Supplementary Tables

Table S1. List of the 121 cell lines screened for MAX alterations. Information about the histopathology of each cell line, and the presence of alterations at and BRG1 is also included. Grey boxes indicate that no information is available.

Table S2. List of that are up-regulated or down-regulated upon MAX reconstitution. The values represent the n-fold change in the level of expression of each of the lung cancer cell lines infected with the wild type MAX relative to the controls (Ø).

Table S3. List of genes that are up-regulated or down-regulated upon depletion of BRG1. The values represent the n-fold change in the level of of each of the lung cancer cell lines infected with the shBRG1 relative to the controls Ø.

Table S4. List of the cell lines included in Figure 5. The information about alterations at the indicated genes was obtained from different sources, as indicated. For data extracted from databases we applied the following criteria to define a mutation: i) mutations at tumor suppressor genes (BRG1, SMARCB1, MAX, ARID1A, PRBM1, and MGA) should be homozygous and predictive of truncated , ii) for amplification at the MYC family of oncogenes, only very high levels of gene amplification have been considered to be positive. Other genes, related to MYC/MAX or to the SWI/SNF complex, have also been searched for alterations (i.e., ARID1B, ARID2, MXI, MXDs) but either no alterations were reported in the databases or the changes did not fulfill our selection criteria. CCLE, Cancer Cell Line Encyclopedia (Broad-Novartis Cancer Cell Line Encyclopedia; website, http://www.broadinstitute.org/ccle/). COSMIC, Catalogue of Somatic Mutations in Cancer (Trust Sanger Institute’s Cancer Cell Line Project; website, http://cancer.sanger.ac.uk/).

Table S1: List of the 121 lung cancer cell lines screened for MAX alterations. Information about the histopathology of each cell line, and the presence of alterations at MYC and BRG1 is also included. Grey boxes indicate that no information is available.

Cell line Histopathology MAX BRG1 MYC MYCL1 MYCN H1417 SCLC Mutant LU134 SCLC Mutant LU165 SCLC Mutant CORL95 SCLC Mutant A427 AC Mutant A549 AC Mutant DMS114 SCLC Mutant H1299 LCC/NSCLC Mutant H1573 AC Mutant H1703 AC Mutant H1819 AC Mutant H2126 AC Mutant H23 AC Mutant HCC366 AC Mutant H522 AC Mutant H661 LCC Mutant H841 SCLC Mutant HCC15 SCC Mutant Ma29 AC Mutant RERFLCMS AC Mutant DMS273 SCLC Ampl. Ampl. H1395 AC Ampl. H187 SCLC Ampl. H1975 AC Ampl. H2122 AC Ampl. H2170 SCC Ampl. H2171 SCLC Ampl. H446 SCLC Ampl. H460 AC Ampl. H524 SCLC Ampl. H82 SCLC Ampl. HCC44 AC Ampl. Lu135 SCLC Ampl. LU65 LCC/NSCLC Ampl. N417 SCLC Ampl. H1963 SCLC Ampl. H2029 SCLC Ampl. H2107 SCLC Ampl. H2141 SCLC Ampl. H510 SCLC Ampl. H889 SCLC Ampl. HCC33 SCLC Ampl. H1770 Neuroendocrine Ampl. H526 SCLC Ampl. H69 SCLC Ampl. H720 CARCINOID Ampl. ABC1 AC CALU1 SCC CALU3 AC DMS153 SCLC DMS53 SCLC EBC1 SCC H1048 AC H1155 LCC/NSCLC H1184 SCLC H128 SCLC H1339 SCLC H1385 NSCLC H1436 SCLC H1437 AC H1450 SCLC H1607 SCLC H1618 SCLC H1623 AC H1648 AC H1650 AC H1672 SCLC H1930 SCLC AC H1993 H2009 AC H2081 SCLC H2087 AC H209 SCLC H2195 SCLC H2196 SCLC H2227 SCLC H2291 AC H2347 AC H249 SCLC H322 AC H345 SCLC H441 AC H520 SCC H596 AC-SCC H711 SCLC H719 SCLC H727 LCC/NSCLC H774 SCLC H820 AC HCC193 AC HCC515 AC HCC78 AC HCC827 AC HCC95 SCC II-18 AC LC1SQSF SCC LK2 SCC Lu139 SCLC Lu24 SCLC LU99 LCC/NSCLC Ma1 AC Ma10 AC Ma12 AC Ma17 AC Ma2 LCC Ma24 AC Ma25 LCC Ma26 AC Ms18 SCLC PC10 SCC PC13 LCC PC14 AC PC3 AC PC7 AC PC9 AC RERF-LC-OK AC SBC5 SCLC SHP77 SCLC SKMES1 SCC

MAX-signature Supplementary Table S2 OFFICIAL_GENGene Name Lu134_H1417_Lu165_MAX TNFSF12 TNFSF12-TNFSF13 readthrough transcript; tumor necrosis factor (ligand) superfamily, 1.123 1.424 5.376 KISS1R family member 20A 1.865 2.569 2.258 GDF15 growth differentiation factor 15 1.865 5.97 2.203 ADAD2 adenosine deaminase domain containing 2 1.156 1.477 2.058 MCTP2 multiple coagulation factor deficiency 2 1.282 1.354 2.056 NIM1 naked cuticle homolog 2 () 1.146 2.434 2.014 ADAMTS18 ADAM metallopeptidase with thrombospondin type 1 motif, 18 1.5 2.189 1.955 PRSS56 PRSS56 1.199 2.311 1.946 ENST000004404ENST00000440451 1.732 2.671 1.908 SSC5D hypothetical LOC284297 1.105 1.446 1.904 FAM162A family with sequence similarity 162, member A 1.63 2.047 1.856 APLN apelin 1.409 2.404 1.82 IER3 heparan sulfate proteoglycan 2 1.311 1.746 1.761 PRR7 rich 7 (synaptic) 1.081 1.123 1.75 HK2 histone cluster 1, H3j; histone cluster 1, H3i; histone cluster 1, H3h; histone cluster 1, H 3.783 7.459 1.746 SYCE3 synaptonemal complex central element 3 1.211 1.635 1.717 RCOR2 REST 2 1.119 1.685 1.716 BNIP3 BCL2/adenovirus E1B 19kDa interacting protein 3 2.105 2.326 1.714 C4orf47 4 open reading frame 47 2.01 1.933 1.69 SV2B synaptic vesicle glycoprotein 2B; hypothetical protein LOC100128403 1.23 1.681 1.669 GMPR glutaminase 1.646 1.479 1.65 CXCR4 chemokine (C-X-C motif) 4 1.357 2.051 1.646 SLC9B1 solute carrier family 9, subfamily B 1.095 1.232 1.644 C6orf57 open reading frame 57 1.239 1.619 1.639 LOC728730 similar to hCG2031213 1.272 1.331 1.635 C7orf52 open reading frame 52 1.36 2.152 1.633 NRTN neurotensin 1.133 1.715 1.626 VEGFA vascular endothelial growth factor A 7.84 4.103 1.61 KREMEN2 kallikrein-related peptidase 11 1.112 1.628 1.604 DDIT3 DNA-damage-inducible transcript 3 1.208 2.248 1.603 ADA adenosine deaminase 2.06 3.379 1.595 PFKFB3 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3 1.503 2.912 1.583 F12 coagulation factor XII (Hageman factor) 1.235 1.426 1.583 LOC285141 hypothetical protein LOC283713 1.385 1.717 1.582

Page 1 MAX-signature P4HA1 prolyl 4-hydroxylase, alpha polypeptide I 1.989 2.651 1.581 STC2 stanniocalcin 2 1.938 1.506 1.58 COPZ2 coatomer protein complex, subunit zeta 2 1.148 2.314 1.578 MLKL MHC class I polypeptide-related sequence B 1.339 1.499 1.578 VWA5A von Willebrand factor A domain containing 5A 1.291 2.354 1.575 TMEM130 130 1.101 1.744 1.566 SNORD114-23 small nucleolar RNA, C/D box 114-14; small nucleolar RNA, C/D box 113-1; small nucle 1.134 1.376 1.564 WFDC2 WAP four-disulfide core domain 2 1.45 1.329 1.562 ABCG4 ATP-binding cassette, sub-family G (WHITE), member 4 1.116 1.714 1.561 MMP10 matrix metallopeptidase 1 (interstitial collagenase) 2.266 1.317 1.55 ADM adrenomedullin 1.893 2.329 1.537 FUT3 fucosyltransferase 3 (galactoside 3(4)-L-fucosyltransferase, Lewis blood group) 1.171 3.059 1.534 GPR172B G protein-coupled receptor 171 1.126 1.566 1.525 LOC100289187 similar to Protein FAM27D1 1.376 1.743 1.524 GAL3ST1 galactose-3-O-sulfotransferase 1 1.07 1.537 1.519 TRIB3 tribbles homolog 3 (Drosophila) 2.903 4.329 1.511 BATF2 basic zipper factor, ATF-like 2 1.295 2.269 1.505 FBXO2 F-box protein 2 1.151 2.177 1.505 AHNAK AHNAK nucleoprotein 1.392 1.199 1.504 ESRP1 epithelial splicing regulatory protein 1 1.237 1.713 1.502 MMP1 MLX interacting protein-like 1.503 1.247 1.501 NGEF neuronal guanine nucleotide exchange factor 0.947 2.059 1.496 PARP14 poly (ADP-ribose) polymerase family, member 14 1.109 4.825 1.494 FHOD1 formin homology 2 domain containing 1 1.104 2.194 1.493 LOC155060 hypothetical protein LOC149351 1.236 1.431 1.489 SEC24D SEC24 family, member D (S. cerevisiae) 1.155 1.257 1.488 TMC4 transmembrane channel-like 4 1.456 1.923 1.486 SYNGR3 synaptogyrin 3 1.112 1.959 1.485 TXNIP thioredoxin interacting protein 1.51 1.839 1.485 NFATC4 nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4 1.383 2.132 1.483 RELB v- reticuloendotheliosis viral oncogene homolog B 1.249 1.412 1.48 PFKFB4 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 4 1.494 3.673 1.48 C1orf213 open reading frame 213 1.115 1.477 1.475 PLA2G4D phospholipase A2, group IVD (cytosolic) 1.106 2.561 1.472 FGF11 fibroblast growth factor 11 1.275 1.546 1.472 SLC16A3 solute carrier family 16, member 3 (monocarboxylic acid transporter 4) 5.221 4.071 1.468

Page 2 MAX-signature MYO15A v-myc myelocytomatosis viral related oncogene, neuroblastoma derived (avian) 1.599 2.224 1.467 APOE hypothetical LOC100129500; apolipoprotein E 1.549 5.763 1.466 MSMB mannose-P-dolichol utilization defect 1 1.95 1.26 1.461 AATK -associated kinase 2.453 2.297 1.461 SMPDL3A sphingomyelin phosphodiesterase, acid-like 3A 1.916 1.336 1.46 PDK1 pyruvate dehydrogenase kinase, isozyme 1 1.904 4.317 1.458 GRTP1 gastrin-releasing peptide 1.245 1.876 1.453 ATF3 activating 3 1.389 1.43 1.448 ROPN1 ropporin, rhophilin associated protein 1 2.063 1.728 1.446 LDHA leucine carboxyl methyltransferase 2 2.049 1.97 1.446 MOXD1 matrix metallopeptidase 9 (gelatinase B, 92kDa gelatinase, 92kDa type IV collagenase) 1.269 1.632 1.444 ZNF204P finger protein 204 pseudogene 1.374 1.582 1.441 ATP1B2 ATPase, Na+/K+ transporting, beta 2 polypeptide 1.411 2.633 1.438 OBFC1 obscurin-like 1 1.12 1.401 1.436 SERPINA6 serpin peptidase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 6 1.194 1.802 1.436 RPRML reprimo-like 1.133 2.012 1.434 LOC100507401 LOC100507401 1.135 1.66 1.431 BIK BCL2-interacting killer (apoptosis-inducing) 1.866 1.478 1.431 FLJ37644 hypothetical gene supported by AK094963 1.17 1.365 1.428 EML2 echinoderm associated protein like 2 1.954 1.773 1.428 TMEM45B transmembrane protein 45B 2.067 1.403 1.425 PLOD2 procollagen-, 2-oxoglutarate 5-dioxygenase 2 1.513 1.727 1.424 CLDN1 1 1.141 1.561 1.42 C6orf26 chromosome 6 open reading frame 26 1.333 1.495 1.418 NKD2 nicotinamide N-methyltransferase 1.772 1.376 1.412 ADCY4 adenylate cyclase 4 1.356 1.495 1.41 MEG3 multiple C2 domains, transmembrane 2 1.447 1.733 1.41 TMEM45A transmembrane protein 45A 1.385 1.536 1.408 MICA myocardial infarction associated transcript (non-protein coding) 1.199 1.628 1.408 DLX6 distal-less 6 1.439 1.591 1.407 CSRP2 cysteine and glycine-rich protein 2 1.122 1.313 1.403 NXPH4 oligonucleotide/oligosaccharide-binding fold containing 1 5.226 14.88 1.403 CCDC153 coiled-coil domain containing 153 2.002 1.835 1.398 SLC9A5 solute carrier family 9 (/hydrogen exchanger), member 5 1.182 1.875 1.396 ASB2 repeat and SOCS box-containing 2 1.217 3.88 1.394 LOC283352 hypothetical LOC283174 1.124 1.647 1.393

Page 3 MAX-signature LOC440356 hypothetical LOC401480 1.121 1.785 1.392 ENST000005118ENST00000511849 1.609 1.543 1.391 NPHS1 N-acetylneuraminate pyruvate lyase (dihydrodipicolinate synthase) 1.223 1.594 1.39 FOXS1 forkhead box S1 1.15 1.536 1.389 PHYHIP phytanoyl-CoA 2-hydroxylase interacting protein 1.321 2.384 1.388 C20orf46 chromosome 20 open reading frame 46 1.901 2.606 1.388 SIPA1 signal-induced proliferation-associated 1 1.789 2.048 1.386 SEC31B SEC31 homolog B (S. cerevisiae) 1.452 1.597 1.385 VSIG8 chromosome 1 open reading frame 204; V-set and immunoglobulin domain containing 8 1.2 1.388 1.383 ENST000005348ENST00000534819 1.424 1.453 1.382 PTGR2 prostaglandin reductase 2 1.479 1.489 1.379 LOC100505894 LOC100505894 1.133 1.229 1.379 CCDC19 coiled-coil domain containing 19 1.413 1.784 1.378 LOC100505695 LOC100505695 1.147 1.243 1.376 CA11 carbonic anhydrase XI 1.292 1.407 1.375 LINC00239 LIM homeobox 2 1.238 1.6 1.373 ANKRD9 ankyrin repeat domain 9 1.18 1.371 1.372 LOC100507077 LOC100507077 1.184 1.884 1.372 ANKRD34B ankyrin repeat domain 34B 1.195 1.436 1.371 MICB MICAL C-terminal like 1.35 2.14 1.371 GNGT1 guanine nucleotide binding protein (G protein), alpha activating activity polypeptide, olfa 1.207 1.478 1.368 FAM3B family with sequence similarity 3, member B 1.79 1.835 1.368 NUP62CL neurexophilin 4 1.185 1.353 1.365 LOC100505821 LOC100505821 1.225 1.513 1.364 KCTD16 potassium voltage-gated channel, subfamily H (eag-related), member 2 1.378 1.478 1.362 PPIL6 peptidylprolyl isomerase (cyclophilin)-like 6 1.379 1.726 1.361 PLIN3 mannose-6- receptor binding protein 1 1.004 1.375 1.36 MMP9 matrix metallopeptidase 23A (pseudogene); matrix metallopeptidase 23B 1.093 1.366 1.356 Q8NDX4 MEG3 maternally expressed 3 (non-protein coding) 1.079 1.268 1.351 UAP1L1 UDP-N-acteylglucosamine pyrophosphorylase 1-like 1 1.112 1.393 1.35 PDIA2 protein disulfide isomerase family A, member 2 1.113 2.22 1.348 UNC93B1 unc-93 homolog B1 (C. elegans); unc-93 homolog B6 (C. elegans); unc-93 homolog B3 1.193 1.717 1.347 PPFIA4 protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein ( 1.794 2.882 1.346 ULBP1 UL16 binding protein 1 1.344 1.46 1.346 FAM81B family with sequence similarity 81, member B 1.128 1.746 1.345 GAD1 glutamate decarboxylase 1 (, 67kDa) 0.889 1.24 1.344

Page 4 MAX-signature RORC RAR-related C 1.835 1.745 1.342 DOCK6 dedicator of cytokinesis 6 1.433 1.67 1.342 CEBPB CCAAT/enhancer binding protein (C/EBP), beta 1.297 1.685 1.342 GFI1 growth factor independent 1 transcription 1.474 1.318 1.341 LPIN3 3 1.216 1.878 1.341 ELF3 E74-like factor 3 (ets domain transcription factor, epithelial-specific ) 1.658 1.335 1.34 EFEMP2 EGF-containing fibulin-like extracellular matrix protein 2 1.563 5.384 1.339 HOXB4 nucleosomal binding protein 1 2.104 1.27 1.339 SMARCD3 SWI/SNF related, matrix associated, dependent regulator of chromatin, subfamily 1.104 1.49 1.334 MLLT3 mixed lineage kinase domain-like 1.424 1.275 1.328 EDARADD EDAR-associated 2.05 1.756 1.327 SESN2 sestrin 2 1.265 1.562 1.326 ENO2 enolase 2 (gamma, neuronal) 1.28 1.544 1.325 PYGL phosphorylase, glycogen, liver 1.443 1.712 1.325 C1orf151-NBL1 C1orf151-NBL1 1.424 1.571 1.324 FAM102A family with sequence similarity 102, member A 1.23 1.235 1.322 AK4 adenylate kinase 4 2.101 2.543 1.32 MAGEH1 v- musculoaponeurotic fibrosarcoma oncogene homolog B (avian) 1.168 2.711 1.319 LOC100506452 LOC100506452 1.328 1.319 1.318 PDGFRL platelet-derived growth factor receptor-like 1.703 1.373 1.318 FNDC4 fibronectin type III domain containing 4 1.493 1.464 1.315 KLF10 KISS1 receptor 1.311 1.758 1.315 SCGB2A1 secretoglobin, family 2A, member 1 2.688 1.782 1.312 C11orf35 open reading frame 35 1.627 1.822 1.31 RHBDF2 rhomboid 5 homolog 2 (Drosophila) 1.176 1.579 1.309 MAL melanoma antigen family H, 1 1.606 3.051 1.309 CDK18 PCTAIRE protein kinase 3 1.119 1.397 1.309 RGL3 ral guanine nucleotide dissociation stimulator-like 3 1.22 1.565 1.304 SLC43A1 solute carrier family 43, member 1 1.859 2.024 1.304 ACVR1C activin A receptor, type IC 1.082 1.131 1.303 ENST000004495ENST00000449573 1.195 1.541 1.303 UCN urocortin 1.147 1.455 1.302 NRIP3 neurturin 1.154 1.305 1.301 DUSP6 dual specificity phosphatase 6 1.378 1.76 1.3 FKBP9 FK506 binding protein 9, 63 kDa 2.022 1.171 1.297 KCNH2 potassium voltage-gated channel, Shal-related subfamily, member 2 1.224 1.359 1.297

Page 5 MAX-signature LOC100652951 LOC100652951 1.171 1.72 1.295 TSPAN12 tetraspanin 12 1.519 1.526 1.293 PPP1R13L protein phosphatase 1, regulatory (inhibitor) subunit 13 like 1.134 1.39 1.292 PPM1M protein phosphatase 1M (PP2C domain containing) 1.218 1.573 1.291 EPOR erythropoietin receptor 1.306 1.382 1.29 PDE4A phosphodiesterase 4A, cAMP-specific (phosphodiesterase E2 dunce homolog, Drosoph 1.206 1.497 1.288 RAB11FIP4 RAB11 family interacting protein 4 (class II) 1.14 1.63 1.287 PIGZ phosphatidylinositol glycan anchor biosynthesis, class Z 2.003 1.961 1.286 GRP , ionotropic, N-methyl-D-aspartate 3A 2.47 1.854 1.285 KIAA1456 kelch-like ECH-associated protein 1 1.195 1.456 1.283 GLS GLI family 2 1.105 1.278 1.283 EEF2K eukaryotic elongation factor-2 kinase 1.312 1.349 1.282 DNAI1 , axonemal, intermediate chain 1 1.093 1.842 1.281 TRIM69 tripartite motif-containing 69 1.149 1.491 1.281 RBP7 retinol binding protein 7, cellular 1.191 2.488 1.28 CORO7 coronin 7 1.176 1.39 1.28 NAGS N-acetylglutamate synthase 1.121 1.686 1.28 COTL1 coactosin-like 1 (Dictyostelium) 1.584 1.332 1.279 ARPC1B actin related protein 2/3 complex, subunit 1B, 41kDa; similar to Actin-related protein 2/3 1.135 1.504 1.276 IFITM4P interferon induced transmembrane protein 3 (1-8U) 1.307 2.699 1.276 LOC386758 hypothetical LOC344595 1.246 1.275 1.275 ATG9B ATG9 autophagy related 9 homolog B (S. cerevisiae) 1.564 1.34 1.274 LOC728052 hypothetical LOC646778 1.563 2.313 1.273 DNAJB2 DnaJ (Hsp40) homolog, subfamily B, member 2 1.292 1.241 1.272 ANKZF1 ankyrin repeat and zinc finger domain containing 1 1.112 1.598 1.272 PRR4 proline rich 4 (lacrimal) 1.159 1.399 1.27 AB073651 AB073651 1.725 1.771 1.269 TECTA tectorin alpha 1.108 1.458 1.269 C12orf24 open reading frame 24 1.439 1.517 1.267 LAMP3 lysosomal-associated 3 1.219 2.429 1.265 MVP mevalonate (diphospho) decarboxylase 1.119 4.447 1.265 AGBL2 ATP/GTP binding protein-like 2 1.156 1.294 1.265 CAMKV CaM kinase-like vesicle-associated 1.182 1.546 1.264 HSD11B1L homeobox B4 1.547 2.241 1.261 CECR5-AS1 CECR5-AS1 1.133 1.347 1.261 C12orf42 chromosome 12 open reading frame 42 1.078 1.122 1.261

Page 6 MAX-signature C6orf154 chromosome 6 open reading frame 154 1.304 1.457 1.259 DEAF1 deformed epidermal autoregulatory factor 1 (Drosophila) 1.166 1.271 1.257 TMC6 transmembrane channel-like 6 1.114 1.237 1.255 ODF3B odz, odd Oz/ten-m homolog 1(Drosophila) 1.393 3.178 1.253 H3F3B H1 histone family, member 0 1.118 1.466 1.253 ALDH3B1 aldehyde dehydrogenase 3 family, member B1 1.089 1.444 1.252 TMEM52 transmembrane protein 52 1.102 2.22 1.251 LOC100505483 LOC100505483 1.154 1.549 1.25 AARS alanyl-tRNA synthetase 1.213 1.868 1.25 PGPEP1 pyroglutamyl-peptidase I 1.083 1.306 1.25 CBS cystathionine-beta-synthase 1.531 1.746 1.249 LOC100506245 LOC100506245 1.125 1.617 1.249 ODZ1 Name 1.163 1.312 1.248 ITGBL1 inositol-3-phosphate synthase 1 1.048 1.612 1.248 MAPT mannosidase, alpha, class 1A, member 1 1.115 1.589 1.248 IFI6 interferon, alpha-inducible protein 27 1.264 9.673 1.247 PTPRN protein tyrosine phosphatase, receptor type, N 1.272 1.707 1.244 LOC100507547 LOC100507547 1.301 1.307 1.244 IRX4 insulin induced gene 1 1.196 1.947 1.243 AMT aminomethyltransferase 1.348 1.5 1.241 CXXC4 CXXC finger 4 2.538 1.435 1.237 P4HA2 prolyl 4-hydroxylase, alpha polypeptide II 1.693 1.808 1.237 TRAF5 TNF receptor-associated factor 5 1.217 1.309 1.236 PRSS2 protease, , 2 ( 2) 1.504 1.736 1.236 CAPN12 calpain 12 1.284 2.427 1.235 CYP2J2 cytochrome P450, family 2, subfamily J, polypeptide 2 1.291 1.239 1.235 BEST1 1.96 3.564 1.235 EZR hypothetical protein LOC100129652; ezrin 1.228 1.307 1.235 TFF3 trefoil factor 3 (intestinal) 1.492 1.646 1.234 SPON2 spondin 2, extracellular matrix protein 1.46 1.846 1.234 PGAM1 phosphoglycerate mutase 1 (brain) 1.347 1.438 1.232 ROM1 retinal outer segment membrane protein 1 1.317 1.473 1.231 PLOD1 procollagen-lysine 1, 2-oxoglutarate 5-dioxygenase 1 1.229 1.2 1.23 C17orf76 open reading frame 76 1.052 1.146 1.23 ZFAND1 zinc finger, AN1-type domain 1 1.369 1.423 1.23 ITPKA integral membrane protein 2C 1.632 1.977 1.229

Page 7 MAX-signature GAA glucosidase, alpha; acid 1.381 2.025 1.229 MIAT hypothetical LOC196872 0.931 1.762 1.229 MTFP1 macrophage stimulating 1 (hepatocyte growth factor-like) 1.425 1.524 1.228 ETV7 ets variant 7 1.362 1.32 1.226 PSMB8 proteasome (prosome, macropain) subunit, beta type, 8 (large multifunctional peptidase 1.311 3.42 1.224 CARD10 caspase recruitment domain family, member 10 1.245 2.46 1.223 C5orf45 chromosome 5 open reading frame 45 1.178 1.287 1.223 PCP4L1 Purkinje cell protein 4 like 1 1.242 2.001 1.222 ARRDC4 arrestin domain containing 4 1.17 1.581 1.221 SIX5 SIX homeobox 5 1.611 2.289 1.22 NAMA N-acetylglutamate synthase 1.652 1.255 1.219 EFCAB3 similar to hypoxia-inducible protein 2; EF-hand calcium binding domain 3 1.055 1.194 1.218 FLJ35024 hypothetical LOC401491 1.477 1.278 1.217 FKBP11 FK506 binding protein 11, 19 kDa 1.287 1.702 1.216 PIK3CD phosphoinositide-3-kinase, catalytic, delta polypeptide 1.058 1.396 1.216 ESPN 1.21 1.727 1.216 IFITM3 interferon-induced protein with tetratricopeptide repeats 2 1.283 3.213 1.215 RNF187 ring finger protein 187 1.58 1.533 1.214 CSAG3 CSAG family, member 2; CSAG family, member 3; similar to CSAG family, member 2 1.376 1.384 1.213 CAPS2 calcyphosine 2 1.322 1.245 1.213 C20orf160 chromosome 20 open reading frame 160 1.219 1.412 1.212 SPSB1 splA/ domain and SOCS box containing 1 1.11 1.115 1.212 C1orf228 chromosome 1 open reading frame 228 1.324 1.863 1.212 TNNI2 I type 2 (skeletal, fast) 1.146 3.962 1.211 BAIAP3 BAI1-associated protein 3 1.983 2.606 1.211 SDSL serine dehydratase-like 1.325 1.338 1.211 H1F0 glycosyltransferase-like 1B 2.191 1.463 1.211 ZNF185 zinc finger protein 185 (LIM domain) 1.045 1.721 1.21 PRSS3 protease, serine, 3 1.167 2.134 1.207 TLX1NB TLX1 divergent 1.263 2.457 1.207 HCN3 HAUS augmin-like complex, subunit 6 1.313 1.335 1.206 RPS6KA1 ribosomal protein S6 kinase, 90kDa, polypeptide 1 1.179 1.323 1.206 LOC81691 hypothetical protein LOC729652 1.115 1.371 1.206 TMPRSS6 transmembrane protease, serine 6 1.146 1.109 1.206 LAMB2P1 , beta 2 (laminin S) 1.607 2.202 1.204 ANGPTL6 angiopoietin-like 6 1.248 1.366 1.204

Page 8 MAX-signature SLC39A8 solute carrier family 39 (zinc transporter), member 8 1.575 1.221 1.204 MYCBPAP v-myc myelocytomatosis viral oncogene homolog (avian) 1.138 1.962 1.204 ECE2 endothelin converting enzyme 2 0.972 1.304 1.203 RCN3 reticulocalbin 3, EF-hand calcium binding domain 1.131 1.553 1.203 SH3D21 SH3 domain containing 21 1.344 1.136 1.202 OBSL1 occludin/ELL domain containing 1 1.77 1.246 1.202 GALNT6 UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 6 1.263 1.714 1.202 SPINK2 serine peptidase inhibitor, Kazal type 2 (acrosin-trypsin inhibitor) 1.262 1.38 1.202 PPP4R4 protein phosphatase 4, regulatory subunit 4 1.249 1.807 1.201 IL20RA interferon (alpha, beta and omega) receptor 2 1.215 1.292 1.201 RAB34 RAB34, member RAS oncogene family 1.45 1.532 1.199 NPPA NAD(P)H dehydrogenase, quinone 1 1.551 1.228 1.197 ENST000004503ENST00000450304 1.818 2.578 1.197 CSPG5 chondroitin sulfate proteoglycan 5 (neuroglycan C) 1.554 1.855 1.196 HEY1 heme binding protein 1 1.8 1.576 1.196 IFIH1 interferon, alpha-inducible protein 6 1.423 3.128 1.196 HLA-B hexokinase 2 pseudogene; hexokinase 2 1.135 8.993 1.195 TPD52 tumor protein D52 1.228 1.622 1.194 GPR155 G patch domain containing 2 1.027 1.518 1.193 IFIT2 interferon induced with helicase C domain 1 1.08 1.405 1.192 PTPRH protein tyrosine phosphatase, receptor type, H 1.743 3.543 1.192 C19orf57 chromosome 19 open reading frame 57 1.752 1.583 1.191 SERGEF regulating guanine nucleotide exchange factor 2.385 1.433 1.191 NDRG1 N-myc downstream regulated 1 2.084 12.06 1.19 RERG RAS-like, estrogen-regulated, growth inhibitor 1.41 1.466 1.19 WNT10A wingless-type MMTV integration site family, member 10A 1.095 1.175 1.189 PGM1 phosphoglucomutase 1 1.136 1.159 1.189 SEMA3B sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 1.152 2.079 1.189 EXD3 exonuclease 3'-5' domain containing 3 1.112 1.503 1.187 ALDOA aldolase A, fructose-bisphosphate 1.115 1.583 1.187 PGK1 phosphoglycerate kinase 1 1.429 1.577 1.185 PTRF polymerase I and transcript release factor 1.099 1.845 1.185 TMEM61 transmembrane protein 61 2.126 1.947 1.184 L3MBTL1 9 1.009 1.484 1.183 LOC399715 hypothetical LOC389634 1.163 1.244 1.183 GYLTL1B glycosyltransferase 8 domain containing 3 1.071 1.516 1.182

Page 9 MAX-signature STAC3 SH3 and cysteine rich domain 3 1.615 1.991 1.182 TSC22D3 TSC22 domain family, member 3; GRAM domain containing 4 1.541 1.351 1.182 EFCAB4A EF-hand calcium binding domain 4A 1.246 1.868 1.18 SCGN secretagogin, EF-hand calcium binding protein 1.877 1.657 1.18 RNASET2 ribonuclease T2 1.156 1.273 1.179 ENST000004394ENST00000439423 1.489 2.035 1.178 TUB tubby homolog (mouse) 1.379 1.607 1.177 ENTPD2 ectonucleoside triphosphate diphosphohydrolase 2 2.402 3.228 1.176 SPTB , beta, erythrocytic 1.198 1.462 1.175 NAT14 N-acetyltransferase 14 (GCN5-related, putative) 1.295 1.421 1.174 ALDH3A1 aldehyde dehydrogenase 3 family, memberA1 1.134 1.303 1.174 C1R complement component 1, r subcomponent 1.404 1.673 1.174 NOXA1 NPC1 (Niemann-Pick disease, type C1, gene)-like 1 1.174 1.576 1.174 SLC17A4 solute carrier family 17 (sodium phosphate), member 4 1.126 1.185 1.174 DPYD dihydropyrimidine dehydrogenase 1.073 1.322 1.173 PURG purine-rich element binding protein G 1.009 1.721 1.172 DNAI2 dynein, axonemal, intermediate chain 2 1.528 2.188 1.172 NEAT1 non-protein coding RNA 84 1.458 1.902 1.172 C3orf67 open reading frame 67 1.547 1.255 1.17 TNFAIP2 tumor necrosis factor, alpha-induced protein 2 1.155 1.737 1.17 COL11A2 collagen, type XI, alpha 2 1.291 1.405 1.167 MICALCL MHC class I polypeptide-related sequence A 1.244 1.427 1.166 PPP1R26 protein phosphatase 1, regulatory subunit 26 1.063 1.169 1.165 PPP2R5B protein phosphatase 2, regulatory subunit B', beta isoform 1.101 1.143 1.165 LOC100507186 LOC100507186 1.387 2.014 1.164 PRKCD protein kinase C, delta 1.08 1.265 1.164 ACSF2 acyl-CoA synthetase family member 2 1.512 1.732 1.161 PNPLA3 patatin-like phospholipase domain containing 3 1.159 1.701 1.16 GRAMD4 G protein-coupled receptor 172B 1.176 1.298 1.16 ENST000005080ENST00000508021 1.72 1.724 1.16 RPL37A ribosomal protein L37a 1.052 1.24 1.16 LHX2 leucine-rich repeat LGI family, member 2 1.331 1.307 1.159 AF370371 AF370371 1.641 1.681 1.159 GALNT7 UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 7 1.872 1.709 1.159 CYBA cytochrome b-245, alpha polypeptide 1.217 2.05 1.158 SHD Src homology 2 domain containing transforming protein D 1.15 2.047 1.158

Page 10 MAX-signature OCEL1 outer dense fiber of sperm tails 3B 1.105 2.424 1.158 DRC1 dynein regulatory complex subunit 1 homolog 1.862 2.1 1.158 NPC1L1 nephrosis 1, congenital, Finnish type (nephrin) 1.081 1.509 1.158 SCGB2A2 secretoglobin, family 2A, member 2 1.182 2.048 1.157 CARS cysteinyl-tRNA synthetase 1.175 1.723 1.157 PRR15L ATPase family, AAA domain containing 4 1.213 1.424 1.156 ATHL1 ATH1, acid trehalase-like 1 () 1.367 1.597 1.155 FLJ44342 hypothetical LOC645460 1.787 1.693 1.155 LAMB2 laminin, beta 2 (laminin S) 1.786 1.611 1.154 C9orf95 open reading frame 95 1.367 1.311 1.154 RPH3AL rabphilin 3A-like (without C2 domains) 1.394 1.594 1.153 LOC283713 hypothetical protein LOC283352 1.248 1.449 1.153 C2orf54 open reading frame 54 1.332 1.491 1.15 RNF157 ring finger protein 157 0.983 1.18 1.149 ITPR3 inositol 1,4,5-trisphosphate 3-kinase A 1.454 1.482 1.149 MMP11 matrix metallopeptidase 10 (stromelysin 2) 1.266 1.314 1.148 LOC149351 hypothetical protein BC008131 1.777 1.252 1.147 PKM2 similar to Pyruvate kinase, isozymes M1/M2 (Pyruvate kinase muscle isozyme) (Cytoso 1.585 1.459 1.145 C15orf27 open reading frame 27 1.343 1.551 1.144 LOC100507316 LOC100507316 1.179 1.401 1.144 CMTM7 CKLF-like MARVEL transmembrane domain containing 7 1.27 1.273 1.144 IFI27 immediate early response 3 1.278 3.206 1.143 NES 1.16 1.644 1.142 ITM2C , beta-like 1 (with EGF-like repeat domains) 1.982 1.728 1.141 TERT telomerase reverse transcriptase 1.457 1.263 1.141 SPAG4 sperm associated antigen 4 1.391 4.065 1.14 DMKN dermokine 1.128 1.728 1.14 SLITRK6 SLIT and NTRK-like family, member 6 2.471 1.489 1.14 GALNTL4 UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase-lik 1.389 1.275 1.138 TPM2 2 (beta) 1.335 2.286 1.138 INSIG1 inositol polyphosphate-4-phosphatase, type II, 105kDa 1.316 1.343 1.136 SCGB1D2 secretoglobin, family 1D, member 2 1.452 1.444 1.135 TMPRSS11E transmembrane protease, serine 11E 1.156 1.325 1.135 PGAM4 phosphoglycerate mutase family member 4 1.478 1.329 1.135 SNX22 sorting nexin 22 1.196 1.378 1.134 TCF24 transcription factor 24 1.137 1.402 1.134

Page 11 MAX-signature TBC1D29 TBC1 domain family, member 29 1.111 1.571 1.134 SCN2B , voltage-gated, type II, beta 1.172 1.343 1.133 JPH3 inositol 1,4,5-triphosphate receptor, type 3 1.621 1.451 1.133 KRT18 1.142 2.009 1.133 C19orf45 chromosome 19 open reading frame 45 1.781 1.388 1.132 BMS1P4 BMS1 pseudogene 4 1.326 1.334 1.132 MFSD3 methyltransferase like 12 1.135 1.259 1.132 DLG4 discs, large homolog 4 (Drosophila) 1.167 1.547 1.131 SNORD11 small nucleolar RNA, C/D box 11 1.248 1.264 1.131 NOS1AP Notch homolog 1, translocation-associated (Drosophila) 1.366 1.315 1.131 SERPINC1 serpin peptidase inhibitor, clade C (antithrombin), member 1 1 1.309 1.131 ARHGAP9 Rho GTPase activating protein 9 1.999 2.815 1.13 SLC12A7 solute carrier family 12 (potassium/chloride transporters), member 7 2.365 1.2 1.129 C19orf81 chromosome 19 open reading frame 81 1.392 2.104 1.129 MLXIPL myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocat 1.119 2.648 1.128 STARD4 StAR-related lipid transfer (START) domain containing 4 1.328 1.295 1.127 C17orf96 chromosome 17 open reading frame 96 1.113 1.283 1.127 C17orf69 chromosome 17 open reading frame 69 1.147 1.287 1.126 SHC2 SHC (Src homology 2 domain containing) transforming protein 2 1.354 2.892 1.125 LOC729178 hypothetical LOC728730 1.527 1.248 1.122 NR0B1 interacting protein 3 1.172 1.654 1.122 LPHN3 0.913 1.179 1.121 PRRT1 proline-rich transmembrane protein 1 1.231 1.477 1.121 NECAB3 N-terminal EF-hand calcium binding protein 3 1.148 1.448 1.12 DUOXA1 dual oxidase maturation factor 1 1.171 1.404 1.12 SRPK3 SFRS protein kinase 3 1.912 2.856 1.12 TEKT2 2 (testicular) 1.527 1.784 1.12 TTC33 domain 33 1.208 1.276 1.119 CST6 cystatin E/M 2.289 2.647 1.119 BBC3 BCL2 binding component 3 1.27 3.067 1.118 DNAH11 dynein, axonemal, heavy chain 11 1.195 1.385 1.118 RGL2 ral guanine nucleotide dissociation stimulator-like 2 1.247 1.269 1.118 FAM60A similar to hCG2020539; family with sequence similarity 60, member A; similar to family w 1.235 1.51 1.118 SLC4A2 solute carrier family 4, anion exchanger, member 2 (erythrocyte membrane protein band 1.721 1.371 1.118 HSPG2 heat shock 70kDa protein 8 1.266 1.404 1.117 LOC645249 lymphocyte-specific protein 1 pseudogene 1.148 1.287 1.117

Page 12 MAX-signature C2orf72 chromosome 2 open reading frame 72 1.238 1.368 1.116 FLJ41130 hypothetical gene supported by AK123125 1.188 1.42 1.116 NNMT nitric oxide synthase 1 (neuronal) adaptor protein 1.159 1.736 1.116 ANO9 anoctamin 9 1.692 1.618 1.115 MMP23B matrix metallopeptidase 11 (stromelysin 3) 1.265 1.75 1.115 B2M beta-2-microglobulin 1.047 2.05 1.114 PTPRK protein tyrosine phosphatase, receptor type, K 0.984 0.751 1.114 DDX60 DEAD (Asp-Glu-Ala-Asp) box polypeptide 60 1.154 2.749 1.113 MVD mevalonate (diphospho) decarboxylase 1.246 1.517 1.113 KCND2 katanin p60 subunit A-like 2 1.308 1.555 1.112 SMOC1 SPARC related modular calcium binding 1 1.881 2.008 1.112 SLC30A3 solute carrier family 30 (zinc transporter), member 3 1.479 2.277 1.112 TMEM9 transmembrane protein 9 1.139 1.468 1.112 ISYNA1 ISL LIM homeobox 1 1.924 1.783 1.111 RNF182 ring finger protein 182 1.105 1.696 1.111 FRMPD1 FERM and PDZ domain containing 1 1.563 1.51 1.111 RN5-8S1 5.8S ribosomal RNA 3.097 9.477 1.11 HAGHL H3 histone, family 3B (H3.3B); H3 histone, family 3A pseudogene; H3 histone, family 3A 1.256 1.26 1.11 HLA-J major histocompatibility complex, class I, C; major histocompatibility complex, class I, B 1.036 6.371 1.109 PDLIM2 PDZ and LIM domain 2 (mystique) 1.111 1.465 1.109 LOC157562 LOC157562 1.312 1.623 1.108 LOC100131564 hypothetical LOC100131262 1.247 1.558 1.107 HSD17B8 hydroxysteroid (11-beta) dehydrogenase 1-like 1.126 1.429 1.106 TUBB6 , beta 6 1.397 3.16 1.106 RRAS related RAS viral (r-ras) oncogene homolog 1.768 2.625 1.106 FLJ23152 hypothetical protein LOC401236 1.367 1.445 1.106 ENST000004568ENST00000456897 1.732 1.465 1.105 RASEF RAS and EF-hand domain containing 1.318 1.139 1.104 NEIL1 nei endonuclease VIII-like 1 (E. coli) 1.358 1.869 1.103 LOC100507009 LOC100507009 1.164 1.289 1.102 NUP210 nucleoporin 62kDa C-terminal like 1.309 1.294 1.102 ISL1 iroquois homeobox 4 1.153 1.463 1.102 VPREB3 pre-B lymphocyte 3 1.13 1.577 1.102 EXOC3L4 exocyst complex component 3-like 4 1.398 2.112 1.101 CPNE5 copine V 1.383 3.424 1.101 MAN1A1 metastasis associated lung adenocarcinoma transcript 1 (non-protein coding) 1.719 1.885 1.101

Page 13 MAX-signature STAT1 signal transducer and activator of transcription 1, 91kDa 1.175 3.295 1.098 GOLGA6L10 guanine nucleotide binding protein-like 3 (nucleolar)-like pseudogene 1.543 1.371 1.097 COL16A1 collagen, type XVI, alpha 1 1.244 1.539 1.097 GPATCH2 similar to golgi autoantigen, golgin subfamily a-like; hypothetical protein LOC440295; hy 1.028 1.151 1.097 SULT1A2 sulfotransferase family, cytosolic, 1A, phenol-preferring, member 2 1.125 1.438 1.096 PLIN2 adipose differentiation-related protein 1.112 1.328 1.096 TMEM145 transmembrane protein 145 1.404 1.643 1.092 SSH2 slingshot homolog 2 (Drosophila) 0.884 0.888 1.092 CMAHP cytidine monophospho-N-acetylneuraminic acid hydroxylase, pseudogene 1.284 1.605 1.091 ARHGEF25 Rho guanine nucleotide exchange factor (GEF) 25 2.465 1.419 1.089 AK7 adenylate kinase 7 1.048 1.595 1.086 KATNAL2 junctophilin 3 1.701 1.445 1.082 CASKIN1 CASK interacting protein 1 1.381 1.276 1.081 LAT2 lysosomal-associated membrane protein 3 1.407 1.629 1.081 GLDC protein, delta 4, 40.1kDa 1.079 1.137 1.078 OPRL1 opiate receptor-like 1 1.125 1.196 1.075 FRY furry homolog (Drosophila) 1.309 1.073 1.075 MALAT1 mal, T-cell differentiation protein 1.234 1.632 1.075 TBCCD1 TBCC domain containing 1 0.808 0.743 1.075 KIAA1751 KIAA1751 1.337 1.501 1.07 LOC400891 FLJ46311 protein 1.14 1.23 1.07 MST1 microseminoprotein, beta- 1.269 1.36 1.07 LOC389634 LOC389634 1.113 1.377 1.068 STAG3 stromal antigen 3 1.199 1.356 1.067 HEBP1 hyperpolarization activated cyclic nucleotide-gated 3 1.367 2.055 1.065 C1orf226 chromosome 1 open reading frame 226 1.192 1.373 1.064 GREB1L TSC22 domain family, member 3; GRAM domain containing 4 1.003 1.218 1.062 RBM47 RNA binding motif protein 47 1.11 1.222 1.061 INPP4B inactivation escape 1 (non-protein coding) 1.221 1.234 1.06 NCALD neurocalcin delta 1.299 1.29 1.06 OLFML2A olfactomedin-like 2A 1.36 2.167 1.059 BAI2 brain-specific angiogenesis inhibitor 2 1.816 2.421 1.058 MERTK maternally expressed 3 (non-protein coding) 1.206 1.246 1.057 OSBPL6 oxysterol binding protein-like 6 1.649 1.541 1.056 MCFD2 microtubule-associated protein tau 0.656 0.759 1.056 PLA2G16 phospholipase A2, group XVI 1.179 2.725 1.05

Page 14 MAX-signature EMX1 empty spiracles homeobox 1 1.326 1.333 1.046 ADAMTS13 ADAM metallopeptidase with thrombospondin type 1 motif, 13 1.247 1.364 1.044 SYNJ2 synaptojanin 2 1.039 1.129 1.044 PCP4 Purkinje cell protein 4 1.209 1.881 1.041 RASGRP2 RAS guanyl releasing protein 2 (calcium and DAG-regulated) 1.835 2.495 1.04 SGSM3 small G protein signaling modulator 3 1.14 1.186 1.04 LOC283174 hypothetical protein LOC254100 1.116 1.631 1.027 LBH linker for activation of T cells family, member 2 1.893 1.277 1.023 P4HB prolyl 4-hydroxylase, beta polypeptide 1.13 1.246 1.02 ACOXL acyl-Coenzyme A oxidase-like 1.158 1.179 1.02 C1orf194 chromosome 1 open reading frame 194 1.185 1.604 1.013 NPL natriuretic peptide precursor A 0.958 0.868 1.01 DDIT4 DNA-damage-inducible transcript 4 1.375 1.911 1.009 PDZRN4 PDZ domain containing ring finger 4 0.409 0.76 1.007 UBIAD1 UbiA prenyltransferase domain containing 1 0.9 0.763 1.005 KLK11 Kruppel-like factor 10 1.116 1.701 0.998 NOTCH2 Notch homolog 2 (Drosophila) N-terminal like 0.714 0.701 0.998 EIF5B eukaryotic translation initiation factor 5B 0.926 0.765 0.997 DNAJC19 similar to translocase of the inner mitochondrial membrane 14; DnaJ (Hsp40) homolog, 0.887 0.664 0.996 ZNF789 zinc finger protein 789 0.932 0.764 0.993 LOC100506844 LOC100506844 1.268 1.297 0.993 NOTCH2NL NADPH oxidase activator 1 0.803 0.813 0.993 PTTG1IP pituitary tumor-transforming 1 interacting protein 0.964 0.783 0.99 ZBTB8B zinc finger and BTB domain containing 8B 0.662 0.673 0.984 CD72 CD72 molecule 1.204 1.203 0.983 TMEM229B open reading frame 83 1.048 1.21 0.978 PDE4DIP hypothetical protein LOC100134230; similar to KIAA0454 protein; similar to phosphodie 0.952 0.897 0.977 UBAP2 associated protein 2 0.944 0.834 0.966 NOTCH1 Notch homolog 2 (Drosophila) 1.618 1.342 0.965 RGN regucalcin (senescence marker protein-30) 1.314 1.294 0.965 TP53RK TP53 regulating kinase 0.723 0.73 0.965 CRNN cornulin 0.953 0.845 0.963 PGM5 phosphoglucomutase 5 0.872 0.487 0.959 RBMX2 RNA binding motif protein, X-linked 2 0.858 0.712 0.959 AGBL4 ATP/GTP binding protein-like 4 1.205 1.198 0.959 CLCN6 6 0.781 0.85 0.953

Page 15 MAX-signature HMGN5 major histocompatibility complex, class I, J (pseudogene) 0.861 0.59 0.953 FANCD2 Fanconi anemia, complementation group D2 0.977 0.767 0.949 LOC100128402 uncharacterized protein PRO0628-like 0.877 0.838 0.948 ZBTB11 zinc finger and BTB domain containing 11 0.915 0.82 0.947 LOC344595 similar to CG14853-PB 0.923 0.941 0.943 RPP40 ribonuclease P/MRP 40kDa subunit 0.747 0.741 0.942 C2orf29 chromosome 2 open reading frame 29 0.863 0.716 0.941 ACPP acid phosphatase, prostate 0.819 0.831 0.941 NEK4 NIMA (never in mitosis gene a)-related kinase 4 0.875 0.732 0.94 FKTN fukutin 0.794 0.748 0.938 ATM similar to Serine-protein kinase ATM (Ataxia telangiectasia mutated) (A-T, mutated); ata 0.585 0.447 0.937 CCNA2 cyclin A2 0.805 0.736 0.936 GJD4 ghrelin opposite strand (non-protein coding) 0.864 0.792 0.936 UFC1 ubiquitin-fold modifier conjugating enzyme 1 0.8 0.753 0.935 PHACTR3 phosphatase and actin regulator 3 0.9 0.825 0.935 UBE2I ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) 0.935 0.749 0.931 KIF1B KIAA1751 0.808 0.723 0.928 DGKZ diacylglycerol kinase, zeta 104kDa 0.857 0.789 0.926 SNORA26 small nucleolar RNA, H/ACA box 26 0.864 0.686 0.926 FLJ45482 hypothetical LOC645566 0.818 0.789 0.922 ACTR3 ARP3 actin-related protein 3 homolog (yeast) 0.853 0.787 0.92 RAD18 RAD18 homolog (S. cerevisiae) 0.849 0.677 0.92 SHMT1 serine hydroxymethyltransferase 1 (soluble) 0.957 0.835 0.918 RABGAP1 RAB GTPase activating protein 1 0.864 0.797 0.917 DDX1 DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 0.866 0.808 0.917 GLI2 glycine dehydrogenase (decarboxylating) 0.938 0.91 0.916 HSPA8 hydroxysteroid (17-beta) dehydrogenase 8 0.639 0.704 0.913 LGI2 lactate dehydrogenase A 0.893 0.743 0.912 SYTL4 synaptotagmin-like 4 1.083 0.873 0.912 C10orf108 open reading frame 108 0.875 0.78 0.909 LOC442132 hypothetical LOC440356 0.96 0.795 0.907 DPF3 D4, zinc and double PHD fingers, family 3 0.917 0.826 0.906 TP53I3 tumor protein inducible protein 3 0.699 0.572 0.906 CHST15 carbohydrate (N-acetylgalactosamine 4-sulfate 6-O) sulfotransferase 15 0.808 0.679 0.904 LOC254100 hypothetical protein BC009467 0.85 0.76 0.904 EXOG endo/exonuclease (5'-3'), endonuclease G-like 0.776 0.705 0.901

Page 16 MAX-signature KEAP1 KDEL (Lys-Asp-Glu-Leu) containing 1 0.873 0.801 0.9 SCARNA20 small Cajal body-specific RNA 20 0.49 0.537 0.9 MGC13053 hypothetical protein MGC10814 0.867 0.693 0.896 IL27RA interleukin 20 receptor, alpha 0.693 0.684 0.895 SLC19A3 solute carrier family 19, member 3 0.94 0.864 0.893 VASN vasorin 0.726 0.538 0.893 GNL3LP1 guanine nucleotide binding protein-like 3 (nucleolar)-like 0.482 0.324 0.892 TCHHL1 trichohyalin-like 1 0.902 0.693 0.892 GNAL guanosine monophosphate reductase 0.671 0.509 0.891 OTX1 orthodenticle homeobox 1 0.838 0.85 0.891 DQX1 DEAQ box RNA-dependent ATPase 1 0.862 0.649 0.891 CHMP3 charged multivesicular body protein 3 0.833 0.672 0.89 YAP1 Yes-associated protein 1, 65kDa 0.983 0.594 0.89 UBE2Q1 ubiquitin-conjugating enzyme E2Q family member 1 0.861 0.75 0.89 PEPD peptidase D 0.856 0.504 0.89 TMEM188 transmembrane protein 188; similar to TMEM188 protein 0.916 0.719 0.89 ZNF763 zinc finger protein 763 0.841 0.587 0.886 SUMF1 sulfatase modifying factor 1 0.944 0.8 0.886 MPDU1 monooxygenase, DBH-like 1 0.743 0.69 0.885 KRT1 kringle containing transmembrane protein 2 0.878 0.231 0.885 AK094832 AK094832 0.899 0.614 0.885 PTN pleiotrophin 0.554 0.589 0.885 DYNC1LI1 dynein, cytoplasmic 1, light intermediate chain 1 0.859 0.643 0.885 NQO1 nuclear receptor subfamily 0, group B, member 1 0.622 0.601 0.883 PPP2R2B protein phosphatase 2 (formerly 2A), regulatory subunit B, beta isoform 0.459 0.623 0.881 TAOK2 TAO kinase 2 1.154 0.837 0.88 GPR171 G protein-coupled receptor 155 0.895 0.725 0.879 LRPAP1 lipin 3 0.781 0.82 0.879 ZNF526 zinc finger protein 526 0.783 0.685 0.879 RPS6KL1 ribosomal protein S6 kinase-like 1 0.727 0.713 0.878 PRMT6 protein methyltransferase 6 0.753 0.72 0.876 MGC23270 tubulin, alpha pseudogene 0.732 0.653 0.875 RPUSD3 RNA pseudouridylate synthase domain containing 3 0.872 0.736 0.872 KIF20A kinesin family member 1B 0.973 0.739 0.87 LOC100506458 LOC100506458 0.708 0.669 0.869 TWIST1 twist homolog 1 (Drosophila) 0.926 0.655 0.868

Page 17 MAX-signature ZNF426 zinc finger protein 426 0.741 0.475 0.867 DNER delta/notch-like EGF repeat containing 0.634 0.651 0.866 FOXD2 forkhead box D2 0.793 0.657 0.865 LOC100506334 LOC100506334 0.768 0.689 0.865 BCAR1 similar to breast cancer anti-estrogen resistance 1; breast cancer anti-estrogen resistan 0.796 0.8 0.862 CHML choroideremia-like (Rab escort protein 2) 0.896 0.681 0.862 KDELC1 potassium channel tetramerisation domain containing 16 0.844 0.743 0.861 FAM183A family with sequence similarity 183, member A 1.008 0.899 0.86 LOC100127886 LOC100127886 0.595 0.491 0.86 SLC9A1 solute carrier family 9 (sodium/hydrogen exchanger), member 1 0.906 0.866 0.859 LOC100505760 LOC100505760 0.705 0.569 0.859 GRIN3A KIAA1772 0.33 0.496 0.858 LOC100132439 hypothetical protein LOC100131564 0.761 0.465 0.858 C19orf39 chromosome 19 open reading frame 39 0.784 0.611 0.858 SNAPC3 small nuclear RNA activating complex, polypeptide 3, 50kDa 0.798 0.764 0.856 SHROOM4 shroom family member 4 0.802 0.507 0.855 SCARNA1 small Cajal body-specific RNA 1 0.678 0.583 0.855 SURF6 surfeit 6 0.64 0.681 0.854 ARSB arylsulfatase B 0.721 0.648 0.852 GNL3L guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 1 0.648 0.489 0.852 DCLK1 doublecortin-like kinase 1 0.512 0.84 0.851 SOS2 son of sevenless homolog 2 (Drosophila) 0.963 0.789 0.85 KRT9 ; keratin 18 pseudogene 26; keratin 18 pseudogene 19 0.67 0.353 0.849 ACTR8 ARP8 actin-related protein 8 homolog (yeast) 0.821 0.699 0.848 LOC100130276 hypothetical protein LOC100129380 0.667 0.491 0.848 LOC401431 hypothetical LOC401320 0.719 0.727 0.848 HIST1H3H hairy/enhancer-of-split related with YRPW motif 1 0.757 0.766 0.848 LCMT2 limb bud and development homolog (mouse) 0.807 0.753 0.847 BCCIP BRCA2 and CDKN1A interacting protein 0.901 0.728 0.846 SACS spastic ataxia of Charlevoix-Saguenay (sacsin) 0.797 0.727 0.845 PTPN21 protein tyrosine phosphatase, non-receptor type 21 0.754 0.733 0.845 TMEM237 transmembrane protein 237 0.818 0.827 0.844 CYB561D2 cytochrome b-561 domain containing 2 0.868 0.722 0.844 CCDC99 coiled-coil domain containing 99 0.922 0.787 0.843 SLC36A1 solute carrier family 36 (proton/ symporter), member 1 0.631 0.715 0.842 C17orf97 chromosome 17 open reading frame 97 0.681 0.603 0.84

Page 18 MAX-signature MGC10814 major facilitator superfamily domain containing 3 0.898 0.719 0.838 ST3GAL2 ST3 beta-galactoside alpha-2,3-sialyltransferase 2 0.883 0.664 0.837 ATP13A2 ATPase type 13A2 0.885 0.723 0.835 ZNF347 zinc finger protein 347 0.684 0.648 0.835 SUSD1 sushi domain containing 1 0.812 0.583 0.833 COX11 COX11 homolog, cytochrome c oxidase assembly protein (yeast) 0.897 0.795 0.831 LOC100499489 hypothetical protein LOC100289187 0.695 0.495 0.831 FBXL18 F-box and leucine-rich repeat protein 18 0.87 0.763 0.826 coiled-coil domain containing 144B; coiled-coil domain containing 144A; coiled-coil ENST000004457domain containing 144C 0.818 0.749 0.825 PLAU plasminogen activator, urokinase 0.936 0.38 0.824 METTL12 c-mer proto-oncogene tyrosine kinase 0.534 0.543 0.823 C10orf114 chromosome 10 open reading frame 114 0.579 0.504 0.822 PAPOLG poly(A) polymerase gamma 0.668 0.656 0.822 ZNF786 zinc finger protein 786 0.763 0.601 0.822 PIGW phosphatidylinositol glycan anchor biosynthesis, class W 0.821 0.549 0.819 MAFB low density lipoprotein receptor-related protein associated protein 1 0.405 0.519 0.819 ZSWIM7 zinc finger, SWIM-type containing 7 0.747 0.648 0.817 LOC100507672 LOC100507672 0.604 0.678 0.817 AK123255 AK123255 0.691 0.589 0.816 LOC158960 hypothetical protein LOC157562 0.747 0.585 0.812 FXN frataxin 0.956 0.684 0.811 LOC100653515 LOC100653515 0.472 0.526 0.81 NUDT15 nucleoporin 210kDa 0.696 0.491 0.808 BC000817 BC000817 0.823 0.573 0.808 MZT2A XVA 0.628 0.756 0.807 BC021857 BC021857 0.585 0.735 0.806 INE1 interleukin 27 receptor, alpha 0.501 0.377 0.803 ATXN2 ataxin 2 0.843 0.77 0.803 PRR11 proline rich 11 0.629 0.634 0.803 HAUS6 HAUS augmin-like complex, subunit 3 0.756 0.812 0.8 AVEN apoptosis, caspase activation inhibitor 0.952 0.46 0.797 PHF19 PHD finger protein 19 0.936 0.614 0.796 TRMT2B TRM2 tRNA methyltransferase 2 homolog B (S. cerevisiae) 0.906 0.811 0.794 LOC100506191 LOC100506191 0.567 0.503 0.793 LOC100509247 LOC100509247 0.812 0.594 0.792

Page 19 MAX-signature XRCC2 X-ray repair complementing defective repair in Chinese hamster cells 2 0.702 0.527 0.792 LOC100507094 LOC100507094 0.69 0.638 0.791 TPTE transmembrane phosphatase with tensin homology 0.879 0.615 0.791 DGCR14 DiGeorge syndrome critical region gene 14 0.732 0.685 0.789 LPHN2 exonuclease NEF-sp 0.744 0.72 0.787 TSPAN11 tetraspanin 11 1.006 0.728 0.784 DBIL5P2 diazepam binding inhibitor-like 5 pseudogene 2 0.862 0.588 0.783 LOC100506694 LOC100506694 0.837 0.731 0.779 LOC401480 hypothetical LOC401431 0.822 0.539 0.778 GATS GATS, stromal antigen 3 opposite strand 0.775 0.843 0.773 LOC100128640 hypothetical protein LOC100128563 0.832 0.651 0.772 FLJ11235 hypothetical FLJ11235 0.833 0.651 0.771 PMF1 bone gamma-carboxyglutamate (gla) protein; polyamine-modulated factor 1 0.74 0.723 0.771 TAF9B TAF9B RNA polymerase II, TATA box binding protein (TBP)-associated factor, 31kDa 0.861 0.66 0.765 ZNF747 zinc finger protein 747 0.697 0.618 0.764 AMPH amphiphysin 0.548 0.683 0.764 SH3BGRL SH3 domain binding -rich protein like 0.732 0.737 0.758 DOK3 docking protein 3 0.934 0.77 0.755 ZNF35 zinc finger protein 35 0.673 0.664 0.754 CCDC142 coiled-coil domain containing 142 0.647 0.649 0.754 PTCH1 patched homolog 1 (Drosophila) 0.635 0.608 0.749 SLCO5A1 solute carrier organic anion transporter family, member 5A1 0.784 0.712 0.748 LOC646778 hypothetical protein LOC645249 0.87 0.662 0.747 LOC100652738 LOC100652738 0.896 0.691 0.747 LOC100132859 family with sequence similarity 27, member E3; family with sequence similarity 27, mem 0.785 0.625 0.746 MYC major vault protein 0.991 0.587 0.745 LOC100506392 LOC100506392 0.688 0.625 0.744 SHISA3 shisa homolog 3 (Xenopus laevis) 0.893 0.634 0.743 C19orf42 chromosome 19 open reading frame 42 0.732 0.688 0.742 PDE7A phosphodiesterase 7A 0.881 0.726 0.742 LOC100653004 LOC100653004 0.69 0.586 0.742 IFNAR1 interferon induced transmembrane protein 4 pseudogene 0.758 0.579 0.732 LOC100131262 hypothetical LOC100130876 0.62 0.464 0.731 GXYLT1 growth hormone regulated TBC protein 1 0.747 0.608 0.727 C8orf60 open reading frame 60 0.609 0.724 0.727 TNFRSF25 tumor necrosis factor receptor superfamily, member 25 0.802 0.987 0.725

Page 20 MAX-signature TP53I11 tumor protein p53 inducible protein 11 0.968 0.824 0.724 DBF4B DBF4 homolog B (S. cerevisiae) 0.736 0.681 0.718 LOC100130463 hypothetical protein LOC100130276 0.825 0.5 0.718 LOC100652866 LOC100652866 0.58 0.553 0.716 SHCBP1 SHC SH2-domain binding protein 1 0.695 0.635 0.714 ZNF667 zinc finger protein 667 0.609 0.72 0.708 C19orf23 chromosome 19 open reading frame 23 0.688 0.527 0.708 PITX1 paired-like homeodomain 1 0.935 0.592 0.705 PCMTD2 protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 2 0.828 0.673 0.702 GHRLOS growth factor independent 1 transcription repressor 0.773 0.681 0.697 FAM5C family with sequence similarity 5, member C 0.982 0.52 0.685 LOC100507265 LOC100507265 0.708 0.678 0.682 CUX2 cut-like homeobox 2 0.801 0.679 0.681 FBLN1 fibulin 1 0.795 0.759 0.673 LOC100129380 hypothetical protein LOC100128640 0.764 0.45 0.673 CRYBA2 crystallin, beta A2 0.745 0.493 0.671 FOXD4 forkhead box D4 0.747 0.633 0.664 PMP22 peripheral myelin protein 22 1.088 0.792 0.66 RASL11B RAS-like, family 11, member B 0.635 0.705 0.66 LOC100128563 hypothetical protein LOC100128402 0.564 0.539 0.651 MYCN MYCBP associated protein 0.88 0.533 0.647 LOC100507131 LOC100507131 0.572 0.537 0.624 RXRA , alpha 0.72 0.675 0.622 TUBA3C tubulin, alpha 3d; tubulin, alpha 3c 0.781 0.742 0.614 LOC645166 similar to hypothetical protein FLJ36144 0.969 0.649 0.613 TH tyrosine hydroxylase 0.796 0.771 0.597 MGC16703 hypothetical MGC13053 0.716 0.575 0.582 VWA2 von Willebrand factor A domain containing 2 0.646 0.701 0.575 FEV FEV (ETS oncogene family) 0.751 0.583 0.548 HAUS3 hydroxyacylglutathione hydrolase-like 0.382 0.256 0.537 ARHGEF3 Rho guanine nucleotide exchange factor (GEF) 3 0.775 0.748 0.522 COL12A1 collagen, type XII, alpha 1 0.879 0.684 0.509 LOC729652 hypothetical LOC729444 0.898 0.295 0.475 NTS nudix (nucleoside diphosphate linked moiety X)-type motif 15 0.315 0.113 0.438 LOC142937 LOC142937 0.627 0.442 0.425 DLX3 distal-less homeobox 3 0.402 0.671 0.388

Page 21 MAX-signature LOC100130876 hypothetical protein LOC100130463 0.692 0.701 0.355

Page 22 shBRG1-expression

Supplementary Table S3 OFFICIAL_GENE_SYMBOL Name Lu134_shBRG1 H1417_shBRG1 Lu165_shBRG1 LOC100506235 LOC100506235 1.524574366 1.856998591 1.199246649 SCARNA9 small Cajal body-specific RNA 9-like (retrotransposed); small Cajal body-spec 13.00047568 5.800578523 3.294242169 PCDH8 protocadherin 8 2.951369202 5.051909803 1.150826091 DUSP5P dual specificity phosphatase 5 pseudogene 6.506500817 4.721808065 1.123250529 SCARNA17 small Cajal body-specific RNA 17 4.291526593 4.220903063 1.776644338 RNU6ATAC RNA, U6atac small nuclear (U12-dependent splicing) 6.223157404 4.022118906 4.620615431 ARRB1 arrestin, beta 1 2.660251541 3.8203374 1.223742379 HAS3 hyaluronan synthase 3 1.439888142 3.763116249 1.16538157 RN7SL1 RNA, 7SL, cytoplasmic 2; RNA, 7SL, cytoplasmic 1 2.347593386 3.289390636 1.156372989 ACTA1 actin, alpha 1, 5.320280913 3.224123425 1.59625158 IL10RA interleukin 10 receptor, alpha 1.381626545 3.153511652 1.196247022 PKIA protein kinase (cAMP-dependent, catalytic) inhibitor alpha 4.223342625 3.004653679 1.225555388 BFSP1 beaded filament structural protein 1, filensin 1.494009797 2.903420891 1.292496399 ADM adrenomedullin 1.04299342 2.754559317 1.567715486 PIM2 pim-2 oncogene 1.265628216 2.647940853 1.267453459 CLU clusterin 1.161891577 2.644281894 1.871211187 ACTA2 actin, alpha 2, smooth muscle, aorta 1.977160029 2.585368264 1.799971252 FBXO32 F-box protein 32 1.835286669 2.534868019 1.310395569 PMAIP1 phorbol-12-myristate-13-acetate-induced protein 1 1.143308043 2.530159968 1.421254647 EIF5A2 eukaryotic translation initiation factor 5A2 2.274403597 2.463153474 1.853655497 FOXQ1 forkhead box Q1 1.699274313 2.457612214 1.260817055 KIAA0101 KIAA0101 1.615177107 2.449231406 1.298952077 LOC100288602 hypothetical LOC100288602 2.580190042 2.408521423 1.124893336 EGR4 early growth response 4 1.946269423 2.303107743 1.116032746 KCNH7 potassium voltage-gated channel, subfamily H (eag-related), member 7 1.56318845 2.301209767 1.292212804 CYBASC3 cytochrome b, ascorbate dependent 3 1.845582378 2.28428755 1.434423431 KRT222 keratin 222 pseudogene 1.128383086 2.278866609 1.126278047 C11orf87 chromosome 11 open reading frame 87 5.206065944 2.261932026 1.209230083 MAN1A1 mannosidase, alpha, class 1A, member 1 2.978782832 2.231381254 1.36338576 HBB hemoglobin, beta 4.442616229 2.218756057 2.727500015 LIMS1 LIM and senescent cell antigen-like domains 1 1.565250548 2.208576506 1.378784149 MBNL1 muscleblind-like (Drosophila) 2.175695404 2.200376959 1.303681269 Page 1 shBRG1-expression

ARHGAP18 Rho GTPase activating protein 18 1.742095929 2.187328126 1.451404226 OSTM1 osteopetrosis associated transmembrane protein 1 3.049668622 2.180535925 1.939020502 ITGB3 integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61) 3.335325123 2.158248561 1.203474425 C1orf96 chromosome 1 open reading frame 96 4.125663271 2.127335837 1.511591013 CDC37L1 cell division cycle 37 homolog (S. cerevisiae)-like 1 1.745871472 2.088758915 1.596132396 FAM54A family with sequence similarity 54, member A 1.115406241 2.080357256 1.200967834 PLEKHA1 pleckstrin homology domain containing, family A (phosphoinositide binding sp 1.920235817 2.072305866 1.139644726 PGM2L1 phosphoglucomutase 2-like 1 1.132869495 2.048526827 1.612052131 KIAA0494 KIAA0494 1.490386478 2.041187194 1.307224615 SLC16A10 solute carrier family 16, member 10 (aromatic amino acid transporter) 1.634483472 2.035121597 1.128329037 YRDC yrdC domain containing (E. coli) 1.504378296 2.03068155 1.187784631 RHEBL1 Ras homolog enriched in brain like 1 1.545701012 2.021534742 1.101880228 SYBU syntabulin (syntaxin-interacting) 3.321684388 2.018551056 1.156986733 LMO7 LIM domain 7 2.214298411 1.96350742 1.043736687 CDKN1A cyclin-dependent kinase inhibitor 1A (p21, Cip1) 1.471508756 1.960803655 1.977101807 SNORA28 small nucleolar RNA, H/ACA box 28 1.778109371 1.957502108 1.527877733 ELOVL2 elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 2 1.702897019 1.953794601 1.338002273 NDST3 N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 3 1.535099023 1.945330409 1.388372067 PLEKHA3 pleckstrin homology domain containing, family A (phosphoinositide binding sp 2.100428436 1.943956432 1.506703315 XK X-linked Kx blood group (McLeod syndrome) 1.433440324 1.942699584 1.39827609 MALAT1 metastasis associated lung adenocarcinoma transcript 1 (non-protein coding) 1.720031227 1.937520038 1.309678637 PPP1R15A protein phosphatase 1, regulatory (inhibitor) subunit 15A 1.448162931 1.922254509 1.609484838 SCML2 sex comb on midleg-like 2 (Drosophila) 2.024130368 1.921039956 1.253102149 FOS v-fos FBJ murine osteosarcoma viral oncogene homolog 2.268166874 1.91294265 1.261529881 HN1 hematological and neurological expressed 1 2.411813424 1.912040891 1.713400069 DIRAS2 DIRAS family, GTP-binding RAS-like 2 1.712755913 1.907376294 1.288733546 TRIM7 tripartite motif-containing 7 1.058223544 1.903455412 1.117291153 POTEB POTE ankyrin domain family, member D; POTE ankyrin domain family, memb 1.14647128 1.902982042 1.299912084 GLS glutaminase 1.881166583 1.889607743 1.221474245 CTNND2 (cadherin-associated protein), delta 2 (neural -related arm- 1.436148641 1.875141168 0.916961606 LIN7A lin-7 homolog A (C. elegans) 2.714317204 1.874408062 1.135903219 CEP55 centrosomal protein 55kDa 1.806149859 1.866079255 1.318454665 STYX serine//tyrosine interacting protein 3.275759043 1.863851217 1.401153145 RAB8B RAB8B, member RAS oncogene family 3.19401615 1.862910967 1.102476702 Page 2 shBRG1-expression

GRM8 glutamate receptor, metabotropic 8 1.413928124 1.857022925 1.315076391 GFPT1 -fructose-6-phosphate transaminase 1 1.6229911 1.847146143 1.670429066 ISM1 isthmin 1 homolog () 1.155131387 1.840690331 1.20410027 STAT3 signal transducer and activator of transcription 3 (acute-phase response facto 1.174550631 1.82148074 1.016904641 HDHD1 haloacid dehalogenase-like hydrolase domain containing 1 1.584107016 1.81503307 1.241682452 NR1H2 nuclear receptor subfamily 1, group H, member 2 2.114313379 1.813859973 1.413251653 NSUN3 NOL1/NOP2/Sun domain family, member 3 1.361415208 1.80526477 1.180087871 REEP3 receptor accessory protein 3 1.741389409 1.804761355 1.283543353 CDK1 cell division cycle 2, G1 to S and G2 to M 1.42086108 1.800656855 1.133777211 LOC100132831 A20-binding inhibitor of NF-kappaB activation 2 pseudogene 2.239511463 1.79653907 1.662586797 HSPA4L heat shock 70kDa protein 4-like 1.551071282 1.79351689 1.289840546 KLHL35 kelch-like 35 (Drosophila) 2.657251693 1.779421777 1.441964565 FAM111A family with sequence similarity 111, member A 1.554649684 1.775918716 1.15727784 NUPL1 nucleoporin like 1 1.850294685 1.772509538 1.333601173 PLS1 plastin 1 (I isoform) 1.329677742 1.769435889 1.151141751 SLC20A1 solute carrier family 20 (phosphate transporter), member 1 1.290654776 1.767723575 1.147221277 PPPDE2 PPPDE peptidase domain containing 2 1.692194806 1.767119117 1.520804541 KCNA4 potassium voltage-gated channel, -related subfamily, member 4 1.16201445 1.752149723 1.297142398 ELK4 ELK4, ETS-domain protein (SRF accessory protein 1) 1.954637302 1.74433315 1.354511613 PRNP prion protein 1.525011165 1.73836426 1.345038375 BIRC3 baculoviral IAP repeat-containing 3 1.239000821 1.73481229 1.222651547 CDKN3 cyclin-dependent kinase inhibitor 3 2.134408015 1.718313672 1.314840484 MAPRE2 microtubule-associated protein, RP/EB family, member 2 1.328400323 1.715487933 1.208124486 CDC40 cell division cycle 40 homolog (S. cerevisiae) 1.222502834 1.714460289 1.206833223 NAPB N-ethylmaleimide-sensitive factor attachment protein, beta 1.24715426 1.712042545 1.201272318 CMPK1 cytidine monophosphate (UMP-CMP) kinase 1, cytosolic 1.71877272 1.707604852 1.098564924 DICER1 dicer 1, ribonuclease type III 2.67445471 1.701807214 1.3836081 PCP4 Purkinje cell protein 4 2.685111937 1.696670089 1.1548325 UBE2S ubiquitin-conjugating enzyme E2S 1.451175003 1.695916236 1.227984026 SNORD114-21 small nucleolar RNA, C/D box 114-14; small nucleolar RNA, C/D box 113-1; s 1.297666517 1.694371675 1.411285743 RGL1 ral guanine nucleotide dissociation stimulator-like 1 1.343512624 1.690951449 1.317688972 SNORD43 small nucleolar RNA, C/D box 43 2.338561847 1.686970238 1.316586498 ACADSB acyl-Coenzyme A dehydrogenase, short/branched chain 2.779480893 1.686781783 1.144996529 ATPAF1 ATP synthase mitochondrial F1 complex assembly factor 1 1.198753075 1.678992399 1.186234002 Page 3 shBRG1-expression

TRIM9 tripartite motif-containing 9 1.870602185 1.678241196 1.063012106 LOC100506844 LOC100506844 1.046834997 1.672786283 1.043811866 DPYD dihydropyrimidine dehydrogenase 5.865888536 1.670145656 1.088852587 IGF2R insulin-like growth factor 2 receptor 1.271149393 1.668301297 1.384131599 LOC286109 hypothetical protein LOC286109 2.071038781 1.667959146 1.326508741 TBC1D9 TBC1 domain family, member 9 (with GRAM domain) 1.946947383 1.667696349 1.241439888 FAM60A similar to hCG2020539; family with sequence similarity 60, member A; similar 1.635458172 1.664144302 0.999552705 LDHB lactate dehydrogenase B 1.997149584 1.662997506 1.541240623 GUCY1B3 guanylate cyclase 1, soluble, beta 3 1.424748906 1.656698452 1.129871541 TMEFF2 transmembrane protein with EGF-like and two follistatin-like domains 2 1.459291805 1.655217422 1.152196117 C17orf59 chromosome 17 open reading frame 59 1.80924006 1.65466819 1.667604157 UBE2C ubiquitin-conjugating enzyme E2C 1.579389193 1.654015304 1.457319249 EHD1 EH-domain containing 1 1.176920303 1.651160702 1.358703419 RPS6KA3 ribosomal protein S6 kinase, 90kDa, polypeptide 3 1.394068733 1.650464895 1.097029062 ND1 NADH-ubiquinone oxidoreductase chain 1 1.4380748 1.643410402 1.149578256 NADKD1 NAD kinase domain containing 1 1.190604718 1.643037706 1.657691598 CDKN2D cyclin-dependent kinase inhibitor 2D (p19, inhibits CDK4) 1.167296851 1.642934745 1.289922584 GADD45B growth arrest and DNA-damage-inducible, beta 1.382915223 1.640270207 1.592046221 TERF2IP telomeric repeat binding factor 2, interacting protein 1.398460471 1.635683643 1.21898368 PLAGL2 pleiomorphic adenoma gene-like 2; similar to pleiomorphic adenoma gene-like 1.453816334 1.635294621 1.136572769 EIF4G2 eukaryotic translation initiation factor 4 gamma, 2 1.861040011 1.635219306 1.120936542 SNORD114-15 small nucleolar RNA, C/D box 114-14; small nucleolar RNA, C/D box 113-1; s 1.236258475 1.634532569 1.293240991 ATP6V1H ATPase, H+ transporting, lysosomal 50/57kDa, V1 subunit H 1.150841038 1.631726479 1.458323191 C12orf32 chromosome 12 open reading frame 32 1.411676734 1.627935777 1.160279892 FAM122B family with sequence similarity 122B 1.208300354 1.627743606 1.236819397 BRP44L brain protein 44-like 1.951396154 1.627662598 1.463461345 AQP11 11 2.872937229 1.626510925 1.144536175 ZSWIM6 zinc finger, SWIM-type containing 6 1.23062477 1.625527049 1.303460668 M6PR mannose-6-phosphate receptor (cation dependent) 1.151216411 1.624670998 1.227382968 DUSP1 dual specificity phosphatase 1 1.677863276 1.624058663 1.211669068 LOC90499 hypothetical protein LOC90499 1.305070285 1.623388966 1.273687465 MAPRE1 microtubule-associated protein, RP/EB family, member 1 1.629106092 1.621407876 1.341985362 SCARNA2 small Cajal body-specific RNA 2 1.150309054 1.62002421 1.188253959 SPRYD3 SPRY domain containing 3 1.455981877 1.617529088 1.312739284 Page 4 shBRG1-expression

MLYCD malonyl-CoA decarboxylase 1.929456227 1.616101347 1.769081669 MXD1 MAX dimerization protein 1 1.394876675 1.611216626 1.574768926 POLR3G polymerase (RNA) III (DNA directed) polypeptide G (32kD) 1.506593827 1.609736121 1.258557208 ENST00000485364 ENST00000485364 2.452191571 1.608010752 1.656979912 NPTN neuroplastin 1.046930981 1.607461448 1.086401896 KCNJ18 similar to hkir2.2x; similar to inward rectifying K+ channel negative regulator K 1.758752912 1.606000459 1.550233316 NRIP1 nuclear receptor interacting protein 1 1.657333052 1.605883062 1.134149461 KCNA3 potassium voltage-gated channel, shaker-related subfamily, member 3 1.105399427 1.601331106 1.509583664 PLK1 polo-like kinase 1 (Drosophila) 1.331533135 1.6012209 1.218719589 SLC25A40 solute carrier family 25, member 40 1.770865728 1.60057056 1.388781436 PRIM2 primase, DNA, polypeptide 2 (58kDa) 1.270107276 1.600040135 1.088232952 NEK2 NIMA (never in mitosis gene a)-related kinase 2 1.918191847 1.599846883 1.068949553 LMBRD2 LMBR1 domain containing 2 1.142000357 1.599614474 1.372131614 TAF12 TAF12 RNA polymerase II, TATA box binding protein (TBP)-associated factor 1.433035142 1.599224213 1.151540256 HDAC9 9 1.069267026 1.59869538 1.119338413 CRYBG3 beta-gamma crystallin domain containing 3 2.91354555 1.595685484 1.485141253 RANBP9 RAN binding protein 9 1.059728851 1.595551065 1.229301702 LMBR1L limb region 1 homolog (mouse)-like 1.754014776 1.589531818 1.11287575 SULT1A2 sulfotransferase family, cytosolic, 1A, phenol-preferring, member 2 1.071417712 1.589162932 1.150380577 C13orf27 chromosome 13 open reading frame 27 1.237576731 1.587898869 1.126887777 ANP32E acidic (leucine-rich) nuclear phosphoprotein 32 family, member E 1.382115653 1.586111734 1.358805788 FAM113A family with sequence similarity 113, member A 1.187494772 1.58288732 1.366102529 C2CD2L C2CD2-like 2.164690291 1.581643702 1.47584102 PPARGC1B peroxisome proliferator-activated receptor gamma, coactivator 1 beta 1.260769329 1.580767779 1.433700861 MYBL1 v- myeloblastosis viral oncogene homolog (avian)-like 1 1.846107012 1.580511224 1.310382626 CEP76 centrosomal protein 76kDa 1.064186017 1.58019502 1.457644109 CHUK conserved helix-loop-helix ubiquitous kinase 1.22392512 1.578275103 1.177419162 E2F7 transcription factor 7 1.377667184 1.577046191 1.145045503 JAG2 jagged 2 1.734086899 1.57608563 1.154368823 CDC20 cell division cycle 20 homolog (S. cerevisiae) 1.577822951 1.574370582 1.378105319 ZMAT1 zinc finger, matrin type 1 1.123893041 1.572731568 1.12783804 PHF15 PHD finger protein 15 1.075289442 1.571152095 1.352327139 UBE2B ubiquitin-conjugating enzyme E2B (RAD6 homolog) 1.164260689 1.566590457 1.263418595 COQ10B coenzyme Q10 homolog B (S. cerevisiae) 0.984181785 1.565462052 1.185924702 Page 5 shBRG1-expression

RCCD1 RCC1 domain containing 1 1.562593764 1.564192645 1.340131104 TXLNA taxilin alpha 1.192879002 1.563361582 1.261011802 EXOC6 exocyst complex component 6 1.588150702 1.562007397 1.263595277 NUP98 nucleoporin 98kDa 1.294510916 1.559576447 1.114132303 C10orf26 chromosome 10 open reading frame 26 1.295718064 1.558607006 1.52404545 SKI v-ski sarcoma viral oncogene homolog (avian) 2.428904506 1.557846157 1.652017906 GNPDA2 glucosamine-6-phosphate deaminase 2 2.120436077 1.554774102 1.346369981 FAM102A family with sequence similarity 102, member A 1.25445895 1.551793846 1.251551698 EIF2C2 eukaryotic translation initiation factor 2C, 2 2.157929245 1.549984936 1.243894619 EFNB2 ephrin-B2 4.784904845 1.546368468 1.197271895 STAMBPL1 STAM binding protein-like 1 1.141579505 1.544998003 1.272220034 MESDC1 mesoderm development candidate 1 1.22328841 1.543066897 1.113089583 LRRCC1 leucine rich repeat and coiled-coil domain containing 1 1.123054007 1.541846917 1.163305555 SIRT7 sirtuin (silent mating type information regulation 2 homolog) 7 (S. cerevisiae) 1.325015576 1.539664885 1.497353235 ESAM endothelial cell adhesion molecule 1.17884053 1.538402587 1.161666336 ENST00000344538 ENST00000344538 1.683465132 1.538239255 1.23462141 LOC100506848 LOC100506848 1.521080605 1.535777635 1.331744084 SNORD114-28 small nucleolar RNA, C/D box 114-14; small nucleolar RNA, C/D box 113-1; s 1.107691576 1.535183603 1.344642031 DACH2 dachshund homolog 2 (Drosophila) 2.046111465 1.532338232 1.253619355 ZNF622 zinc finger protein 622 1.238863366 1.531694754 1.600994527 KIAA1009 KIAA1009 1.981660357 1.531172748 1.339271794 LOC100509075 LOC100509075 1.46062117 1.530588054 1.686739504 ATP6V0E1 ATPase, H+ transporting, lysosomal 9kDa, V0 subunit e1 1.365674436 1.529947907 1.590960371 TK2 thymidine kinase 2, mitochondrial 1.505299668 1.5275861 1.305313514 SNORD114-23 small nucleolar RNA, C/D box 114-14; small nucleolar RNA, C/D box 113-1; s 1.340823307 1.527062301 1.398253231 MCOLN1 mucolipin 1 1.669840833 1.525655635 2.12037651 CLTB clathrin, light chain (Lcb) 1.352214524 1.524509817 1.517793877 VDAC1 voltage-dependent anion channel 1; similar to voltage-dependent anion chann 1.918662759 1.523963571 1.519329382 PRODH proline dehydrogenase (oxidase) 1 1.076115347 1.523540791 1.448520487 HIPK1 homeodomain interacting protein kinase 1 1.572542242 1.522012951 1.312665402 WEE1 WEE1 homolog (S. pombe) 1.703700512 1.521689473 1.352655511 CDCA4 cell division cycle associated 4 1.701994501 1.521254593 1.144064012 SLC25A4 solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator 1.106727187 1.518753325 1.20175952 SH3RF1 SH3 domain containing ring finger 1 1.872843758 1.518610163 1.359572428 Page 6 shBRG1-expression

INCENP inner centromere protein antigens 135/155kDa 1.803027887 1.518507295 0.998586671 C4orf46 hypothetical LOC100129478; open reading frame 46 1.330599719 1.515046865 1.263111993 ABHD3 abhydrolase domain containing 3 1.179373536 1.514157758 1.354432728 PTX3 pentraxin-related gene, rapidly induced by IL-1 beta 1.120504187 1.513684242 1.314623219 AURKAPS1 aurora kinase A; aurora kinase A pseudogene 1 1.325005342 1.511723848 1.573520059 GSTM1 glutathione S-transferase mu 1 1.476154842 1.510316179 1.351902343 PHTF2 putative homeodomain transcription factor 2 2.289455216 1.508552565 1.125431079 PTPRG protein tyrosine phosphatase, receptor type, G 1.757543426 1.508224481 1.046168637 DCP2 DCP2 decapping enzyme homolog (S. cerevisiae) 1.701897711 1.506728772 1.347955164 CELF5 bruno-like 5, RNA binding protein (Drosophila) 1.056438678 1.505373373 1.031079569 GSTM3 glutathione S-transferase mu 3 (brain) 1.639457149 1.505258222 1.352149602 BHLHE41 basic helix-loop-helix family, member e41 2.053785806 1.504685096 1.383340104 CD79A CD79a molecule, immunoglobulin-associated alpha 1.151036162 1.50464837 1.251196541 PUM2 pumilio homolog 2 (Drosophila) 1.286213672 1.502229069 1.18224449 RBMS1 RNA binding motif, single stranded interacting protein 1 2.119157281 1.500463218 1.180697525 PPM1K protein phosphatase 1K (PP2C domain containing) 1.684506344 1.500207043 1.670556854 ISOC1 isochorismatase domain containing 1 1.604049571 1.499349856 1.145998944 PGM2 phosphoglucomutase 2 1.272757965 1.498253997 1.310204748 ZDHHC12 zinc finger, DHHC-type containing 12 1.402617466 1.498190881 1.574425204 LOC348840 hypothetical LOC348840 1.389001768 1.497850918 1.304486736 PRR13 proline rich 13 1.066226506 1.497055007 1.322700482 CD164 CD164 molecule, sialomucin 1.459004713 1.496871921 1.581862709 FXR2 fragile X mental retardation, autosomal homolog 2 1.319143791 1.493669268 1.324217006 TBPL1 TBP-like 1 1.334381791 1.492763153 1.498168743 WDR67 WD repeat domain 67 1.452635378 1.492537646 1.20167862 LOC729860 hypothetical protein LOC729860 1.244743063 1.489353422 1.161945075 MAT2B methionine adenosyltransferase II, beta 1.528985674 1.488880089 1.423978024 TNIP2 TNFAIP3 interacting protein 2 2.145722172 1.488875095 1.945283795 PTPRK protein tyrosine phosphatase, receptor type, K 1.336536672 1.487783217 1.096097119 GTF2E1 general transcription factor IIE, polypeptide 1, alpha 56kDa 1.36199009 1.487063585 1.110249249 MOB1A MOB kinase activator 1A 2.087316786 1.486251899 1.607512512 LOC100506451 LOC100506451 2.674011472 1.486189136 1.046798862 SUN2 unc-84 homolog B (C. elegans) 1.474103898 1.486105919 1.261147065 ELOVL1 elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 1 1.938466836 1.486084951 1.177026449 Page 7 shBRG1-expression

MAN2B2 mannosidase, alpha, class 2B, member 2 1.310549368 1.485231797 1.289349005 LCORL ligand dependent nuclear receptor corepressor-like 1.216613664 1.48488336 1.09894818 POLR2A polymerase (RNA) II (DNA directed) polypeptide A, 220kDa 1.288013859 1.481866394 1.224173577 LOC285696 hypothetical LOC285696 3.357960852 1.481502194 1.269373842 ERBB2 v-erb-b2 erythroblastic leukemia viral oncogene homolog 2, neuro/glioblastom 1.257154556 1.481327841 1.079818783 BOD1L biorientation of in cell division 1-like 1.150559289 1.480908565 1.225990655 LOC100506718 LOC100506718 1.761074685 1.477829595 1.101909742 TUBA4A tubulin, alpha 4a 1.117488463 1.477799702 1.056157109 DERL1 Der1-like domain family, member 1 1.429510204 1.47743978 1.298613984 CCNA2 cyclin A2 1.387388901 1.47621643 1.038034941 CEP57L1 centrosomal protein 57kDa-like 1 1.470567257 1.476207044 1.255393157 NANOS1 nanos homolog 1 (Drosophila) 1.226059569 1.475085483 1.168280283 GLUD2 glutamate dehydrogenase 2 1.28793447 1.473479311 1.158548593 HGSNAT heparan-alpha-glucosaminide N-acetyltransferase 1.843526979 1.47327913 1.001815376 FRAT1 frequently rearranged in advanced T-cell lymphomas 1.369801645 1.472504595 1.108495545 NKIRAS1 NFKB inhibitor interacting Ras-like 1 1.595045652 1.471077959 1.285812668 CKLF chemokine-like factor 1.704389302 1.470785766 1.798481804 CNOT6L CCR4-NOT transcription complex, subunit 6-like 1.055497599 1.470693209 1.295419207 ZNF600 zinc finger protein 600 1.084075857 1.468467038 1.496783597 CGN cingulin 3.064026451 1.467427133 1.19217658 ENST00000375673 ENST00000375673 3.25521934 1.465162112 1.583799294 ZDHHC18 zinc finger, DHHC-type containing 18 1.564209479 1.464931985 1.239521486 CDIPT CDP-diacylglycerol--inositol 3-phosphatidyltransferase (phosphatidylinositol s 1.262153192 1.464550319 1.310729204 ATF3 activating transcription factor 3 1.501884671 1.463673512 1.050447329 DGKI diacylglycerol kinase, iota 1.320797762 1.462463362 1.171316099 WDR47 WD repeat domain 47 1.550872228 1.46143792 1.195441438 LOC100506268 LOC100506268 1.197306004 1.460239801 1.335436381 HSD17B11 hydroxysteroid (17-beta) dehydrogenase 11 1.261785161 1.45983001 1.114148963 CTSA cathepsin A 1.750509002 1.454250311 1.614259006 C1GALT1 core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransfe 1.175896343 1.452480252 1.090847959 OTUD1 OTU domain containing 1 1.290593726 1.451010389 1.434841607 C18orf32 open reading frame 32 1.42678772 1.448879845 1.131658383 LOC440896 hypothetical LOC440896 2.861937705 1.447899625 1.233463861 NEUROD1 neurogenic differentiation 1 4.807057238 1.447550046 1.44786465 Page 8 shBRG1-expression

ZNRF2 zinc and ring finger 2 2.002929294 1.446773086 1.31690617 N4BP2 NEDD4 binding protein 2 1.517692328 1.446012022 1.24805416 NRBP1 nuclear receptor binding protein 1 2.415327564 1.444854722 1.505633013 CERS6 ceramide synthase 6 1.324785616 1.443010797 1.219678328 PADI3 peptidyl arginine deiminase, type III 1.247492661 1.442729536 1.217228917 ND4 NADH-ubiquinone oxidoreductase chain 4L; NADH-ubiquinone oxidoreductas 1.150011426 1.441543547 0.988028024 PGAP1 post-GPI attachment to proteins 1 1.119256534 1.440791678 0.971436304 ADSL adenylosuccinate lyase 1.113233622 1.440247425 1.559007915 C5orf41 chromosome 5 open reading frame 41 0.952415035 1.439143927 1.058607643 SNORD35B small nucleolar RNA, C/D box 35B; small nucleolar RNA, C/D box 35A 1.312716699 1.437099029 1.324334853 SNORD114-9 small nucleolar RNA, C/D box 114-14; small nucleolar RNA, C/D box 113-1; s 1.311124743 1.436989645 1.521677485 CIT citron (rho-interacting, serine/threonine kinase 21) 1.216897708 1.434576441 1.163155056 SLC25A11 solute carrier family 25 (mitochondrial carrier; oxoglutarate carrier), member 1 1.421747811 1.433498918 1.641129304 PPP2R1B protein phosphatase 2 (formerly 2A), regulatory subunit A, beta isoform 1.250343683 1.433106095 1.149812531 ZNF167 zinc finger protein 852; zinc finger protein 167 1.083334748 1.433050107 1.023555933 LOC100288884 hypothetical protein LOC100288884 1.200873565 1.431845711 1.057469675 IGFBP7 insulin-like growth factor binding protein 7 5.691058562 1.430910432 1.426597526 FAM82A2 family with sequence similarity 82, member A2 1.287634619 1.430737944 1.297771502 FGFR1OP FGFR1 oncogene partner 2.095647121 1.43071179 2.206209693 VPS4B vacuolar protein sorting 4 homolog B (S. cerevisiae) 1.227092668 1.428627761 1.128049763 CYP4F35P CYP4F35P cytochrome P450, family 4, subfamily F, polypeptide 35, pseudog 1.464146455 1.427212459 1.117520671 RACGAP1P Rac GTPase activating protein 1 pseudogene; Rac GTPase activating protein 1.785301525 1.426699595 1.245657478 RAB5B RAB5B, member RAS oncogene family 1.798760453 1.425431108 1.154546554 SNORD105B small nucleolar RNA, C/D box 105B 2.42036564 1.42443001 2.641067222 FAM64A family with sequence similarity 64, member A 1.226487834 1.424355352 1.427034373 SNORA73A RNA, U105A small nucleolar; RNA, U105B small nucleolar; RNA, U105C sma 1.488373424 1.423172895 1.166528945 PRKAA1 protein kinase, AMP-activated, alpha 1 catalytic subunit 1.06236657 1.420514524 1.10183852 CHEK2 protein kinase CHK2-like; CHK2 checkpoint homolog (S. pombe); similar to hC 1.143475945 1.420164974 0.942814031 VPS33A vacuolar protein sorting 33 homolog A (S. cerevisiae) 1.429295955 1.419956285 1.27871879 ANKRD20A5P ankyrin repeat domain 20 family, member A5, pseudogene (ANKRD20A5P), n 1.501998343 1.418237297 1.175655845 LOC100505692 LOC100505692 1.638371139 1.418154206 1.328930719 ETV7 ets variant 7 2.164313754 1.417908747 1.26264161 LOC149837 hypothetical protein LOC643406; hypothetical LOC149837 1.087046733 1.409669609 1.202668927 SYCE3 synaptonemal complex central element protein 3 1.144275538 1.407945713 1.066241459 Page 9 shBRG1-expression

CENPN centromere protein N 1.263759712 1.407131096 1.047909315 CASP3 caspase 3, apoptosis-related cysteine peptidase 0.87921328 1.406358184 1.04865481 RNU2-2 RNA, U2 small nuclear 1; RNA, U2 small nuclear 2 1.2881022 1.40483715 1.32075979 ZBTB24 zinc finger and BTB domain containing 24 1.116323663 1.40411431 1.344183092 MNX1 motor neuron and pancreas homeobox 1 1.538149576 1.402297283 1.107967836 RNMT RNA (guanine-7-) methyltransferase 1.327585638 1.401528737 1.270309854 SNORD17 small nucleolar RNA, C/D box 17 1.785137663 1.401025289 1.606649464 UBR1 ubiquitin protein ligase E3 component n-recognin 1 1.138897944 1.399674629 1.133673194 SMARCA2 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, 1.3980592 1.397421875 1.056903897 TPX2 TPX2, microtubule-associated, homolog (Xenopus laevis) 1.609987194 1.397370315 1.178729318 LOC100506379 LOC100506379 1.171119081 1.396698429 1.54081448 HLTF helicase-like transcription factor 1.677800075 1.393425839 1.150263457 KLF2 Kruppel-like factor 2 (lung) 1.387830503 1.391192329 1.325661679 TDP1 tyrosyl-DNA phosphodiesterase 1 1.787528735 1.390870685 1.294704873 C12orf49 chromosome 12 open reading frame 49 1.427074234 1.387767961 1.359924567 SPTAN1 spectrin, alpha, non-erythrocytic 1 (alpha-fodrin) 1.607379795 1.386859947 1.481858427 NAV2 neuron navigator 2 1.189058698 1.386679254 1.678619229 FRY furry homolog (Drosophila) 2.167058418 1.386391955 1.069051218 RDM1 RAD52 motif 1 1.354320441 1.385163395 1.455780081 NETO2 neuropilin (NRP) and tolloid (TLL)-like 2 1.932743358 1.380086016 1.290371595 C7orf43 chromosome 7 open reading frame 43 1.16087992 1.379826517 1.272089727 C20orf177 chromosome 20 open reading frame 177 1.949908729 1.379377643 0.917719703 TLE4 transducin-like enhancer of split 4 (E(sp1) homolog, Drosophila) 15.39104176 1.379293004 1.30671615 SSR4P1 signal sequence receptor, delta pseudogene 1 1.76247374 1.379212393 1.420739814 ENST00000425412 ENST00000425412 1.635382189 1.378780034 1.104344778 LOC100302640 LOC100302640 1.892919619 1.375501049 1.348398642 GCFC1 open reading frame 66 1.427492133 1.373394449 1.249477973 LIMS3L LIM and senescent cell antigen-like domains 3-like 1.159618547 1.371775484 1.247309128 TBP TATA box binding protein 1.31328315 1.37129206 1.174736596 C6orf115 chromosome 6 open reading frame 115 1.552655962 1.370861819 1.451808198 BOLA2B bolA homolog 2 (E. coli); bolA homolog 2B (E. coli) 1.21151937 1.370574396 1.413929278 IER3IP1 immediate early response 3 interacting protein 1 1.264841803 1.369977512 1.444638954 TMEM8A transmembrane protein 8A 1.172917502 1.368643523 1.340413403 ERI1 exoribonuclease 1 1.239962407 1.365094042 1.216523282 Page 10 shBRG1-expression

SLC9A6 solute carrier family 9 (sodium/hydrogen exchanger), member 6 1.549662986 1.364260213 1.481108007 ENST00000398305 ENST00000398305 1.28486622 1.364187504 1.177256609 SNAR-H small ILF3/NF90-associated RNA H 1.154629111 1.363751523 1.88295801 SOBP sine oculis binding protein homolog (Drosophila) 1.37804549 1.363514896 1.257918406 FLJ37201 tigger transposable element derived 2 pseudogene 0.965008878 1.362206048 1.372880878 SACM1L SAC1 suppressor of actin mutations 1-like (yeast) 1.266451868 1.361749864 1.196798817 NR6A1 nuclear receptor subfamily 6, group A, member 1 1.887809999 1.360978739 0.951787798 ABCC4 ATP-binding cassette, sub-family C (CFTR/MRP), member 4 1.281421237 1.360839995 1.512666281 ANKRD20A2 hCG2042718; chromosome 21 open reading frame 81; ankyrin repeat domain 1.448074109 1.358689933 1.169260902 ENST00000412019 ENST00000412019 1.271068047 1.357331509 1.566467516 LINGO1 leucine rich repeat and Ig domain containing 1 2.004723881 1.357210443 1.237058402 MFSD1 major facilitator superfamily domain containing 1 1.258742091 1.356298132 1.36816009 MAPK1 mitogen-activated protein kinase 1 1.66851088 1.356060696 1.206579891 GNA13 guanine nucleotide binding protein (G protein), alpha 13 1.403530655 1.355956962 0.979890695 ENST00000521369 ENST00000521369 2.470092241 1.35367499 1.299859937 MMP16 matrix metallopeptidase 16 (membrane-inserted) 2.461044154 1.353148801 1.279748903 FAM134A family with sequence similarity 134, member A 1.346845317 1.35245698 1.291143842 NF1 neurofibromin 1 1.613856133 1.352452558 1.274607692 DENND1B DENN/MADD domain containing 1B 2.139064419 1.352381078 1.137421157 SERPINI1 serpin peptidase inhibitor, clade I (neuroserpin), member 1 2.759293368 1.350745899 1.869188791 ANKRD46 ankyrin repeat domain 46 1.494702265 1.348765283 1.151910599 PITPNM2 phosphatidylinositol transfer protein, membrane-associated 2 1.188303332 1.345238208 1.817525728 SLCO5A1 solute carrier organic anion transporter family, member 5A1 1.303053897 1.345188054 1.543372513 VPS11 vacuolar protein sorting 11 homolog (S. cerevisiae) 1.227921535 1.343145991 1.495436525 ZNF498 zinc finger protein 498 1.256813981 1.342243801 1.064691568 TESK2 testis-specific kinase 2 1.319624473 1.340529761 1.102108244 CORO1B coronin, actin binding protein, 1B 1.089820436 1.338196632 1.663267476 ACADM acyl-Coenzyme A dehydrogenase, C-4 to C-12 straight chain 1.313172836 1.338110114 1.167238511 RABGAP1L RAB GTPase activating protein 1-like 1.708940354 1.336080912 1.182195998 ENTPD4 ectonucleoside triphosphate diphosphohydrolase 4 1.14914204 1.335893707 1.050665028 TMEM60 transmembrane protein 60 1.293452093 1.335197192 1.171057725 ETFB electron-transfer-flavoprotein, beta polypeptide 2.27244001 1.334835568 1.264850469 CCDC48 coiled-coil domain containing 48 1.383797381 1.334802144 1.10343948 EIF2C1 eukaryotic translation initiation factor 2C, 1 1.642691599 1.33467162 1.31984076 Page 11 shBRG1-expression

IFI27 interferon, alpha-inducible protein 27 1.369044781 1.334025326 1.144465714 ATCAY ataxia, cerebellar, Cayman type 1.194121508 1.333399601 1.225029922 SNORD116-6 small nucleolar RNA, C/D box 116-4; small nucleolar RNA, C/D box 116-3; sm 1.578271916 1.333093511 1.156011077 LOC645249 hypothetical protein LOC645249 2.073739397 1.33280316 1.270981541 SGOL1 shugoshin-like 1 (S. pombe) 1.692638695 1.332053175 1.167140518 MND1 meiotic nuclear divisions 1 homolog (S. cerevisiae) 1.263089445 1.331636513 1.432804954 RAB21 RAB21, member RAS oncogene family 1.181546369 1.330976265 1.252484368 C20orf141 chromosome 20 open reading frame 141 1.75407135 1.330919962 1.160110872 GBP6 guanylate binding protein family, member 6 2.641529302 1.33022281 1.360487947 ETNK1 ethanolamine kinase 1 1.774455091 1.329840284 1.307775313 LOC729444 hypothetical LOC729444 1.103875019 1.326367762 1.25342725 LOC100128226 hypothetic protein 1.260681836 1.324540114 1.179942 SNORA31 small nucleolar RNA, H/ACA box 31 1.368526194 1.323515182 1.946950374 SVIP small VCP/p97-interacting protein 1.372271171 1.323240806 1.289494485 LAMA4 laminin, alpha 4 1.05770463 1.322914479 1.462043143 STARD3NL STARD3 N-terminal like 1.187239794 1.322063244 1.191568423 TMEM167B transmembrane protein 167B 1.632533112 1.320846493 1.303453081 SETD8 SET domain containing (lysine methyltransferase) 8 1.232276375 1.32014702 1.180045899 GPATCH3 G patch domain containing 3 1.098362791 1.319224739 1.503214301 RBM19 RNA binding motif protein 19 1.309782316 1.317853325 1.469548608 UHMK1 U2AF homology motif (UHM) kinase 1 1.392993476 1.316829272 1.526521891 DLK2 delta-like 2 homolog (Drosophila) 2.655454986 1.316320906 1.239280744 SCN8A sodium channel, voltage gated, type VIII, alpha subunit 1.148602618 1.31578552 1.029551345 SEC24A SEC24 family, member A (S. cerevisiae) 1.26325528 1.315462465 1.543267373 RAB3IP RAB3A interacting protein (rabin3) 1.985243363 1.315046313 0.965030046 TUBGCP3 tubulin, gamma complex associated protein 3 1.308385795 1.313718766 1.03401097 SNORD116-19 small nucleolar RNA, C/D box 116-4; small nucleolar RNA, C/D box 116-3; sm 1.43870523 1.312331553 1.102838554 DSCC1 defective in sister chromatid cohesion 1 homolog (S. cerevisiae) 1.320083917 1.31050876 1.182850067 VAMP2 vesicle-associated membrane protein 2 (synaptobrevin 2) 1.165023984 1.308124319 1.004970023 BLCAP bladder cancer associated protein 1.319613071 1.306218578 1.369263985 LOC728339 hypothetical protein LOC728339 1.490059417 1.305741634 1.273174622 RASEF RAS and EF-hand domain containing 1.124325618 1.305712161 1.073836187 ENST00000375678 ENST00000375678 2.79805343 1.304629792 1.635548935 ENST00000456460 ENST00000456460 1.198829413 1.304064255 1.230524721 Page 12 shBRG1-expression

GIT2 G protein-coupled receptor kinase interacting ArfGAP 2 1.135206832 1.30339202 1.380403479 HUS1B HUS1 checkpoint homolog b (S. pombe) 1.249061506 1.302313625 1.189911312 EGR1 early growth response 1 1.370008215 1.30137273 1.538405993 UHRF2 ubiquitin-like with PHD and ring finger domains 2 1.245400464 1.301211265 1.265984688 KIF4A kinesin family member 4B; kinesin family member 4A 1.448068639 1.300811929 1.260606924 UGP2 UDP-glucose pyrophosphorylase 2 1.239970093 1.299959482 1.354744135 AGPAT6 1-acylglycerol-3-phosphate O-acyltransferase 6 ( acyltra 1.385729199 1.29834931 1.598562808 GNAT1 guanine nucleotide binding protein (G protein), alpha transducing activity poly 1.13814641 1.297868842 1.17333568 PIP4K2A phosphatidylinositol-5-phosphate 4-kinase, type II, alpha 1.532074637 1.296541207 1.274093028 PANX1 pannexin 1 1.314471219 1.295363073 1.514707593 ANKMY2 ankyrin repeat and MYND domain containing 2 1.245894701 1.294367403 1.127657281 LRCH1 leucine-rich repeats and calponin homology (CH) domain containing 1 1.158485125 1.293806072 1.063744068 C2orf69 chromosome 2 open reading frame 69 1.795820575 1.293705706 1.584841544 LOC100506798 LOC100506798 1.353717706 1.292717204 1.329433222 LAMP3 lysosomal-associated membrane protein 3 1.62244965 1.290631338 1.256630258 CBX7 chromobox homolog 7 1.243034415 1.289941207 1.140662602 ENST00000318291 ENST00000318291 1.132486392 1.286205583 1.183367532 ZNF256 zinc finger protein 256 1.421833615 1.284705577 1.244324985 SERP1 stress-associated protein 1 1.163574481 1.284359796 1.427296038 ARPC5 actin related protein 2/3 complex, subunit 5, 16kDa 0.939796381 1.284318785 0.889962856 SLC48A1 solute carrier family 48 (heme transporter), member 1 1.005698247 1.283901742 1.10029158 RACGAP1 Rac GTPase activating protein 1 pseudogene; Rac GTPase .260519238 1.283825106 1.303081305 DPH3P1 diphthamide biosynthesis 3 pseudogene 1 1.856340413 1.282711029 1.710352899 ZNF488 zinc finger protein 488 1.113307383 1.281496353 1.229163054 TNF tumor necrosis factor (TNF superfamily, member 2) 1.187668764 1.281098263 1.155632773 DAZAP2 DAZ associated protein 2 1.41790357 1.279335635 1.534133352 AGPAT9 1-acylglycerol-3-phosphate O-acyltransferase 9 1.993024999 1.27881618 3.992273387 TLE1 similar to transducin-like enhancer of split 1 (E(sp1) homolog, Drosophila); tra 1.750347768 1.27818141 1.206147819 PTGR2 prostaglandin reductase 2 1.250016619 1.277413419 1.150115204 DPM1 dolichyl-phosphate mannosyltransferase polypeptide 1, catalytic subunit 1.19763698 1.277148159 1.443766267 CHPT1 choline phosphotransferase 1 1.518785023 1.275819076 1.283863213 TPK1 thiamin pyrophosphokinase 1 1.518749095 1.275218021 1.385611179 RNASET2 ribonuclease T2 1.18473413 1.273703627 1.361523256 POC1B WD repeat domain 51B 1.550580397 1.272431988 0.983040754 Page 13 shBRG1-expression

CACNA2D1 , voltage-dependent, alpha 2/delta subunit 1 1.240858784 1.272279894 1.051834692 TMEM229B chromosome 14 open reading frame 83 1.142922132 1.271837777 1.017143654 MBTPS2 membrane-bound transcription factor peptidase, site 2 1.567609743 1.271349688 1.457277238 COX10 COX10 homolog, cytochrome c oxidase assembly protein, heme A: farnesyltr 1.219063819 1.270858193 1.391081153 CABYR calcium binding tyrosine-(Y)- regulated 1.331205337 1.269952361 1.196842802 SMS spermine synthase; similar to spermine synthase 1.219893855 1.268857125 1.020797047 RIN1 Ras and Rab interactor 1 1.387783404 1.268296371 1.280558276 KIAA1875 KIAA1875 2.959507669 1.268230128 1.371182407 MON2 MON2 homolog (S. cerevisiae) 1.447831922 1.268125182 1.184610169 L3MBTL2 l(3)mbt-like 2 (Drosophila) 1.426001988 1.264034495 1.350487015 SLC10A3 solute carrier family 10 (sodium/bile acid cotransporter family), member 3 1.440748785 1.263815368 1.667080094 PRDX1 peroxiredoxin 1 1.096808089 1.263689695 1.3633022 TEX15 testis expressed 15 1.123807567 1.263115313 1.016427074 UEVLD UEV and lactate/malate dehyrogenase domains 1.076212812 1.26294931 1.276138552 B4GALNT1 beta-1,4-N-acetyl-galactosaminyl transferase 1 1.81314886 1.262684538 1.396148804 YWHAZ tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, z 1.640617861 1.262221609 1.227562468 OMA1 OMA1 homolog, zinc metallopeptidase (S. cerevisiae) 1.542856828 1.262043948 1.251218048 TMEM167A similar to transmembrane protein 167A; transmembrane protein 167A 1.313573767 1.261194277 1.571020344 ETFDH electron-transferring-flavoprotein dehydrogenase 1.72287169 1.260965968 1.29133481 CALM3 calmodulin 3 (phosphorylase kinase, delta); calmodulin 2 (phosphorylase kina 1.667483393 1.260895244 1.65044485 PCDH9 protocadherin 9 1.588433298 1.26079577 1.027513858 PRIM1 primase, DNA, polypeptide 1 (49kDa) 1.261092045 1.260651592 1.068599384 EGFEM1P EGF-like and EMI domain containing 1, pseudogene 1.479740074 1.260535128 1.169184182 NOVA1 neuro-oncological ventral antigen 1 3.128299056 1.260481317 0.950138286 BRMS1 breast cancer metastasis suppressor 1 1.181073428 1.260265599 1.935186348 RAB11FIP3 RAB11 family interacting protein 3 (class II) 1.42035011 1.259266019 1.262557176 BCL2L11 BCL2-like 11 (apoptosis facilitator) 1.221827582 1.259013187 1.286575662 GPRC5B G protein-coupled receptor, family C, group 5, member B 1.205034767 1.258796932 1.393351464 ARID4A AT rich interactive domain 4A (RBP1-like) 1.525706214 1.258373207 1.240453391 PLIN2 adipose differentiation-related protein 1.304072215 1.258350133 1.007971593 SLC7A5P1 solute carrier family 7 (cationic amino acid transporter, y+ system), member 5 1.332019522 1.258235043 1.405745332 GPR158 G protein-coupled receptor 158 1.141428112 1.257754534 1.190484435 COX6B2 cytochrome c oxidase subunit VIb polypeptide 2 (testis) 2.849054139 1.257335475 1.355532151 CHN2 chimerin (chimaerin) 2 1.355460478 1.254244923 1.180577311 Page 14 shBRG1-expression

BCL2L13 BCL2-like 13 (apoptosis facilitator) 1.179613056 1.251961972 1.070152192 RRAGD Ras-related GTP binding D 1.565898535 1.251470894 1.197800565 RFPL4A similar to Ret finger protein-like 4A; ret finger protein-like 4A 1.180100849 1.249901638 3.14512819 DNAJC9 DnaJ (Hsp40) homolog, subfamily C, member 9 1.099225813 1.247681826 1.148526653 ANKRD18B ankyrin repeat domain 18B 1.341110954 1.245380132 1.048539867 NEK7 NIMA (never in mitosis gene a)-related kinase 7 1.439983332 1.244666445 1.221538178 TOR1AIP1 torsin A interacting protein 1 1.429984672 1.244102248 1.267948155 CCDC148 coiled-coil domain containing 148 1.479583356 1.243971929 1.171903465 PHF20L1 PHD finger protein 20-like 1 1.054576835 1.243756021 1.036772102 C1orf213 chromosome 1 open reading frame 213 1.05440855 1.23707644 0.994255852 MAGT1 transporter 1 1.049339192 1.232585312 1.443924324 RAF1 v-raf-1 murine leukemia viral oncogene homolog 1 1.245311046 1.229780926 1.113743481 ZNF713 zinc finger protein 713 2.00610716 1.229680873 1.384586709 CAV1 caveolin 1, caveolae protein, 22kDa 1.000963696 1.229019258 1.131214055 RFT1 RFT1 homolog (S. cerevisiae) 0.993922172 1.227925931 0.950904037 HEBP1 heme binding protein 1 1.593218035 1.222301727 1.012959786 SLC20A2 solute carrier family 20 (phosphate transporter), member 2 1.4352001 1.213986342 1.180584431 USP32 similar to TBC1 domain family, member 3; ubiquitin specific peptidase 32 1.397821976 1.211879664 1.153504033 MYO1B myosin IB 1.21098348 1.211200874 1.342037979 USP1 ubiquitin specific peptidase 1 1.586726304 1.210177848 1.059106869 C2orf29 chromosome 2 open reading frame 29 1.241957652 1.209216577 1.280944948 SPTY2D1 SPT2, Suppressor of Ty, domain containing 1 (S. cerevisiae) 1.063883163 1.20782124 1.224232584 COL19A1 collagen, type XIX, alpha 1 1.093209948 1.206471545 1.157788836 PCSK5 proprotein convertase subtilisin/kexin type 5 1.4424229 1.20608398 1.31194872 TPD52L1 tumor protein D52-like 1 1.201897959 1.200156017 1.181995947 COMMD6 COMM domain containing 6 1.377602461 1.198054878 1.337134417 HIST1H2AC histone cluster 1, H2ac 0.901307188 1.195645174 1.173572363 GSR glutathione reductase 1.25381255 1.193360839 1.358643765 DBF4 DBF4 homolog (S. cerevisiae) 1.30315912 1.192477232 1.120464404 ANKRD19P ankyrin repeat domain 19P 0.892136664 1.190662022 1.73547932 ANKZF1 ankyrin repeat and zinc finger domain containing 1 1.161482767 1.185173876 1.124795714 DDX18 DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 1.245916535 1.183723251 1.237622422 VTI1A vesicle transport through interaction with t-SNAREs homolog 1A (yeast) 1.306324393 1.179692335 1.15945062 FANCD2 Fanconi anemia, complementation group D2 1.101141391 1.176751765 1.009699054 Page 15 shBRG1-expression

USP31 ubiquitin specific peptidase 31 1.088495289 1.170358316 1.079726685 DIP2C DIP2 disco-interacting protein 2 homolog C (Drosophila) 1.381164589 1.152258408 1.239606623 ACSBG1 acyl-CoA synthetase bubblegum family member 1 1.037816318 1.147239507 1.257546437 RASSF2 Ras association (RalGDS/AF-6) domain family member 2 1.440698133 1.117003056 1.098989504 SGPP2 sphingosine-1-phosphate phosphotase 2 0.933264885 1.114760982 0.952014549 FAM36A family with sequence similarity 36, member A 1.416676558 1.104421832 0.873695163 ANKRD20A9P ankyrin repeat domain 20 family, member A9, pseudogene (ANKRD20A9P), n 1.193871238 1.102473013 1.268130579 C20orf26 chromosome 20 open reading frame 26 1.014915737 1.102023645 1.134942242 LOC731275 hypothetical LOC731275 1.383463853 1.093204867 1.135540069 SUFU suppressor of fused homolog (Drosophila) 1.283010401 1.071189887 1.221969102 DGKA diacylglycerol kinase, alpha 80kDa 0.990487764 1.070869713 0.887831879 HBS1L HBS1-like (S. cerevisiae) 1.068005231 1.067971971 1.196014502 CYHR1 cysteine/histidine-rich 1 1.50699578 1.059760838 1.567023539 psiTPTE22 TPTE pseudogene 1.146705342 1.02235529 1.040460046 SNX10 sorting nexin 10 1.147925649 1.003562885 0.931791524 CAMTA1 calmodulin binding transcription activator 1 0.998835955 0.99970113 0.774759591 NPL N-acetylneuraminate pyruvate lyase (dihydrodipicolinate synthase) 0.967812942 0.999387703 0.982081215 FAM118A family with sequence similarity 118, member A 0.981480239 0.97547267 1.022366609 C1orf86 chromosome 1 open reading frame 86 1.109846971 0.972193359 0.976793533 TET1 tet oncogene 1 1.132819248 0.969286826 0.828287231 AGBL4 ATP/GTP binding protein-like 4 0.945688683 0.951612758 0.896672307 PLCB1 phospholipase C, beta 1 (phosphoinositide-specific) 0.664805159 0.946562026 0.782611472 RABGAP1 RAB GTPase activating protein 1 1.17399294 0.935478192 0.976455101 H3F3B H3 histone, family 3B (H3.3B); H3 histone, family 3A pseudogene; H3 histone 0.518765098 0.933521548 0.63696806 RBM43 RNA binding motif protein 43 0.84616091 0.925462829 0.848008602 SREBF1 sterol regulatory element binding transcription factor 1 0.718007187 0.924431733 0.633047428 ZNF865 zinc finger protein 865 0.853310904 0.922874577 0.925837696 SCLY selenocysteine lyase 1.053319112 0.922399314 0.93270303 LOC100506190 LOC100506190 0.747306699 0.918773662 0.552127105 PRIC285 peroxisomal proliferator-activated receptor A interacting complex 285 0.588274091 0.901983424 0.899902353 LOC442132 similar to hypothetical protein FLJ36144 0.6057353 0.89939352 0.773770004 LOC285889 hypothetical protein LOC285889 0.865174761 0.892365 0.922047761 GSG1 germ cell associated 1 0.989154604 0.889375938 0.818339457 C2orf48 chromosome 2 open reading frame 48 0.69281726 0.886912908 0.542364137 Page 16 shBRG1-expression

NHS Nance-Horan syndrome (congenital cataracts and dental anomalies) 0.563012117 0.886396365 1.022730344 TOM1L2 target of myb1-like 2 (chicken) 0.628258309 0.882432554 0.872634156 CITED2 Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal doma 1.03407886 0.879977724 0.804215918 SLMAP sarcolemma associated protein 0.809885639 0.878433896 0.839755059 EPHA3 EPH receptor A3 0.64177754 0.87617793 0.929035785 MTL5 metallothionein-like 5, testis-specific (tesmin) 0.802528655 0.873043807 0.848792855 RPRD1A regulation of nuclear pre-mRNA domain containing 1A 1.004235778 0.872611884 0.773634304 LOC100128402 hypothetical protein LOC100128402 0.712806142 0.871015072 0.766425415 LOC100507547 LOC100507547 0.607271577 0.869992749 1.073322947 NFIA /A 0.87974634 0.868592086 0.73250226 RELL1 RELT-like 1 0.543462842 0.865683402 0.59777931 CDH6 cadherin 6, type 2, K-cadherin (fetal ) 0.828945977 0.865678133 0.73120419 ALPK1 alpha-kinase 1 0.750378427 0.864814243 0.915290312 CST3 cystatin C 0.5131031 0.86474278 0.701310573 CASZ1 castor zinc finger 1 0.979479959 0.864104857 0.774572511 RASSF4 Ras association (RalGDS/AF-6) domain family member 4 0.643062515 0.857956861 0.811604144 CDKAL1 CDK5 regulatory subunit associated protein 1-like 1 1.10555575 0.856765465 0.811691818 F7 coagulation factor VII (serum prothrombin conversion accelerator) 0.741679011 0.856134932 1.014753552 HSPG2 heparan sulfate proteoglycan 2 0.726756685 0.854589939 0.947487178 CTNNA2 catenin (cadherin-associated protein), alpha 2 1.019748515 0.854022089 0.828515731 JPH4 junctophilin 4 1.043004529 0.852846671 0.790882698 IGF2-AS IGF2 antisense RNA 0.634275338 0.852576315 0.911586275 IL18 interleukin 18 (interferon-gamma-inducing factor) 0.893446663 0.846980787 0.964808539 BET3L BET3 like (S. cerevisiae) 0.788501954 0.846183947 0.823378906 HLA-F major histocompatibility complex, class I, F 0.691294509 0.843189316 0.853365795 COL9A2 collagen, type IX, alpha 2 0.672056697 0.841744858 0.785186083 UBE2I ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) 0.754444646 0.840443169 0.956965331 FAM125B family with sequence similarity 125, member B 0.707995913 0.83973132 0.89956005 CD81 CD81 molecule 0.701222015 0.839712464 0.868142745 THBS4 thrombospondin 4 0.498360018 0.839047521 1.004105025 TRIM46 tripartite motif-containing 46 0.804387205 0.833770598 0.730321522 DNAJC21 DnaJ (Hsp40) homolog, subfamily C, member 21 0.664697913 0.833593578 0.837659577 PLEKHG5 pleckstrin homology domain containing, family G (with RhoGef domain) memb 1.018889475 0.829920265 0.865735983 TTL tubulin tyrosine ligase 0.963615212 0.829268879 0.909266586 Page 17 shBRG1-expression

NELL1 NEL-like 1 (chicken) 0.711053171 0.826937783 0.86413313 MSH6 mutS homolog 6 (E. coli) 0.941681573 0.826670367 0.827561099 OLFM1 olfactomedin 1 0.97364466 0.82531496 1.14925511 LSP1 lymphocyte-specific protein 1 0.524147452 0.824192133 0.648217421 SNCAIP synuclein, alpha interacting protein 0.761475537 0.82213951 0.808564742 LOC100131581 hypothetical LOC100131581 0.893715796 0.821422351 0.888073729 GJD4 , delta 4, 40.1kDa 0.686543892 0.819786792 0.878649567 ZBTB8B zinc finger and BTB domain containing 8B 0.632772164 0.812791239 1.036357055 KIAA1199 KIAA1199 0.564119193 0.812630263 0.915300923 C6orf124 chromosome 6 open reading frame 124 1.115278196 0.812171448 0.820831351 RBM44 RNA binding motif protein 44 0.795499564 0.81195311 0.729487865 CA5B inactivation escape 2 (non-protein coding); carbonic anhydrase VB, mitochon 0.964607528 0.810995684 0.825724052 SEMA6C sema domain, transmembrane domain (TM), and cytoplasmic domain, (sema 1.004627135 0.810270641 0.921834169 C16orf72 chromosome 16 open reading frame 72 0.91967515 0.809065058 0.917026415 XPR1 xenotropic and polytropic retrovirus receptor 0.898209698 0.808964341 0.808416218 FKBP9 FK506 binding protein 9, 63 kDa 0.892383384 0.808847969 0.813245058 ABCA1 ATP-binding cassette, sub-family A (ABC1), member 1 0.883412633 0.808272194 0.436044752 LOC100505768 LOC100505768 0.872160815 0.806442743 0.870591298 TPTE transmembrane phosphatase with tensin homology 0.896954152 0.805999222 0.940241027 LINC00087 LINC00087 0.972329253 0.805123951 0.895569993 PNMAL2 PNMA-like 2 0.857320861 0.804252962 0.959948335 B3GNT8 UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 8 0.299524296 0.802917409 0.943315133 KCNE2 potassium voltage-gated channel, Isk-related family, member 2 0.789580801 0.801007998 0.827902201 NUDT8 nudix (nucleoside diphosphate linked moiety X)-type motif 8 0.979046128 0.800683061 0.890606091 DIO2 deiodinase, iodothyronine, type II 0.94678765 0.799500362 0.687606722 IL6ST interleukin 6 signal transducer (gp130, oncostatin M receptor) 0.817419482 0.797695855 0.973557076 KIAA1644 KIAA1644 0.575653492 0.797217499 0.888641981 SELT selenoprotein T; similar to Selenoprotein T 0.574892153 0.797093066 0.846108676 DAAM2 dishevelled associated activator of morphogenesis 2 0.835022821 0.796714336 0.623667796 SETBP1 SET binding protein 1 0.944722885 0.79570476 0.721214092 SRRM3 hypothetical protein FLJ37078 1.082468554 0.794813346 0.951952725 ZSCAN18 zinc finger and SCAN domain containing 18 0.687515223 0.794760384 0.669081606 MACROD2 MACRO domain containing 2 1.081949102 0.794380968 0.873595776 NCALD neurocalcin delta 0.572778452 0.793815457 0.674377848 Page 18 shBRG1-expression

RPS6KL1 ribosomal protein S6 kinase-like 1 1.046103033 0.793460286 0.727461041 ERBB3 v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian) 0.881392151 0.790601002 0.839148683 AZGP1 alpha-2-glycoprotein 1, zinc-binding pseudogene 1; alpha-2-glycoprotein 1, zi 0.868674761 0.789025494 0.972569481 SUSD4 sushi domain containing 4 0.843372423 0.786445804 1.048661502 SLC2A1 solute carrier family 2 (facilitated glucose transporter), member 1 0.620661414 0.784582306 0.780506139 PLIN3 mannose-6-phosphate receptor binding protein 1 1.007998284 0.782357782 0.701920821 FLJ37644 hypothetical gene supported by AK094963 1.047861541 0.782077557 0.803794591 PHF21B PHD finger protein 21B 0.880433717 0.781380538 0.866952677 LOC100505663 LOC100505663 0.921415709 0.779559078 0.890531209 SPSB1 splA/ryanodine receptor domain and SOCS box containing 1 0.818681737 0.779158712 1.021506944 GLT25D2 glycosyltransferase 25 domain containing 2 0.574790943 0.777366585 0.849765192 LFNG LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase 0.589908724 0.77685032 0.794827744 GPRC5C G protein-coupled receptor, family C, group 5, member C 0.506280022 0.776020594 0.667022619 GTF2I general transcription factor II, i; general transcription factor II, i, pseudogene 0.96378564 0.775408341 0.741373099 LOC100130027 hypothetical protein LOC100130027 0.688018231 0.774824293 0.688844879 DDIT4 DNA-damage-inducible transcript 4 0.584316547 0.77455913 0.409229619 UQCR10 ubiquinol-cytochrome c reductase complex (7.2 kD) 0.751520618 0.774014277 1.023918513 C9orf169 chromosome 9 open reading frame 169 0.714933054 0.773674546 0.649416267 LOC100506334 LOC100506334 0.809891092 0.772308425 0.937504895 ZNF850 zinc finger protein 850 1.039553515 0.772194118 1.118313233 ASPH aspartate beta-hydroxylase 1.027370074 0.769898274 0.931541237 TH tyrosine hydroxylase 0.840163154 0.769730823 0.582059794 COL12A1 collagen, type XII, alpha 1 0.823899814 0.769340713 0.493102654 ZFP36L1 zinc finger protein 36, C3H type-like 1 1.042356245 0.768760004 1.038625474 FAM120A family with sequence similarity 120A 0.849145608 0.767285679 0.973455543 SLC36A4 solute carrier family 36 (proton/amino acid symporter), member 4 0.825824329 0.766781968 0.701798362 SYNJ2 synaptojanin 2 0.710177917 0.766261911 0.901649963 FAAH2 fatty acid amide hydrolase 2 0.797932157 0.76485394 0.842185665 LRRC3 leucine rich repeat containing 3 0.752777554 0.76480878 0.915236341 PRKCD protein kinase C, delta 0.708174661 0.763642909 0.803587597 PPARD peroxisome proliferator-activated receptor delta 0.67406942 0.763422736 0.851764917 SMC2 structural maintenance of chromosomes 2 0.563965641 0.763385819 0.853343953 ATP13A2 ATPase type 13A2 0.836875874 0.763163091 0.890122955 MZT2A mitotic spindle organizing protein 2A 0.789820627 0.762992499 0.659092009 Page 19 shBRG1-expression

PLEKHG2 pleckstrin homology domain containing, family G (with RhoGef domain) memb 1.003220981 0.761787398 0.748427331 BMF Bcl2 modifying factor 0.893122507 0.760955416 0.636573941 PDCL phosducin-like 0.835929587 0.759428979 0.852601586 KIAA1324 KIAA1324 0.456726401 0.758592299 0.610197061 INF2 inverted formin, FH2 and WH2 domain containing 0.481950935 0.758359916 0.687185617 CHAF1B chromatin assembly factor 1, subunit B (p60) 0.577964198 0.757968117 0.730891457 CD44 CD44 molecule (Indian blood group) 1.075023991 0.757632423 0.634740483 LRRC6 leucine rich repeat containing 6 0.590128933 0.755172884 0.996082048 SEC14L2 SEC14-like 2 (S. cerevisiae) 0.83927111 0.754949976 0.836148384 BIVM basic, immunoglobulin-like variable motif containing 0.952486156 0.754324747 0.577455485 FOXA1 forkhead box A1 0.535880201 0.754300123 0.570787476 UBE2Q2P2 hypothetical LOC100134869 1.20037136 0.754141532 0.915047106 FAM183A family with sequence similarity 183, member A 0.725636866 0.753879105 0.760987362 C9orf171 chromosome 9 open reading frame 171 1.026164262 0.753364305 0.795498261 RUNDC3B RUN domain containing 3B 0.706759983 0.753149532 0.726265488 ILDR1 immunoglobulin-like domain containing receptor 1 0.520880761 0.75259942 0.755446321 LOC100506342 LOC100506342 0.799847064 0.752475584 0.83399255 STRA6 stimulated by retinoic acid gene 6 homolog (mouse) 0.933909171 0.751542403 0.428867053 HLA-A major histocompatibility complex, class I, A 0.575625981 0.750391935 0.886649546 IDS iduronate 2-sulfatase 0.514230332 0.750171504 1.040280689 LOC100652751 LOC100652751 0.775501813 0.749957479 0.51663071 CNOT1 CCR4-NOT transcription complex, subunit 1 0.563176186 0.749585561 0.764618811 LOC100506922 LOC100506922 0.863268467 0.749546955 0.833466293 E2F transcription factor 5, p130-binding 0.775321361 0.749420082 0.72448093 GDAP1L1 ganglioside-induced differentiation-associated protein 1-like 1 0.462781082 0.749335548 0.953341695 EPB41L4B erythrocyte membrane protein band 4.1 like 4B 0.782320466 0.749217673 0.620059646 ZCCHC11 zinc finger, CCHC domain containing 11 0.939194605 0.748853256 0.914112536 LIMK2 LIM domain kinase 2 0.618011106 0.748661902 0.993777163 IMPDH1 IMP (inosine monophosphate) dehydrogenase 1 0.544247806 0.747105953 0.687797563 SYNGR4 synaptogyrin 4 0.829918757 0.746873479 0.444330882 KCNMB2 potassium large conductance calcium-activated channel, subfamily M, beta m 0.613064783 0.746744052 0.822655437 C3orf62 chromosome 3 open reading frame 62 0.71176017 0.745821505 0.892579894 RAB3A RAB3A, member RAS oncogene family 0.77240775 0.745770931 0.670370664 DPYSL4 dihydropyrimidinase-like 4 0.610450708 0.745750962 0.908827978 Page 20 shBRG1-expression

LOC100129387 hypothetical LOC100129387 0.608399723 0.745164782 0.761998102 ENST00000400508 ENST00000400508 0.441920089 0.745075408 0.742009301 MGLL monoglyceride lipase 0.166121153 0.745006162 0.67146294 PTPRS protein tyrosine phosphatase, receptor type, S 0.86665806 0.744795859 0.755219079 MLXIP MLX interacting protein 0.877216661 0.741987037 0.813669692 FKTN fukutin 0.727487489 0.741224304 0.854301951 RIMS4 regulating synaptic membrane exocytosis 4 0.667853116 0.74044033 0.471998517 RBM38 RNA binding motif protein 38 0.615843936 0.740436624 0.892009051 TMSB4X thymosin-like 2 (pseudogene); thymosin-like 1 (pseudogene); thymosin beta 4 0.763772832 0.740297376 0.814341333 GINS2 GINS complex subunit 2 (Psf2 homolog) 0.885029928 0.740193229 0.767862447 IGSF9B immunoglobulin superfamily, member 9B 0.823754094 0.739347412 0.810364898 LOC100652866 LOC100652866 0.484685012 0.739221312 0.597002177 GTF2IRD1 GTF2I repeat domain containing 1 0.769017826 0.737651392 0.79512237 DPYSL5 dihydropyrimidinase-like 5 0.841316351 0.737603513 0.75049544 APOL4 apolipoprotein L, 4 0.834054913 0.737196674 0.811031618 RILPL2 Rab interacting lysosomal protein-like 2 0.654566519 0.737039427 0.872148717 SIX5 SIX homeobox 5 0.476501681 0.736706939 0.772350543 SLC16A11 solute carrier family 16, member 11 (monocarboxylic acid transporter 11) 0.663881282 0.736585722 0.744108901 ERVFRD-2 endogenous retrovirus group FRD, member 2 0.517364685 0.736494043 0.82020716 REEP6 receptor accessory protein 6 0.523337734 0.73632033 0.853412276 ZNF763 zinc finger protein 763 0.466262392 0.736068698 0.729007158 PKNOX2 PBX/knotted 1 homeobox 2 0.851309674 0.735473004 0.885523735 STC2 stanniocalcin 2 0.497893251 0.735130563 0.407902371 ZNF347 zinc finger protein 347 0.362861213 0.734955825 0.867521211 DRAM1 DNA-damage regulated autophagy modulator 1 0.541758428 0.734406391 0.485554529 EFNB1 ephrin-B1 0.468041725 0.734344668 0.859188414 SMO homolog (Drosophila) 0.67005819 0.734135259 0.505843934 DSEL dermatan sulfate epimerase-like 0.679645795 0.733959338 0.843515091 LOC100507131 LOC100507131 0.456513423 0.733762781 0.593743556 RBFOX3 RNA binding protein, fox-1 homolog (C. elegans) 3 1.010814958 0.73236575 1.043347824 GRP gastrin-releasing peptide 0.143973575 0.732056081 0.372028014 PCOLCE procollagen C-endopeptidase enhancer 0.724988766 0.731296484 0.496228044 DDR1 discoidin domain receptor tyrosine kinase 1 0.569464205 0.731077681 0.659463636 SLC4A11 solute carrier family 4, sodium borate transporter, member 11 0.339330262 0.730679923 0.353648757 Page 21 shBRG1-expression

AF339771 AF339771 0.711952986 0.729661117 0.757300807 GPR98 G protein-coupled receptor 98 0.238603249 0.729477907 0.631572612 SLC26A6 solute carrier family 26, member 6; cadherin, EGF LAG seven-pass G-type re 0.826985946 0.729384904 0.769688737 KRBA2 KRAB-A domain containing 2 0.547980516 0.728668063 0.781663181 LMBR1 limb region 1 homolog (mouse) 0.87583559 0.728549958 0.840246237 LRRIQ1 leucine-rich repeats and IQ motif containing 1 0.663459548 0.728307916 0.79320557 MAP4K4 mitogen-activated protein kinase kinase kinase kinase 4 0.567601702 0.728185437 0.600655792 CCR6 cyclin L2; chemokine (C-C motif) receptor 6 0.471438929 0.727328515 0.791394692 TP53INP1 tumor protein p53 inducible nuclear protein 1 0.894151777 0.726160695 0.743856931 ENAH enabled homolog (Drosophila) 1.571392329 0.725742511 0.754459499 PLEKHH2 pleckstrin homology domain containing, family H (with MyTH4 domain) memb 0.913772612 0.725463874 0.609035046 SH3TC1 SH3 domain and tetratricopeptide repeats 1 0.592367787 0.725003196 0.925292174 ZFP36L2 zinc finger protein 36, C3H type-like 2 0.824265727 0.724780921 0.91079917 TCHHL1 trichohyalin-like 1 0.897083363 0.723380216 0.972178611 ROBO2 roundabout, axon guidance receptor, homolog 2 (Drosophila) 0.976202523 0.721936608 0.883620713 GLDC glycine dehydrogenase (decarboxylating) 0.508831406 0.721810905 0.699701515 PLCL1 phospholipase C-like 1 0.744274712 0.72132148 0.588438238 FXYD3 FXYD domain containing ion transport regulator 3 0.476357072 0.721012589 0.939232332 GPC1 glypican 1 0.700418866 0.72068523 0.819515603 PCMTD2 protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 2 0.631723177 0.719900531 0.740393478 AKR7A3 aldo-keto reductase family 7, member A3 (aflatoxin aldehyde reductase) 0.60619051 0.719362812 0.774704826 OR7G1 , family 7, subfamily G, member 1 0.55215964 0.719189913 0.74463745 VASP vasodilator-stimulated phosphoprotein 0.501558299 0.719118571 0.992067036 TMEM145 transmembrane protein 145 0.889809906 0.718930019 0.483769966 C17orf69 chromosome 17 open reading frame 69 0.873088567 0.718396267 0.7336007 HIP1 huntingtin interacting protein 1 0.627084056 0.717942235 0.641052467 CHRDL1 chordin-like 1 0.838998026 0.717353234 0.915401858 LOC90834 hypothetical protein BC001742 0.574166516 0.716987558 0.816228701 SNX24 sorting nexin 24 0.838682622 0.715873432 0.953608926 CCDC151 coiled-coil domain containing 151 0.716998498 0.715403062 0.897305567 SNX30 sorting nexin family member 30 0.970474883 0.714544583 0.858580559 TMEM98 similar to transmembrane protein 98; transmembrane protein 98 0.763943642 0.714429584 0.800393718 WDR54 WD repeat domain 54 0.513156923 0.713640749 0.651660894 NUCKS1 nuclear casein kinase and cyclin-dependent kinase substrate 1 0.898509717 0.713079137 0.791719345 Page 22 shBRG1-expression

PAOX polyamine oxidase (exo-N4-amino) 0.93477746 0.71174295 0.90528442 ENST00000423809 ENST00000423809 0.813420456 0.710876443 0.681758767 MAK male germ cell-associated kinase 0.56022654 0.710345899 0.87608085 FHAD1 forkhead-associated (FHA) phosphopeptide binding domain 1 0.757449363 0.70942122 0.830432304 LOC202781 hypothetical protein LOC202781 0.669576102 0.708168896 0.774237745 BBX bobby sox homolog (Drosophila) 0.774806519 0.70725124 0.738947567 C8orf44-SGK3 0.313367753 0.706700695 0.600066818 BBIP1 BBSome interacting protein 1 0.729841804 0.706577655 0.875632282 NFYA nuclear transcription factor Y, alpha 1.09568986 0.706081417 0.790424343 TRIM29 tripartite motif-containing 29 0.594982224 0.704792115 0.657737525 PCDHB10 protocadherin beta 10; protocadherin beta 9 0.612913528 0.703812415 0.868440888 ARHGAP35 Rho GTPase activating protein 35 0.495709217 0.703453601 0.783143626 AK7 adenylate kinase 7 0.44070397 0.703240834 0.827009266 VWA2 von Willebrand factor A domain containing 2 0.900978867 0.703016433 0.498802115 MRC2 mannose receptor, C type 2 0.713029483 0.702916102 0.721032705 NFE2L3 nuclear factor (erythroid-derived 2)-like 3 0.770928683 0.702451083 0.690153111 LCN15 lipocalin 15 0.806380824 0.701921163 0.615264167 C1R complement component 1, r subcomponent 0.415176558 0.701704913 0.621786345 HLA-G major histocompatibility complex, class I, G 0.395416219 0.701600715 0.857841224 ATP2A2 ATPase, Ca++ transporting, cardiac muscle, slow twitch 2 0.750146604 0.701108567 0.75835601 GNGT1 guanine nucleotide binding protein (G protein), gamma transducing activity po 0.495100824 0.700373573 0.69642144 SCGN secretagogin, EF-hand calcium binding protein 0.759782702 0.699689533 0.798779348 SLC27A1 solute carrier family 27 (fatty acid transporter), member 1 0.869868669 0.699285536 0.804751088 SLC24A6 solute carrier family 24 (sodium/potassium/calcium exchanger), member 6 0.659282843 0.699202782 0.735507019 ATF5 activating transcription factor 5 0.547863827 0.699139751 0.911326817 GPR171 G protein-coupled receptor 171 0.559357134 0.698498451 0.669445579 LOC100127886 uncharacterized protein PRO0628-like 0.43298034 0.698497319 0.666706231 VANGL2 vang-like 2 (van gogh, Drosophila) 0.722626912 0.698465223 0.710970036 FDFT1 farnesyl-diphosphate farnesyltransferase 1 0.880164166 0.698260858 0.432470125 TBC1D16 TBC1 domain family, member 16 0.84744505 0.698156698 0.71525972 CNTN3 contactin 3 (plasmacytoma associated) 0.392114976 0.697924427 0.65120713 ANKRD45 ankyrin repeat domain 45 0.441620249 0.697692836 0.590969751 C6orf72 chromosome 6 open reading frame 72 0.568150205 0.697253827 0.736225751 LOC100129380 hypothetical protein LOC100129380 0.328926184 0.69678068 0.532011974 Page 23 shBRG1-expression

TSPAN11 tetraspanin 11 0.538153628 0.696614915 0.816160961 ENST00000512874 ENST00000512874 0.645189574 0.696091199 0.701487945 LMO3 LIM domain only 3 (rhombotin-like 2) 0.373272216 0.695354227 0.627250426 SASH1 SAM and SH3 domain containing 1 0.776955419 0.695292463 0.984845406 LOC100506314 LOC100506314 0.791233284 0.694891699 0.836752797 HIST1H4J histone cluster 1, H4l; histone cluster 1, H4k; histone cluster 4, H4; histone clu 0.288666076 0.694679073 0.452444531 FAM155B family with sequence similarity 155, member B 0.82950243 0.691871486 0.631028116 LINC00271 LINC00271 0.795435712 0.691507151 0.702304561 PTPRF protein tyrosine phosphatase, receptor type, F 0.755104465 0.691201287 0.729065947 SHROOM4 shroom family member 4 0.37577678 0.690227478 0.615446974 BACE1 beta-site APP-cleaving enzyme 1 0.783613363 0.690010091 0.869157124 LIMCH1 LIM and calponin homology domains 1 0.495545941 0.689276789 0.835145572 MID1IP1 MID1 interacting protein 1 (gastrulation specific G12 homolog (zebrafish)) 0.516566983 0.688063926 0.500859791 LOC93622 hypothetical LOC93622 0.396819185 0.687726518 0.850361955 LOC100507475 LOC100507475 0.620999015 0.68758193 0.877186154 HEATR5A HEAT repeat containing 5A 0.716960388 0.687383244 1.090206883 GLB1L galactosidase, beta 1-like 0.300551079 0.687370304 0.804211609 ASPHD2 aspartate beta-hydroxylase domain containing 2 0.773260174 0.686304342 0.729350717 GCLM glutamate-cysteine ligase, modifier subunit 0.443431058 0.686150339 0.832797043 PFKM phosphofructokinase, muscle 0.864605118 0.685660744 0.892908864 LOC100128640 hypothetical protein LOC100128640 0.755107517 0.68548498 0.848889881 MTFR1 mitochondrial fission regulator 1 0.760470176 0.685227702 0.873041453 LOC284837 hypothetical LOC284837 0.811064932 0.683760168 0.745523603 FAM167A family with sequence similarity 167, member A 0.714734893 0.682902281 0.816752599 FRS2 fibroblast growth factor receptor substrate 2 0.786831645 0.682264228 0.872343657 RAB18 RAB18, member RAS oncogene family 0.761235503 0.679623729 1.004416657 DBIL5P2 DBIL5P2 diazepam binding inhibitor-like 5 pseudogene 2 0.474119134 0.67882498 0.628943712 ZNF295-AS1 ZNF295 antisense RNA 1 0.333015979 0.678265473 0.891715415 C19orf63 chromosome 19 open reading frame 63 0.66242436 0.677513905 0.958120019 ESRRA estrogen-related receptor alpha 0.326555344 0.677422131 0.809100866 SCARB2 scavenger receptor class B, member 2 0.531820291 0.677411887 0.834368996 FAM83E family with sequence similarity 83, member E 0.383560697 0.677338511 0.861742518 LOC401480 hypothetical LOC401480 0.349640722 0.676598787 0.599567025 NSF N-ethylmaleimide-sensitive factor 0.854238908 0.676102933 1.148429551 Page 24 shBRG1-expression

ARSG arylsulfatase G 0.798976634 0.676064322 0.899503298 DLGAP3 discs, large (Drosophila) homolog-associated protein 3 0.538791203 0.675946595 0.635747946 CST5 cystatin D 0.350285332 0.67558693 0.704033172 LOC100288911 hypothetical protein LOC100288911 0.943258442 0.674719302 0.881831508 SLC1A1 solute carrier family 1 (neuronal/epithelial high affinity glutamate transporter, s 0.755231771 0.673960812 0.588816053 RABEP2 rabaptin, RAB GTPase binding effector protein 2 0.48069612 0.673885701 0.885177711 C1QL2 complement component 1, q subcomponent-like 2 0.593089161 0.673817337 0.692113783 ASGR1 asialoglycoprotein receptor 1 0.708200248 0.673230611 0.650530376 GLRX glutaredoxin (thioltransferase) 0.709360887 0.672922094 0.886980177 FGF12 fibroblast growth factor 12 0.624223903 0.671488722 0.589768371 CNN3 calponin 3, acidic 0.803280629 0.671346283 0.572402339 SLC22A17 solute carrier family 22, member 17 0.850972695 0.670454839 0.885269619 ABHD4 abhydrolase domain containing 4 0.353008605 0.670448591 0.818141662 TPM4 tropomyosin 4 0.986199337 0.669794404 0.881595471 RBPMS RNA binding protein with multiple splicing 0.96020566 0.669543676 0.88706844 C4orf47 chromosome 4 open reading frame 47 0.829387192 0.668644171 0.754673405 SLC37A4 solute carrier family 37 (glucose-6-phosphate transporter), member 4 0.772037795 0.668508189 0.803216327 MAFB v-maf musculoaponeurotic fibrosarcoma oncogene homolog B (avian) 0.40774116 0.668012803 0.599619033 KREMEN1 kringle containing transmembrane protein 1 0.863725708 0.666955292 0.880526628 CORO7 coronin 7 0.819062867 0.666538802 0.733987834 INHBB inhibin, beta B 0.217159443 0.666390939 0.820147219 GANC glucosidase, alpha; neutral C 0.709988335 0.666171339 0.670615912 LRRC8B leucine rich repeat containing 8 family, member B 0.380981487 0.665752009 0.438555832 CRIP1 cysteine-rich protein 1 (intestinal) 0.883703871 0.665539684 0.687689366 GCGR 0.64913416 0.665475693 0.715146108 SCARB1 scavenger receptor class B, member 1 0.314137796 0.665129679 0.648136477 ARHGEF16 Rho guanine exchange factor (GEF) 16 0.415348788 0.665020496 0.865388927 PMF1 bone gamma-carboxyglutamate (gla) protein; polyamine-modulated factor 1 0.337456406 0.664798113 0.681185092 LOC100134868 hypothetical LOC100134868 0.387180192 0.664723402 0.707710774 GNAL guanine nucleotide binding protein (G protein), alpha activating activity polype 0.382357296 0.664676207 0.647165341 LOXL2 lysyl oxidase-like 2 0.928148661 0.664643202 0.445314403 RALGPS2 Ral GEF with PH domain and SH3 binding motif 2 0.591663083 0.663870386 0.858208941 CYB5A cytochrome b5 type A (microsomal) 0.622724943 0.663632051 0.793066837 LGR6 leucine-rich repeat-containing G protein-coupled receptor 6 0.533202746 0.662217863 0.588447332 Page 25 shBRG1-expression

WSCD1 WSC domain containing 1 0.711987446 0.661705563 0.787584719 ETV2 ets variant 2 0.535276506 0.661429886 0.767664426 PRRG4 proline rich Gla (G-carboxyglutamic acid) 4 (transmembrane) 0.713462688 0.661324337 0.732068626 KDM5B similar to Jumonji, AT rich interactive domain 1B (RBP2-like); lysine (K)-speci 0.796992923 0.661122135 0.855360487 LOC100129960 similar to syndecan binding protein 0.70756881 0.660738052 0.777206429 FAT1 FAT tumor suppressor homolog 1 (Drosophila) 0.827622916 0.659770659 0.835586298 SPATA6 spermatogenesis associated 6 0.701284043 0.659361672 0.683033766 ARL4C ADP-ribosylation factor-like 4C 0.893266961 0.659338054 0.893924725 SLC6A9 solute carrier family 6 (neurotransmitter transporter, glycine), member 9 0.550015909 0.658963563 0.770183174 TRAPPC9 trafficking protein particle complex 9 0.827361796 0.658640708 0.672255109 BTBD7 BTB (POZ) domain containing 7 0.758086376 0.657835504 0.92113847 VCX2 variable charge, X-linked 2 0.511371548 0.657492337 0.782052589 C6orf132 chromosome 6 open reading frame 132 0.815712446 0.656285877 0.936990524 LOC100506662 LOC100506662 0.830333463 0.655569483 0.707111903 LOC100128281 hypothetical protein LOC100128281 0.514167243 0.655488067 0.845529049 LOC100170939 glucuronidase, beta pseudogene 0.94765125 0.655363175 0.663059556 PTCH1 patched homolog 1 (Drosophila) 1.477938983 0.655028588 0.894498305 UBE2Q2P3 hypothetical protein LOC100133144 0.527265762 0.654962533 0.578536383 MOSPD3 motile sperm domain containing 3 0.798807578 0.654526332 0.833279125 ZNF426 zinc finger protein 426 0.446804061 0.654414032 0.653070537 LOC100507094 LOC100507094 0.432987138 0.654358114 0.792193203 KLHL5 kelch-like 5 (Drosophila) 0.629437464 0.654153386 0.608238633 AB088847 BPA-1 mRNA for brain peptide A1 0.366636945 0.65275206 0.694692379 THRA , alpha (erythroblastic leukemia viral (v-erb-a) oncog 0.448908417 0.652674488 0.57587342 FLJ37448 hypothetical gene supported by AK094767 0.57261499 0.652453692 0.849147058 ID3 inhibitor of DNA binding 3, dominant negative helix-loop-helix protein 0.436428021 0.651948024 0.830675425 TMPRSS4 transmembrane protease, serine 4 0.391327962 0.651268405 1.02207316 REL v-rel reticuloendotheliosis viral oncogene homolog (avian) 0.830917388 0.651257221 0.73543558 DKFZP564C152 DKFZP564C152 protein 0.797945993 0.650439665 0.71291399 MEGF8 multiple EGF-like-domains 8 0.406221295 0.65032764 0.753298835 LOC100505730 LOC100505730 0.730677069 0.649839565 0.760848525 SMYD3 SET and MYND domain containing 3 0.872877472 0.649346582 0.864354289 FMR1 fragile X mental retardation 1 0.737135891 0.649310559 0.856473054 INPPL1 inositol polyphosphate phosphatase-like 1 0.541387432 0.649071203 0.791843063 Page 26 shBRG1-expression

ICA1 islet cell autoantigen 1, 69kDa 0.903165059 0.648099615 0.828557637 WNK2 WNK lysine deficient protein kinase 2 0.739156909 0.646881856 0.903628315 CCDC23 coiled-coil domain containing 23 0.688703442 0.646649579 0.75129901 ADSSL1 adenylosuccinate synthase like 1 0.12502829 0.64593618 0.511293824 GRIN2C glutamate receptor, ionotropic, N-methyl D-aspartate 2C 0.752433173 0.645567745 1.221862793 GBA3 glucosidase, beta, acid 3 (cytosolic) 0.896256521 0.645461737 0.589132506 CPLX3 complexin 3 0.427527942 0.644809773 0.629349374 CPLX2 complexin 2 0.644860599 0.644055298 0.777779655 DNALI1 dynein, axonemal, light intermediate chain 1 0.340748008 0.643434848 0.776538789 ZNF395 zinc finger protein 395 0.535428904 0.64324708 0.376113955 DHRS11 dehydrogenase/reductase (SDR family) member 11 0.671271662 0.642973743 1.050851728 TMEM80 transmembrane protein 80 0.712093098 0.641443833 0.831311615 TTC25 tetratricopeptide repeat domain 25 0.464088587 0.641121996 0.732288888 FAM92B family with sequence similarity 92, member B 0.325784921 0.641043479 0.864443542 KIF5B kinesin family member 5B 0.785008985 0.639514668 0.906622025 SPRR2A small proline-rich protein 2A 0.899210984 0.639268193 0.803222274 LOC100130463 hypothetical protein LOC100130463 0.582978059 0.639203044 0.732362433 OAZ2 ornithine decarboxylase antizyme 2 0.533964945 0.63913231 0.920945384 GHDC GH3 domain containing 0.599998034 0.638161605 0.755189383 ABTB2 ankyrin repeat and BTB (POZ) domain containing 2 0.328230122 0.637802446 0.775669558 DYNC2H1 dynein, cytoplasmic 2, heavy chain 1 0.704585382 0.637586295 0.854019032 LOC115110 hypothetical protein LOC115110 0.371295933 0.636981158 0.883384891 CRIP2 cysteine-rich protein 2 0.847786218 0.636720619 0.603096697 SLC39A4 solute carrier family 39 (zinc transporter), member 4 0.264527892 0.636100683 0.689727077 LOC100233209 hypothetical LOC100233209 0.425329706 0.635407302 0.754682359 FAM109A family with sequence similarity 109, member A 0.478249322 0.635226756 0.816367193 EPHB3 EPH receptor B3 0.835755003 0.633522973 0.718929858 KLC2 kinesin light chain 2 0.647369603 0.632754128 0.813215394 C10orf58 chromosome 10 open reading frame 58; chromosome 10 open reading frame 0.695394752 0.63268715 0.766408364 CACNA2D2 calcium channel, voltage-dependent, alpha 2/delta subunit 2 0.320775482 0.632415261 0.462709775 LCLAT1 lysocardiolipin acyltransferase 1 0.844663269 0.631642029 0.782155972 WFDC2 WAP four-disulfide core domain 2 0.185887861 0.630465362 0.628983414 ANTXR1 anthrax toxin receptor 1 0.425711695 0.630140136 0.843954314 PMP22 peripheral myelin protein 22 1.036293763 0.630051221 0.551559282 Page 27 shBRG1-expression

TMEM9 transmembrane protein 9 0.674855384 0.630050142 0.925116356 SPATA20 spermatogenesis associated 20 0.465586912 0.63002528 0.659357365 PEX13 peroxisomal biogenesis factor 13 0.988869159 0.629243884 0.947636221 MB myoglobin 0.763944673 0.629169759 0.909017511 NCOR2 nuclear receptor co-repressor 2 0.612439659 0.628553977 0.50264253 FSTL3 follistatin-like 3 (secreted glycoprotein) 0.640401623 0.628257978 0.777570179 MRAS muscle RAS oncogene homolog 0.460726588 0.627905157 0.423783581 PGF placental growth factor 0.660941842 0.627840902 0.496484043 BATF2 basic transcription factor, ATF-like 2 0.834316298 0.625838916 0.791576562 MIEN1 migration and invasion enhancer 1 0.355036493 0.625532222 0.743539343 LOC286161 hypothetical protein LOC286161 0.321986634 0.625074294 0.707683881 CGNL1 cingulin-like 1 0.822230642 0.624526483 0.73301916 VAMP3 vesicle-associated membrane protein 3 (cellubrevin) 0.630998017 0.6245016 0.896912026 ZDHHC9 zinc finger, DHHC-type containing 9 0.405426059 0.623775328 0.621390508 BNIP3L BCL2/adenovirus E1B 19kDa interacting protein 3-like 0.569442705 0.622875691 0.544019271 PLTP phospholipid transfer protein 0.667855919 0.622327609 0.616710114 NAIP NLR family, apoptosis inhibitory protein 0.953124589 0.622020197 0.716599976 SLFN11 schlafen family member 11 0.655065769 0.621533011 0.586570201 CCDC102A coiled-coil domain containing 102A 0.689075997 0.621123936 0.744458882 AMPH amphiphysin 0.738470913 0.620575521 0.875037405 TMEM130 transmembrane protein 130 0.834540694 0.619370509 0.818356072 FXN frataxin 0.934938079 0.619291129 0.958791909 LOC100508226 LOC100508226 0.715777615 0.618464756 0.856229444 CXXC5 CXXC finger 5 0.510418916 0.618018586 0.606388101 GNL3LP1 guanine nucleotide binding protein-like 3 (nucleolar)-like pseudogene 0.39993684 0.617464776 0.767874955 ADC arginine decarboxylase 0.450886113 0.617307272 0.875768238 LOC158960 hypothetical protein BC009467 0.746778789 0.617083466 0.757817506 SMAD4 SMAD family member 4 0.64318469 0.617004173 0.611859323 ENST00000414198 ENST00000414198 0.868088989 0.616014485 0.73723033 C6orf25 chromosome 6 open reading frame 25 0.809892687 0.615986037 0.954623222 ADAMTSL2 similar to ADAMTS-like 2; ADAMTS-like 2 0.822094718 0.615605891 0.496413123 LOC100506191 LOC100506191 0.562877537 0.613981323 0.833317556 BAMBI hypothetical LOC729590; BMP and activin membrane-bound inhibitor homolo 0.633431572 0.613260819 0.641968113 WDR45L WDR45-like 0.665716564 0.612180574 0.831593998 Page 28 shBRG1-expression

TST thiosulfate sulfurtransferase (rhodanese) 0.499639165 0.609585346 0.851531076 ZNF678 zinc finger protein 678 0.88150195 0.608951974 0.96847304 SHFM1 split hand/foot malformation (ectrodactyly) type 1 0.633410085 0.60851593 0.88013385 LOC100271722 hypothetical LOC100271722 0.830108635 0.608376691 1.079263795 BCL3 B-cell CLL/lymphoma 3 0.801539993 0.608186226 0.849836009 CASK calcium/calmodulin-dependent serine protein kinase (MAGUK family) 0.812657228 0.608183462 0.861888293 NFKBIE nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor, ep 0.391912268 0.608114905 0.752963728 RAP1A RAP1A, member of RAS oncogene family 0.793150982 0.607418944 0.776136022 KCNMB4 potassium large conductance calcium-activated channel, subfamily M, beta m 0.845323326 0.607004405 0.768549628 CAMK2N1 calcium/calmodulin-dependent protein kinase II inhibitor 1 0.733537339 0.606962842 1.035126426 PGRMC1 membrane component 1 0.518879539 0.606829906 0.827596861 ENTPD2 ectonucleoside triphosphate diphosphohydrolase 2 0.534705766 0.605645192 0.749931625 LOC439994 hypothetical LOC439994 0.614254439 0.605227992 0.88606949 RNF7 ring finger protein 7 0.713060973 0.605136092 1.039994823 MED13 mediator complex subunit 13 0.78299998 0.604138374 0.873859934 LOC100506995 LOC100506995 0.326589498 0.603610885 0.774404403 RPL7L1 ribosomal protein L7-like 1; ribosomal protein L7 pseudogene 14; ribosomal p 0.727981881 0.601907793 0.598465924 CACNG1 calcium channel, voltage-dependent, gamma subunit 1 0.397733574 0.600060003 0.654039556 C17orf97 chromosome 17 open reading frame 97 0.468128611 0.60002652 0.856139827 ENST00000502514 ENST00000502514 0.68425493 0.599616421 0.73112912 CRB3 crumbs homolog 3 (Drosophila) 0.836560139 0.597380806 0.674098456 LOC100506676 LOC100506676 0.808776254 0.596335406 0.714662274 SNX12 sorting nexin 12 0.869991319 0.595733378 0.931726886 STOM stomatin 0.674806935 0.595258458 0.868567515 C18orf1 chromosome 18 open reading frame 1 0.804617699 0.595099299 0.690560019 AKT3 v-akt murine thymoma viral oncogene homolog 3 (protein kinase B, gamma) 1.229736891 0.594878558 0.581509981 GLB1L2 galactosidase, beta 1-like 2 0.464550499 0.594682718 0.828617026 DIRC2 disrupted in renal carcinoma 2 0.966402642 0.594230268 0.884571237 TMEM106B transmembrane protein 106B 0.926688029 0.594073595 0.998952684 TMC6 transmembrane channel-like 6 0.830757186 0.593907401 0.9925633 CHL1 cell adhesion molecule with homology to L1CAM (close homolog of L1) 0.613399556 0.593663331 0.847279259 MED11 mediator complex subunit 11 0.467910482 0.592580771 0.723802555 HS3ST6 heparan sulfate (glucosamine) 3-O-sulfotransferase 6 0.495343084 0.592553093 0.683663088 BCKDK branched chain ketoacid dehydrogenase kinase 0.488406873 0.591673305 0.883591099 Page 29 shBRG1-expression

MXRA7 matrix-remodelling associated 7 0.978073482 0.589904633 0.966075126 AK8 adenylate kinase 8 0.666144869 0.587933051 0.777722973 GNG12 guanine nucleotide binding protein (G protein), gamma 12 0.125612014 0.587840388 0.54657259 ODZ4 odz, odd Oz/ten-m homolog 4 (Drosophila) 0.407540356 0.587706118 0.574066518 YAP1 Yes-associated protein 1, 65kDa 1.126063069 0.58756946 0.94679962 APPBP2 amyloid beta precursor protein (cytoplasmic tail) binding protein 2 0.369093609 0.585302063 0.6524723 DDX1 DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 0.676658822 0.585242436 0.929887565 LINC00263 LINC00263 0.632473275 0.584671738 0.258130969 C8orf60 chromosome 8 open reading frame 60 0.278976084 0.584348429 0.591134505 GLIPR2 GLI pathogenesis-related 2 0.569104485 0.584345578 0.950372076 LOC221442 adenylate cyclase 10 pseudogene 0.791191616 0.583713953 0.806125575 ZBTB47 zinc finger and BTB domain containing 47 0.834376705 0.582803214 0.630780774 DOCK6 dedicator of cytokinesis 6 0.849582996 0.582398526 0.678308392 STX12 syntaxin 12 0.400226229 0.582032238 0.754250887 LOC645206 hypothetical LOC645206 0.752337197 0.581745224 1.809758537 DUSP23 dual specificity phosphatase 23 0.368408131 0.58146807 0.865754326 TLCD1 TLC domain containing 1 0.275309491 0.581465326 0.812075034 CCDC106 coiled-coil domain containing 106 0.754155444 0.58000997 0.688231474 LRIG3 leucine-rich repeats and immunoglobulin-like domains 3 0.726270969 0.579368369 0.802898215 PLEC similar to 1 (PLTN) (PCN) (Hemidesmosomal protein 1) (HD1); plectin 0.755022137 0.576672829 0.88283199 USP43 ubiquitin specific peptidase 43 0.378611182 0.576283686 0.619471286 FNTB farnesyltransferase, CAAX box, beta 0.591033188 0.574893488 0.630893072 CYP2J2 cytochrome P450, family 2, subfamily J, polypeptide 2 0.276664322 0.572961349 0.591921068 GRAMD1C GRAM domain containing 1C 0.676795232 0.572168509 0.651496427 SMOX spermine oxidase 0.543720531 0.571342373 0.853445549 UNC5B unc-5 homolog B (C. elegans) 0.547198404 0.570805175 0.622485936 NTSR1 1 (high affinity) 0.478534402 0.570437842 0.626204862 NLGN2 neuroligin 2 0.87627141 0.570429564 0.540153015 MACROD1 MACRO domain containing 1 0.828159444 0.570403461 0.842365074 LOC730183 hypothetical protein LOC730183 0.448807556 0.569412983 0.64800797 MARVELD3 MARVEL domain containing 3 0.650313258 0.569149049 0.762798565 GOLM1 golgi membrane protein 1 0.693913282 0.568822691 0.795115474 DRC1 – dynein regulatory complex subunit 1 homolog 0.451138669 0.56862337 0.740672777 LOC283731 hypothetical protein LOC283731 0.913528831 0.567286189 1.022244145 Page 30 shBRG1-expression

CHRNB1 cholinergic receptor, nicotinic, beta 1 (muscle) 0.716587234 0.566689367 0.478125746 LSM14B LSM14B, SCD6 homolog B (S. cerevisiae) 0.596107943 0.565330579 0.886539821 LOC100130899 hypothetical protein LOC100130899 0.359320025 0.564154264 0.880947372 INA neuronal protein, alpha 0.732159424 0.561744626 0.837299617 LOC401022 hypothetical LOC401022 0.405589641 0.560497532 0.495186627 AF289552 AF289552 0.313377638 0.559461292 0.686028078 KRTAP10-11 keratin associated protein 10-11 0.798012021 0.557523415 0.806374685 SCARNA23 small Cajal body-specific RNA 22; small Cajal body-specific RNA 23 0.315449967 0.557114181 0.998968458 RPP40 ribonuclease P/MRP 40kDa subunit 0.589945434 0.556769696 1.027129453 HSPA5 hypothetical gene supported by AF216292; NM_005347; heat shock 70kDa p 0.492914358 0.556555516 0.5516916 KBTBD6 kelch repeat and BTB (POZ) domain containing 6 0.715334353 0.555909001 0.707293481 RHOBTB3 Rho-related BTB domain containing 3 0.438700922 0.555801008 0.713005615 DLGAP4 discs, large (Drosophila) homolog-associated protein 4 0.642373111 0.555147029 0.595754682 LLGL2 lethal giant larvae homolog 2 (Drosophila) 0.667391842 0.554642027 0.910923107 BAZ2A bromodomain adjacent to zinc finger domain, 2A 0.855448529 0.552861534 0.713343701 SGPL1 sphingosine-1-phosphate lyase 1 0.6869296 0.552791973 0.654418634 ZIC5 Zic family member 5 (odd-paired homolog, Drosophila) 0.825339388 0.552301585 0.635186307 SDCBP syndecan binding protein (syntenin) 0.545348403 0.551947422 0.638647089 EFNA1 ephrin-A1 0.530941236 0.550188866 0.858874363 FAM127C family with sequence similarity 127, member C; hypothetical LOC100128949 0.650729595 0.549193802 0.860321061 DYNC1LI2 dynein, cytoplasmic 1, light intermediate chain 2 0.850239805 0.548415676 0.75538739 RASL11B RAS-like, family 11, member B 0.792374149 0.548347323 0.848136421 PROS1 protein S (alpha) 0.899723867 0.548297905 0.951289076 FADS1 fatty acid desaturase 1 0.433936459 0.547766084 0.353465934 PTN pleiotrophin 0.496299255 0.547128276 0.765357152 KDELR1 KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 0.506822693 0.545674447 0.684303253 NACA2 nascent polypeptide-associated complex alpha subunit 2 0.635704167 0.545591666 0.79935339 NOTCH2 Notch homolog 2 (Drosophila) 1.048164143 0.544529154 0.879470674 ENST00000418031 ENST00000418031 0.713791471 0.544330824 0.474904007 CPE carboxypeptidase E 0.559820843 0.543804522 0.627407131 SYT13 synaptotagmin XIII 0.876389573 0.542144247 0.817109346 ENST00000427317 ENST00000427317 0.834906252 0.542124837 0.472174371 PPP3CA protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform 0.596142269 0.541760633 0.70110208 BHLHE40 basic helix-loop-helix family, member e40 0.840079541 0.541696989 0.642242396 Page 31 shBRG1-expression

DYNLT1 dynein, light chain, Tctex-type 1 0.624941215 0.54140571 0.719442425 PRKAB2 protein kinase, AMP-activated, beta 2 non-catalytic subunit 0.716399983 0.539538127 0.791542585 QSER1 glutamine and serine rich 1 0.682356391 0.537559887 0.730756027 ID1 inhibitor of DNA binding 1, dominant negative helix-loop-helix protein 0.723410008 0.536199498 0.604048623 MICALL2 MICAL-like 2 0.369814396 0.534577974 0.663658551 PNPLA3 patatin-like phospholipase domain containing 3 0.49589553 0.533740982 0.486557235 ACSL1 acyl-CoA synthetase long-chain family member 1 0.453385083 0.531959401 0.705068222 PLAG1 pleiomorphic adenoma gene 1 0.825550491 0.531894037 0.65908219 RRAGA Ras-related GTP binding A 0.43446704 0.531195878 0.631554882 CLIP3 CAP-GLY domain containing linker protein 3 0.576219541 0.530893468 0.680291474 CHMP3 charged multivesicular body protein 3 0.775432298 0.529751204 0.66069381 HOMER3 homer homolog 3 (Drosophila) 0.689813713 0.529058235 0.879761298 LOC100506965 LOC100506965 0.807557697 0.52875235 0.826120662 RHOQ ras homolog gene family, member Q; similar to small GTP binding protein TC 0.614695274 0.528336048 0.695332486 SAMD4B sterile alpha motif domain containing 4B 0.522207729 0.527967978 0.739905894 ELL2 elongation factor, RNA polymerase II, 2 0.762547864 0.526768575 0.733382206 ZCCHC14 zinc finger, CCHC domain containing 14 0.679125619 0.52610861 0.715013765 FLJ41350 hypothetical protein LOC399806 0.861156576 0.525784341 0.850586452 CABP7 calcium binding protein 7 0.809368952 0.525758254 0.81201542 NTNG1 netrin G1 0.804509152 0.524918772 0.710515997 NGRN neugrin, neurite outgrowth associated 0.709145931 0.524873838 0.875074316 SH3GL1P3 SH3-domain GRB2-like pseudogene 3 0.626589661 0.524673403 0.825960896 AK128007 AK128007 0.531098649 0.52463517 0.812030576 WRB tryptophan rich basic protein 0.509178688 0.523877757 0.664879022 GBAS glioblastoma amplified sequence 0.612878276 0.523233657 0.788937362 ENST00000382320 ENST00000382320 0.45573859 0.520443208 0.549657851 DHCR7 7-dehydrocholesterol reductase 0.667369998 0.520272746 0.427274835 ASCL2 achaete-scute complex homolog 2 (Drosophila) 0.888670834 0.520223173 0.341104376 KIAA1486 KIAA1486 protein 0.74513243 0.520184568 0.737379264 CUX1 cut-like homeobox 1 0.593691289 0.51994251 0.732834683 TMEM65 transmembrane protein 65 0.463541833 0.517846871 0.704394364 LOC100505481 LOC100505481 0.368444309 0.517357299 0.757551573 NUDT11 nudix (nucleoside diphosphate linked moiety X)-type motif 11 0.453456953 0.51610342 0.721317159 CDK16 PCTAIRE protein kinase 1 0.625393096 0.515725934 0.555146396 Page 32 shBRG1-expression

LOC100505738 LOC100505738 0.321914014 0.515501567 0.674675848 IGF2 insulin-like growth factor 2 (somatomedin A); insulin; INS-IGF2 readthrough tr 0.126809663 0.515042037 0.501466026 EID2 EP300 interacting inhibitor of differentiation 2 0.617623611 0.514980862 0.859647319 STAP2 signal transducing adaptor family member 2 0.526196275 0.514402114 0.772868916 RARG , gamma 0.87495586 0.510396828 0.537030659 RGL2 ral guanine nucleotide dissociation stimulator-like 2 0.563828813 0.50893178 0.880690573 UAP1L1 UDP-N-acteylglucosamine pyrophosphorylase 1-like 1 0.888193186 0.507238942 0.751319268 LMO4 LIM domain only 4 0.88240099 0.50713419 0.737625724 CSAD cysteine sulfinic acid decarboxylase 0.543035161 0.506862665 0.770229984 APLP2 amyloid beta (A4) precursor-like protein 2 0.446836475 0.505459632 0.806268607 PTPRU protein tyrosine phosphatase, receptor type, U 0.647451427 0.504818793 0.947069266 CCDC30 hypothetical protein LOC728621 0.834813819 0.5046671 0.861028124 PPIF peptidylprolyl isomerase F 0.258055686 0.504590104 0.847714171 ALDH2 aldehyde dehydrogenase 2 family (mitochondrial) 0.564239304 0.503912519 0.868508826 PLEKHA6 pleckstrin homology domain containing, family A member 6 0.804227939 0.50256339 0.704158477 PCSK4 proprotein convertase subtilisin/kexin type 4 0.648949157 0.499931549 0.758809975 KLC3 kinesin light chain 3 0.658071126 0.498518496 0.580283771 IL17RD interleukin 17 receptor D 0.869751381 0.498276114 0.841271755 TTC21A tetratricopeptide repeat domain 21A 0.672594451 0.497343624 0.767840408 C19orf42 chromosome 19 open reading frame 42 0.430542694 0.495832769 0.884909703 MME membrane metallo-endopeptidase 1.106687581 0.495359302 0.939558248 SH3GL1P1 SH3-domain GRB2-like pseudogene 1 0.635729497 0.495158014 0.570180864 EMID1 EMI domain containing 1 0.799643987 0.493949939 0.765150681 ENST00000356822 ENST00000356822 0.72786649 0.493239289 0.746236704 TNS4 tensin 4 0.354200314 0.493052892 0.806911722 ASAP3 ArfGAP with SH3 domain, ankyrin repeat and PH domain 3 0.576969575 0.491229007 0.540602773 SMCR6 Smith-Magenis syndrome chromosome region, candidate 6 0.556946436 0.49104885 0.235302768 KIAA1522 KIAA1522 0.37919252 0.490970331 0.345389614 LOC644554 hypothetical LOC644554 0.39636898 0.490807618 0.825540716 DCBLD1 discoidin, CUB and LCCL domain containing 1 0.647563454 0.490196088 0.91150287 MGST1 microsomal glutathione S-transferase 1 0.189047864 0.489930964 0.884590803 HN1L hematological and neurological expressed 1-like 0.685501784 0.489363432 0.812538764 EXPH5 exophilin 5 0.457213555 0.489289928 0.659745916 DNER delta/notch-like EGF repeat containing 0.413843792 0.488967038 0.720453335 Page 33 shBRG1-expression

MYO1D myosin ID 0.672472894 0.48712416 0.910231084 CLEC11A C-type lectin domain family 11, member A 0.477035658 0.486618368 0.898344939 PDIA6 protein disulfide isomerase family A, member 6 0.64947888 0.486150474 0.771691007 PLD2 phospholipase D2 0.807358647 0.48550243 0.639553722 LOC100130417 0.589490464 0.48315116 0.826655598 LAMB2 laminin, beta 2 (laminin S) 0.456467844 0.483051524 0.604963652 MURC muscle-related coiled-coil protein 0.36614631 0.482375476 0.58010552 SEZ6L seizure related 6 homolog (mouse)-like 0.501917744 0.48119454 0.50466961 TNFAIP1 tumor necrosis factor, alpha-induced protein 1 (endothelial) 0.479226745 0.479955922 0.48994739 CTXN1 cortexin 1 0.578838897 0.4757246 0.489337076 PAQR5 progestin and adipoQ receptor family member V 0.623420002 0.475115556 0.523011861 RCN1 reticulocalbin 1, EF-hand calcium binding domain 0.516916867 0.474788865 0.435352978 MEGF6 multiple EGF-like-domains 6 0.242483341 0.470636841 0.536558267 ABCG1 ATP-binding cassette, sub-family G (WHITE), member 1 0.318892587 0.470195173 0.372133954 NDUFC1 NADH dehydrogenase (ubiquinone) 1, subcomplex unknown, 1, 6kDa 0.548957988 0.46866113 0.884082661 CRK v-crk sarcoma virus CT10 oncogene homolog (avian) 0.475795483 0.468597917 0.49110556 SLC45A3 solute carrier family 45, member 3 0.564700066 0.468417692 0.393943836 C7orf36 chromosome 7 open reading frame 36 0.496790967 0.467798357 0.689155853 ABHD12 abhydrolase domain containing 12 0.650288287 0.467463344 0.776329363 CPNE4 copine IV 0.361756961 0.467140388 0.829642867 SCD stearoyl-CoA desaturase (delta-9-desaturase) 0.449435214 0.466860747 0.147760811 LAPTM4A lysosomal protein transmembrane 4 alpha 0.595683731 0.466553941 0.866037528 GPR56 G protein-coupled receptor 56 0.147438167 0.466494324 0.730706404 C9orf116 chromosome 9 open reading frame 116 0.332802308 0.463839632 1.008699491 RXRG retinoid X receptor, gamma 0.582382385 0.463215465 0.913849271 ABLIM2 actin binding LIM protein family, member 2 0.369512295 0.461502538 0.761193563 TFF3 trefoil factor 3 (intestinal) 0.699374407 0.46091977 1.414328358 DSTYK dual serine/threonine and tyrosine protein kinase 0.483298421 0.459853401 0.55517066 S100A14 S100 calcium binding protein A14 0.556272717 0.459690054 0.688805292 SMTNL2 smoothelin-like 2 0.872952696 0.459367178 0.82369862 ZNF664 zinc finger protein 664 0.48935686 0.458359609 0.882677016 SELENBP1 selenium binding protein 1 0.214606065 0.456875299 0.418180608 CXADRP3 coxsackie virus and adenovirus receptor pseudogene 3 0.694452715 0.456192374 0.818250219 LOC100507673 LOC100507673 0.744524869 0.455436516 0.699440247 Page 34 shBRG1-expression

SORCS2 sortilin-related VPS10 domain containing receptor 2 0.89719172 0.45492418 0.6496588 KIAA1661 KIAA1661 protein 0.671477165 0.452631656 0.773869188 CXADR coxsackie virus and adenovirus receptor pseudogene 2; coxsackie virus and a 0.702233321 0.451509075 0.837145763 TSPEAR thrombospondin-type laminin G domain and EAR repeats 0.471263608 0.450228798 0.614313075 LOC254057 hypothetical protein LOC254057 0.264739308 0.448545119 0.542280542 SMAD9 SMAD family member 9 0.546027807 0.446295796 0.696892525 VIM 0.629148883 0.445931925 0.502213703 DLX3 distal-less homeobox 3 0.297135886 0.444809803 0.451777574 EPB41L5 erythrocyte membrane protein band 4.1 like 5 0.526198872 0.44435033 0.675430761 CD24 CD24 molecule; CD24 molecule-like 4 0.623619531 0.442209888 0.732980249 FXYD6 FXYD domain containing ion transport regulator 6 0.208484541 0.44190188 0.717076353 VPS26A vacuolar protein sorting 26 homolog A (S. pombe) 0.535316437 0.440554576 0.80431969 KCNH6 potassium voltage-gated channel, subfamily H (eag-related), member 6 0.339377719 0.438418407 0.384448431 DMKN dermokine 0.380031364 0.436790035 0.89154212 WDR86 WD repeat domain 86 0.579888721 0.436213419 0.702411371 LIMA1 LIM domain and actin binding 1 0.708318976 0.434660846 0.678229552 LANCL1 LanC lantibiotic synthetase component C-like 1 (bacterial) 0.792203695 0.434467334 0.547404329 PTTG1IP pituitary tumor-transforming 1 interacting protein 0.288575485 0.432887149 0.587868344 HAUS3 HAUS augmin-like complex, subunit 3 0.29010687 0.432611832 0.672753443 DSTN (actin depolymerizing factor) 0.572323521 0.432366737 0.855779192 CHMP2A chromatin modifying protein 2A 0.486846116 0.431381651 0.683202751 CBY1 chibby homolog 1 (Drosophila) 0.598744376 0.429948872 0.745388881 SNORA56 small nucleolar RNA, H/ACA box 56 0.440381122 0.424458513 0.773443099 CRYBA2 crystallin, beta A2 0.747679489 0.420044399 0.537743411 DCTN4 4 (p62) 0.34792148 0.418807242 0.699493709 CCDC3 coiled-coil domain containing 3 0.392730903 0.417986678 0.758955064 ZNF706 zinc finger protein 706 0.402906935 0.417836868 0.632762696 CPLX1 complexin 1 0.643311876 0.416564135 0.746767048 RSPH1 radial spoke head 1 homolog (Chlamydomonas) 0.30980018 0.415513147 1.032469072 HES5 hairy and enhancer of split 5 (Drosophila) 0.345721732 0.414263024 0.745623225 RIMS3 regulating synaptic membrane exocytosis 3 0.512607788 0.413623862 0.923446613 KREMEN2 kringle containing transmembrane protein 2 0.79393627 0.413464871 0.65337277 MYL10 myosin, light chain 10, regulatory 0.941985858 0.410099238 0.915246862 EFNB3 ephrin-B3 0.721333532 0.409578172 0.484700609 Page 35 shBRG1-expression

ABCC8 ATP-binding cassette, sub-family C (CFTR/MRP), member 8 0.609908806 0.409247341 0.609113638 SERF1B small EDRK-rich factor 1A (telomeric); small EDRK-rich factor 1B (centromeri 0.427631613 0.408865378 0.612754682 NUDT15 nudix (nucleoside diphosphate linked moiety X)-type motif 15 0.319764617 0.408790935 0.416277345 KRT16P2 ; keratin type 16-like 0.891848472 0.408789007 0.898738503 MRFAP1 Mof4 family associated protein 1 0.467361033 0.407788918 0.727670782 FAM127B family with sequence similarity 127, member B 0.412319023 0.407263336 0.698137675 ALDH1A1 aldehyde dehydrogenase 1 family, member A1 0.626593727 0.405510078 0.74199932 MDK midkine (neurite growth-promoting factor 2) 0.236461794 0.404658617 0.385235169 PPAPDC1A phosphatidic acid phosphatase type 2 domain containing 1A 0.890758867 0.403972636 0.829589669 DLX4 distal-less homeobox 4 0.517991994 0.400124986 0.413902733 KIF3B kinesin family member 3B 0.305422672 0.397036672 0.503271689 CRLF1 cytokine receptor-like factor 1 0.224771268 0.392299523 0.660659962 KCNIP4 Kv channel interacting protein 4 0.82583358 0.392189857 0.543231655 CD9 CD9 molecule 0.56904488 0.385590062 0.558791339 FHIT fragile histidine triad gene 0.794478066 0.384760575 0.666706083 PLEKHA2 pleckstrin homology domain containing, family A (phosphoinositide binding sp 0.347601588 0.384065855 0.586767215 CTNNB1 catenin (cadherin-associated protein), beta 1, 88kDa 0.604235581 0.378719505 0.753233451 CAPN5 calpain 5 0.469795179 0.378240014 0.693122905 BTBD17 BTB (POZ) domain containing 17 0.097198953 0.373830057 0.386542611 FSTL1 follistatin-like 1 0.605283678 0.368917882 0.42333594 KRT1 keratin 1 0.883799265 0.367028983 0.776142346 EPN1 epsin 1 0.149369265 0.364962766 0.432929613 CSMD3 CUB and Sushi multiple domains 3 0.305211607 0.364786097 0.719489239 SCRT2 scratch homolog 2, zinc finger protein (Drosophila) 0.705055097 0.364536404 0.526275011 EI24 etoposide induced 2.4 mRNA 0.410795425 0.363298818 0.654151676 GRIN3A glutamate receptor, ionotropic, N-methyl-D-aspartate 3A 0.29720752 0.361568786 0.745022321 LY6H lymphocyte antigen 6 complex, H 0.346299557 0.356449799 0.547769832 LAYN layilin 0.892164293 0.348016603 0.841629658 YES1 v-yes-1 Yamaguchi sarcoma viral oncogene homolog 1 0.427127877 0.346743348 0.615582609 BOD1 biorientation of chromosomes in cell division 1 0.496810971 0.344125644 0.564046654 TP53INP2 tumor protein p53 inducible nuclear protein 2 0.328715578 0.343613694 0.584677831 SSTR2 2 0.825971444 0.340118141 1.129036784 DAG1 1 (-associated glycoprotein 1) 0.323568437 0.339173337 0.542311495 BLVRB biliverdin reductase B (flavin reductase (NADPH)) 0.230751372 0.334964481 0.782620198 Page 36 shBRG1-expression

KCNK17 potassium channel, subfamily K, member 17 0.999121295 0.334265322 0.688926416 CMTM4 CKLF-like MARVEL transmembrane domain containing 4 0.42862796 0.333487497 0.589610479 SERF1A small EDRK-rich factor 1A (telomeric); small EDRK-rich factor 1B (centromeri 0.319022107 0.331400585 0.623407991 ANXA9 annexin A9 0.922866299 0.330909233 0.898347229 TC2N tandem C2 domains, nuclear 0.726600816 0.330794377 0.728278343 CKM creatine kinase, muscle 0.055410417 0.327097063 0.378912027 CALD1 caldesmon 1 0.358073188 0.326534845 0.417933562 PCSK1 proprotein convertase subtilisin/kexin type 1 0.130635575 0.318799109 0.330191251 PPPDE1 PPPDE peptidase domain containing 1 0.357231607 0.31794775 0.552687675 S100A16 S100 calcium binding protein A16 0.490407627 0.317466449 0.381973556 IDH1 isocitrate dehydrogenase 1 (NADP+), soluble 0.521742 0.312912881 0.45478855 FEV FEV (ETS oncogene family) 0.169389821 0.308904771 0.501544235 NCKAP1 NCK-associated protein 1 0.380903803 0.302616829 0.744340076 NUPR1 nuclear protein, transcriptional regulator, 1 0.829355435 0.293844403 0.154778391 PMEPA1 prostate transmembrane protein, androgen induced 1 0.547041553 0.293652631 0.381053869 CSRP2 cysteine and glycine-rich protein 2 0.603335861 0.29008287 0.672456692 TESC tescalcin 0.489453075 0.283964331 0.367181857 CDS1 CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) 1 0.667269874 0.282280812 0.735084262 ARHGEF17 Rho guanine nucleotide exchange factor (GEF) 17 0.420701254 0.273569973 0.782135529 AGPAT2 1-acylglycerol-3-phosphate O-acyltransferase 2 (lysophosphatidic acid acyltra 0.816019157 0.272059273 0.891277352 SH3GL1 SH3-domain GRB2-like 1 0.215935874 0.264440739 0.322024951 LOC100507378 LOC100507378 0.318894079 0.263023311 0.424268261 WASL Wiskott-Aldrich syndrome-like 0.432012344 0.259885848 0.796343287 TNFRSF12A tumor necrosis factor receptor superfamily, member 12A 0.635301388 0.259147773 0.852735049 EFNA4 ephrin-A4 0.247374907 0.259021837 0.592980181 RXRA retinoid X receptor, alpha 0.189543993 0.256622587 0.79060686 NID1 nidogen 1 0.893183452 0.243653895 0.624088919 GNG10 DnaJ (Hsp40) homolog, subfamily C , member 25; guanine nucleotide binding 0.282810519 0.242324135 0.655161129 IGFBP5 insulin-like growth factor binding protein 5 0.223072632 0.226326633 0.532261617 HSBP1 binding protein 1 0.19248331 0.217393642 0.507607056 ARPC1A actin related protein 2/3 complex, subunit 1A, 41kDa 0.32274516 0.217196292 0.686311644 PRR15L ATPase family, AAA domain containing 4 0.349313721 0.204795317 0.649013349 ZBTB42 zinc finger and BTB domain containing 42 0.350413442 0.138478342 0.671592864 SMAD6 SMAD family member 6 0.696361704 0.134176121 0.618905924 Page 37 shBRG1-expression

SMARCA4 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, 0.148713591 0.129149476 0.389520942 SAMD11 sterile alpha motif domain containing 11 0.380071534 0.126723072 0.583053627 C1QTNF8 C1q and tumor necrosis factor related protein 8 0.583405916 0.109967489 0.755221146 S100A8 S100 calcium binding protein A8 0.771479498 0.093199209 0.243691544

Page 38 Supplementary Table S4 CELL LINEpathology BRG1-status Reference MAX-status Reference MYC-status MYCL-status MYCN-status A427 AC Del. 23-35 Medina et al. 2008 current work A549 AC p.Gln729fs Medina et al. 2008 current work CALU3 AC Medina et al. 2008 current work DV90 AC CCLE CCLE H1355 AC CCLE CCLE H1373 AC CCLE CCLE H1395 AC Medina et al. 2008 current work Amplification H1437 AC current work current work H1563 AC CCLE CCLE H1573 AC p.E1399* Sanger/COSMIC current work H1623 AC Sanger/COSMIC current work H1648 AC Medina et al. 2008 current work H1650 AC Sanger/COSMIC current work H1651 AC CCLE CCLE H1666 AC CCLE CCLE H1703 AC p.Glu668_Gln758del Medina et al. 2008 current work H1734 AC CCLE CCLE H1755 AC CCLE CCLE H1781 AC CCLE CCLE H1792 AC CCLE CCLE Amplification H1819 AC p.Leu1085fs Medina et al. 2008 current work H1993 AC Sanger/COSMIC current work H2009 AC CCLE current work H2023 AC p.A826fs CCLE CCLE H2030 AC p.? Sanger/COSMIC CCLE H2073 AC CCLE CCLE H2087 AC Medina et al. 2008 current work Amplification H2122 AC Medina et al. 2008 current work Amplification H2126 AC p.Trp764Arg Medina et al. 2008 current work H2228 AC CCLE CCLE H2291 AC CCLE CCLE / current work H23 AC p.[Lys1533Asn,Glu1534*] Medina et al. 2008 current work H2342 AC CCLE CCLE H2347 AC CCLE current work H2405 AC CCLE CCLE H322 AC Sanger/COSMIC current work H358 AC Medina et al. 2008 CCLE H441 AC Medina et al. 2008 current work H522 AC p.Pro270fs Medina et al. 2008 current work H650 AC CCLE CCLE HCC4006 AC CCLE CCLE HCC44 AC CCLE current workAmplification HCC78 AC CCLE current work HCC827 AC Medina et al. 2008 current work Amplification HS229T AC CCLE CCLE HS618T AC CCLE CCLE LXF289 AC CCLE CCLE / current work MORCPR AC CCLE CCLE RERFLCADAC CCLE CCLE RERFLCADAC CCLE CCLE RERFLC-O AC Medina et al. 2008 current work SKLU1 AC CCLE CCLE VMRC-LCDAC CCLE CCLE Amplification H596 AC/SCC Medina et al. 2008 current work H647 AC/SCC CCLE CCLE Amplification HCC1195 AC/SCC CCLE CCLE HCC366 AC/SCC p.W1178* CCLE current work CALU6 LCC CCLE CCLE CORL23 LCC CCLE CCLE Amplification H1155 LCC Medina et al. 2008 current work H1299 LCC p.Tyr560fs Medina et al. 2008 current work H1581 LCC p.E1310* Sanger/COSMIC CCLE H1915 LCC CCLE CCLE H460 LCC Medina et al. 2008 current work Amplification H661 LCC p.Leu1162fs Medina et al. 2008 current work H810 LCC CCLE CCLE Amplification IALM LCC CCLE CCLE LCLC103H LCC CCLE CCLE LCLC97TM LCC CCLE CCLE LU99 LCC CCLE current work H1770 neuroendo Sanger/COSMIC current work Amplification ABC1 AC CCLE current work BEN NSCLC CCLE CCLE CHAGOK1 NSCLC CCLE CCLE H1435 AC CCLE CCLE H1568 AC p.E1481* CCLE CCLE H157 NSCLC p.Thr58fs Medina et al. 2008 H1693 AC p.L1085fs*32 Sanger/COSMIC CCLE H1793 AC p.E514* CCLE CCLE H1838 AC CCLE CCLE H1944 AC Homozygous deletion CCLE CCLE H1975 AC CCLE current work Amplification H2106 NSCLC CCLE CCLE Amplification H2110 NSCLC CCLE CCLE H2172 NSCLC CCLE CCLE H2444 NSCLC CCLE CCLE H727 NSCLC CCLE current work H838 AC c.2617-1G>A Sanger/COSMIC CCLE HCC1171 NSCLC CCLE CCLE Lu65 NSCLC Medina et al. 2008 current work Amplification Ma29 NSCLC p.Glu1056* Medina et al. 2008 current work PC14 AC CCLE current work RERFLCKJ AC CCLE CCLE RERFLCMSAC p.Ala1245fs Medina et al. 2008 current work CALU1 SCC CCLE current work EBC1 SCC Medina et al. 2008 current work EPLC272H SCC CCLE CCLE H1869 SCC CCLE CCLE H2170 SCC Sanger/COSMIC current work Amplification H2171 SCC Medina et al. 2008 current work Amplification H226 SCC Medina et al. 2008 CCLE H520 SCC Medina et al. 2008 current work Amplification HARA SCC CCLE CCLE HCC15 SCC p.Met272fs Medina et al. 2008 current work HCC95 SCC Medina et al. 2008 current work LC1SQSF SCC Medina et al. 2008 current work LK2 SCC Medina et al. 2008 current work LOUNH91 SCC CCLE CCLE / current work LUDLU1 SCC CCLE CCLE PC10 SCC Medina et al. 2008 current work RERFLCAI SCC p.E1528* CCLE CCLE RERFLCSQSCC CCLE CCLE SKMES1 SCC Medina et al. 2008 current work Amplification SQ1 SCC Medina et al. 2008 CCLE SW1573 SCC CCLE CCLE SW900 SCC CCLE CCLE COLO668 SCLC CCLE CCLE Amplification CORL24 SCLC CCLE CCLE CORL279 SCLC CCLE CCLE CORL47 SCLC CCLE CCLE Amplification CORL88 SCLC CCLE CCLE Amplification CORL95 SCLC CCLE / current work Del. E1-5 current work CPCN SCLC CCLE CCLE Amplification DMS114 SCLC p.E1310* Sanger/COSMIC current work DMS153 SCLC Sanger/COSMIC current work DMS273 SCLC current work current work Amplification Amplification DMS454 SCLC CCLE CCLE DMS53 SCLC current work current work DMS79 SCLC CCLE CCLE H1048 SCLC current work current work H1092 SCLC CCLE CCLE Amplification H1105 SCLC CCLE CCLE H1184 SCLC CCLE current work H128 SCLC Medina et al. 2008 current work H1339 SCLC CCLE / current work current work H1341 SCLC CCLE CCLE H1417 SCLC current work Del.E1-3 current work H1436 SCLC Sanger/COSMIC current work H1450 SCLC current work current work H146 SCLC current work CCLE H1607 SCLC current work current work H1618 SCLC current work current work H1694 SCLC CCLE CCLE Amplification H1836 SCLC CCLE CCLE Amplification H1876 SCLC CCLE CCLE H187 SCLC Medina et al. 2008 current work Amplification H1930 SCLC CCLE CCLE / current work H196 SCLC CCLE CCLE H1963 SCLC Medina et al. 2008 current work Amplification H2029 SCLC current work current work Amplification H2066 SCLC CCLE CCLE H2081 SCLC Sanger/COSMIC current work H209 SCLC Medina et al. 2008 current work H2107 SCLC current work current work Amplification H211 SCLC CCLE CCLE H2141 SCLC Medina et al. 2008 current work Amplification H2195 SCLC Medina et al. 2008 current work H2196 SCLC current work current work H2227 SCLC current work current work H2286 SCLC CCLE CCLE H345 SCLC Medina et al. 2008 current work H446 SCLC Medina et al. 2008 current work Amplification H510 SCLC Medina et al. 2008 current work Amplification H524 SCLC CCLE current work Amplification H526 SCLC Medina et al. 2008 current work Amplification H69 SCLC Medina et al. 2008 current work Amplification H711 SCLC Sanger/COSMIC current work H774 SCLC Medina et al. 2008 current work H82 SCLC Medina et al. 2008 current work Amplification H841 SCLC p.Lys934* Medina et al. 2008 current work H889 SCLC CCLE / current work current work Amplification HCC33 SCLC Medina et al. 2008 current work Amplification Lu134 SCLC Medina et al. 2008 Del. E4-5 current work Lu135 SCLC current work current work Amplification Lu139 SCLC current work current work Lu165 SCLC current work Del. E1-5 current work N417 SCLC Medina et al. 2008 current work Amplification SBC5 SCLC CCLE current work SCLC21H SCLC CCLE CCLE Amplification SHP77 SCLC CCLE / current work current work SW1271 SCLC CCLE CCLE Reference MGA-status Reference ARID1A-status SMARCB1-status PBRM1-status Reference Medina et al. 2008 Medina et al. 2008 CCLE/current work CCLE Medina et al. 2008 CCLE/current work CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE/COSMIC/current work CCLE/Sanger/COSMIC CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE/current work CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE/current work CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 Sanger COSMIC/current work Sanger/COSMIC CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE CCLE Medina et al. 2008 CCLE CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger p.G2290fs CCLE/current work CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger p.L754fs CCLE CCLE CCLE/Sanger CCLE CCLE Sanger Medina et al. 2008 CCLE CCLE Medina et al. 2008 CCLE p.1335_1336insQ CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger p.G809_splice CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE CCLE Blanco et al. 2009 CCLE CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE/current work CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE/Sanger CCLE p.G1251fs CCLE Blanco et al. 2009 CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Blanco et al. 2009 CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE/current work p.LI2134del CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Blanco et al. 2009 CCLE CCLE CCLE/Sanger COSMIC Sanger/COSMIC Blanco et al. 2009 CCLE Homozygous deletionCCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE p.D641_splice/p.H684 CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 current work CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE p.F1720fs CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE CCLE Medina et al. 2008 Blanco et al. 2009 CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE/current work CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE p.G1847fs CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE/current work CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE CCLE Medina et al. 2008 CCLE CCLE Medina et al. 2008 CCLE CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger p.V730_splice CCLE/current work CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE Homozygous deletion CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger p.R1053* CCLE/current work CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger Homozygous deletionCCLE CCLE CCLE/Sanger CCLE/current work CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE/current work CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 Sanger/COSMIC Sanger/COSMIC CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger current work CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE/Sanger CCLE/current work CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE/current work CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE CCLE Medina et al. 2008 CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 current work Medina et al. 2008 CCLE CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger Medina et al. 2008 Medina et al. 2008 CCLE CCLE Medina et al. 2008 CCLE CCLE CCLE/Sanger CCLE CCLE Medina et al. 2008 CCLE CCLE Medina et al. 2008 current work CCLE/Sanger CCLE/Sanger Blanco et al. 2009 current work Medina et al. 2008 CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE CCLE/Sanger CCLE CCLE