase C, delta binding protein chr11:6304494-6304943 (-) 20 AP4S1 AF155159 Hs.496614 2.04 adaptor-related protein complex 4, sigma 1 subunit chr14:29525387-29532218 (+) transcriptional co-activator with PDZ-binding motif 21 TAZ BF674349 Hs.24341 2.07 (TAZ) chr3:150555990-150556489 (-) 22 HRMT1L1 AI928367 Hs.154163 2.07 HMT1 hnRNP methyltransferase-like 1 (S. cerevisiae) chr21:46936936-46937356 (+) 23 PSMD13 NM_002817 Hs.279554 2.09 proteasome (prosome) 26S subunit, non-ATPase, 13 chr11:241824-241936 (+) 24 SEC14L1 AI017770 Hs.75232 2.09 SEC14-like 1 (S. cerevisiae) chr17:75807244-75807486 (+) 25 --- AA906142 Hs.424184 2.11 Homo sapiens cDNA FLJ33101 fis --- 26 RPL18A NM_000980 Hs.337766 2.13 ribosomal protein L18a chr19:17831747-17834812 (+) 27 LOC283241 AA775408 Hs.356719 2.14 hypothetical protein LOC283241 chr11:63167055-63167454 (-) 28 ACTR2 NM_005722 Hs.393201 2.15 ARP2 actin-related protein 2 homolog (yeast) chr2:65471279-65471786 (+) 29 --- BF683512 Hs.356545 2.18 Homo sapiens hypothetical LOC284184 chr17:79913269-79915186 (+) chr1_random:1386686-1387878 30 --- AV738970 Hs.449042 2.18 Homo sapiens transcribed sequence (+) 31 HIRA X75296 Hs.415735 2.19 HIR histone cell cycle regulation defective homolog A chr22:17692805-17693348 (-) 32 GSTM3 AL527430 Hs.2006 2.21 glutathione S-transferase M3 (brain) chr1:109578361-109579659 (-) 33 XTP2 BF110903 Hs.446197 2.21 HBxAg transactivated protein 2 chr1:168801258-168801687 (-) 34 CDA08 AI743744 Hs.23047 2.22 T-cell immunomodulatory protein chr16:46969410-46969869 (-) 35 ARPP-19 BC003418 Hs.7351 2.23 cyclic AMP phosphoprotein, 19 kD chr15:50559574-50559938 (-) 36 DENR AB014731 Hs.22393 2.25 density-regulated protein chr12:121692881-121693101 (+) 37 MADH2 AW151617 Hs.110741 2.27 MAD, mothers against decapentaplegic homolog 2 chr18:43618626-43619192 (-) 38 RPL15 NM_002948 Hs.381219 2.28 ribosomal protein L15 chr3:23934443-23935872 (+) 39 --- M62898 Hs.437110 2.28 Human lipocortin (LIP) 2 pseudogene mRNA chr9:33614935-33615421 (+) 40 KIAA1423 BF217531 Hs.99145 2.30 KIAA1423 chr6:158964754-158965223 (+) 41 TLOC1 BE866511 Hs.158193 2.30 translocation protein 1 chr3:171005519-171021450 (+) 42 C11orf1 BG150085 Hs.17546 2.31 chromosome 11 open reading frame 1 chr11:111290736-111292217 (+) 43 DJ462O23.2 W15435 Hs.389516 2.34 hypothetical protein dJ462O23.2 chr1:24149816-24150223 (-) 44 CDCP1 NM_022842 Hs.146170 2.41 CUB domain-containing protein 1 chr3:45084404-45084905 (-) 45 SLC26A2 AI025519 Hs.302738 2.44 solute carrier family 26 (sulfate transporter), member 2 chr5:149390557-149390959 (+) 46 FTH1 AA083483 Hs.448738 2.47 ferritin, heavy polypeptide 1 chr11:61507142-61507629 (-) 47 PRPF4B AA156948 Hs.198891 2.49 PRP4 pre-mRNA processing factor 4 homolog B chr6:4006563-4007118 (+) 48 C1orf22 BF439488 Hs.308809 2.49 chromosome 1 open reading frame 22 chr1:181900647-181900900 (-) 49 C14orf112 AF151037 Hs.390666 2.49 chromosome 14 open reading frame 112 chr14:68782856-68816314 (-) chr1_random:1389793-1390171 50 PNRC2 NM_017761 Hs.512636 2.49 proline-rich nuclear receptor coactivator 2 (+) 51 PTD012 H63435 Hs.8360 2.49 PTD012 protein chr11:93183241-93183601 (+) 52 HSPG2 M85289 Hs.211573 2.51 heparan sulfate proteoglycan 2 (perlecan) chr1:21618290-21618633 (-) 53 LAMP2 NM_002294 Hs.232432 2.51 lysosomal-associated membrane protein 2 chrX:118318833-118319236 (-) 54 RAB7L1 BG338251 Hs.115325 2.52 RAB7, member RAS oncogene family-like 1 chr1:202914578-202915039 (-) 55 TNC NM_002160 Hs.98998 2.54 tenascin C (hexabrachion) chr9:113158892-113159428 (-) 56 ANXA2 BE908217 Hs.462864 2.55 annexin A2 chr15:58355618-58359999 (-) 57 FLJ10874 AK024066 Hs.30318 2.58 hypothetical protein FLJ10874 chr1:209594355-209594768 (-) 58 CDC42BPA NM_003607 Hs.18586 2.59 CDC42 binding protein kinase alpha (DMPK-like) chr1:224291497-224307913 (-) Fukuyama type congenital muscular dystrophy 59 FCMD NM_006731 Hs.55777 2.60 (fukutin) chr9:103782702-103783131 (+) 60 MGC29937 NM_144597 Hs.352541 2.71 hypothetical protein MGC29937 chr15:81393285-81393656 (-) 61 CD44 BE467023 Hs.306278 2.74 CD44 antigen chr11:35191355-35191838 (+) DKFZP 62 564G092 AK021844 Hs.96867 2.76 DKFZP564G092 protein chr10:69070766-69093192 (+) 63 TGFBI NM_000358 Hs.421496 2.84 transforming growth factor, beta-induced, 68kDa chr5:135475142-135475687 (+) 64 L1CAM AI653981 Hs.445201 2.99 L1 cell adhesion molecule chrX:151594947-151595245 (-) sema domain, immunoglobulin domain (Ig), secreted, 65 SEMA3C NM_006379 Hs.171921 3.03 3C chr7:79984103-79984493 (-) 66 ITGB1 AA215854 Hs.287797 3.08 integrin, beta 1 (fibronectin receptor, beta polypeptide) chr10:33194480-33201349 (+) 67 PTX3 NM_002852 Hs.2050 3.11 pentaxin-related gene, rapidly induced by IL-1 beta chr3:158481714-158482267 (+) 68 C6orf55 BF241590 Hs.267288 3.15 chromosome 6 open reading frame 55 chr6:142520348-142520614 (+) 69 SAT NM_002970 Hs.28491 3.20 spermidine/spermine N1-acetyltransferase chrX:23165544-23165726 (+) 70 TFPI J03225 Hs.102301 3.26 tissue factor pathway inhibitor chr2:188533891-188535124 (-) 71 BLVRB NM_000713 Hs.76289 3.30 biliverdin reductase B (flavin reductase (NADPH)) chr19:45645607-45656193 (-) 72 GRLF1 AI275597 Hs.102548 3.30 glucocorticoid receptor DNA binding factor 1 chr19:52199606-52200141 (-) 73 DJ473B4 NM_019556 Hs.57549 3.42 hypothetical protein dJ473B4 chrX:132727373-132727816 (-) 74 F3 NM_001993 Hs.62192 3.43 coagulation factor III (thromboplastin, tissue factor) chr1:94466797-94467196 (-) DKFZP 75 564O123 AK002165 Hs.11449 3.52 DKFZP564O123 protein chr3:87225054-87225483 (+)

mannosyl (alpha-1,6-)-glycoprotein beta-1,2-N- 76 MGAT2 NM_002408 Hs.93338 3.67 acetylglucosaminyltransferase chr14:48079666-48080161 (+) 77 PARG1 NM_004815 Hs.430919 3.92 PTPL1-associated RhoGAP 1 chr1:94110101-94110504 (-) 78 SEL1L BE671138 Hs.181300 4.03 sel-1 suppressor of lin-12-like (C. elegans) chr14:79930037-79930576 (+) 79 IGFBP3 M31159 Hs.450230 4.06 insulin-like growth factor binding protein 3 chr7:45692832-45693302 (-) small nuclear ribonucleoprotein D2 polypeptide 80 SNRPD2 NM_004597 Hs.424327 4.12 16.5kDa chr19:50882590-50883664 (-) 81 TUBA3 AF141347 Hs.433394 4.12 tubulin, alpha 3 chr12:47864886-47865204 (-) 82 GM2A AL513583 Hs.387156 5.16 GM2 ganglioside activator protein chr5:150676860-150677268 (+)