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Figure S1 Relative LSD1 mRNA (%) (HDAC siRNA vs. Scramble) MDA-MB-231 cells Vasilatos et al.

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Presentation on theme: "Figure S1 Relative LSD1 mRNA (%) (HDAC siRNA vs. Scramble) MDA-MB-231 cells Vasilatos et al."— Presentation transcript:

1 Figure S1 Relative LSD1 mRNA (%) (HDAC siRNA vs. Scramble) MDA-MB-231 cells Vasilatos et al.

2 mRNA level (Fold) Relative to MDA-MB-231 NR4A1 mRNA level (Fold) Relative to MDA-MB-231 PCDH1 RGS16 mRNA level (Fold) Relative to MDA-MB-231 mRNA level (Fold) Relative to MDA-MB-231 BIK Figure S2 Vasilatos et al.

3 A LSD1 HDAC5 P=0.189 LSD1 P=0.677 HDAC5 B Figure S3 Vasilatos et al.

4 CDKN1A  -Actin Cytoplasmic Nuclear SAHA - + CDKN1A PCNA A Figure S4 SAHA Pargyline - - + + - + NR4A1  -actin B NR4A1 PCNA Cytoplasmic Nuclear MDA-MB-231 MDA-MB-468

5 Cell LineERPRHER2 Gene Cluster Clinical Subtype ZR-75-30+ - +LuHER UACC-812+ - +LuHER UACC-893 -- +LuHER HCC202 -- +LuHER HCC1419 -- +LuHER HCC1569 -- +BaAHER HCC1954 -- +BaAHER HCC2218 -- +LuHER AU565 -- +LuHER BT-474+++LuHER MDA-MB-361+ - +LuHER SK-BR-3 -- +LuHER MDA-MB-453 -- +LuHER ZR-75-1+ -- LuHR HCC1428++ - LuHR HCC1500++ - LuHR CAMA-1++ - LuHR MCF-7++ - LuHR MDA-MB-134-VI+- - LuHR BT-483++ - LuHR MDA-MB-415++ - LuHR T-47D++ - LuHR HCC38 --- BaBTN HCC70 --- BaATN HCC1187 --- BaATN HCC1395 --- BaBTN HCC1599 --- BaATN HCC1806 --- BaATN HCC1937 --- BaATN BT-20 --- BaATN MDA-MB-157 --- BaBTN MDA-MB-231 --- BaBTN BT 549 --- BaBTN DU4475 --- BaATN HS 578T --- BaBTN MDA-MB-436 --- BaBTN Supplemental Table 1. Thirty-six breast cancer cell lines used in this study. ER- estrogen receptor; PR-progesterone receptor; Lu-luminal; BaA-Basal A; BaB- Basal B; HER2-human epidermal growth receptor 2; HR-hormone receptor positive; TN-triple negative. Vasilatos et al.

6 IDGene SymbolGene TitleFold InductionSD 209460_atABAT4-aminobutyrate aminotransferase5.2150.100 219671_atHPCAL4hippocalcin like 44.6810.131 209083_atCORO1Acoronin, actin binding protein, 1A3.8790.477 203980_atFABP4fatty acid binding protein 4, adipocyte3.8410.113 214657_s_atNEAT1nuclear paraspeckle assembly transcript 1 (non-protein coding)3.6100.587 210015_s_atMAP2microtubule-associated protein 23.4920.112 203841_x_atMAPRE3microtubule-associated protein, RP/EB family, member 33.4580.055 206463_s_atDHRS2dehydrogenase/reductase (SDR family) member 23.3500.753 210839_s_atENPP2ectonucleotide pyrophosphatase/phosphodiesterase 23.3170.117 203498_atRCAN2regulator of calcineurin 23.2840.082 206118_atSTAT4signal transducer and activator of transcription 43.2750.092 204596_s_atSTC1stanniocalcin 13.2330.755 221035_s_atTEX14testis expressed 143.1530.189 209683_atFAM49Afamily with sequence similarity 49, member A3.1110.310 221185_s_atIQCGIQ motif containing G3.0760.046 209198_s_atSYT11synaptotagmin XI3.0500.076 209159_s_atNDRG4NDRG family member 43.0270.345 203932_atHLA-DMBmajor histocompatibility complex, class II, DM beta3.0230.245 206076_atLRRC23leucine rich repeat containing 232.9590.157 212664_atTUBB4tubulin, beta 42.9420.271 204199_atRALGPS1Ral GEF with PH domain and SH3 binding motif 12.9200.178 220468_atARL14ADP-ribosylation factor-like 142.9170.203 204749_atNAP1L3nucleosome assembly protein 1-like 32.8940.151 213050_atCOBLcordon-bleu homolog (mouse)2.8540.606 210657_s_atSEPT4septin 42.8350.281 205934_atPLCL1phospholipase C-like 12.8150.255 204687_atPARM1prostate androgen-regulated mucin-like protein 12.8140.536 211237_s_atFGFR4fibroblast growth factor receptor 42.8070.380 218087_s_atSORBS1sorbin and SH3 domain containing 12.7920.141 209392_atENPP2ectonucleotide pyrophosphatase/phosphodiesterase 22.7780.525 220999_s_atCYFIP2cytoplasmic FMR1 interacting protein 22.7590.069 209839_atDNM3dynamin 32.7460.153 209189_atFOSFBJ murine osteosarcoma viral oncogene homolog2.7290.257 205249_atEGR2early growth response 22.7060.113 37547_atBBS9Bardet-Biedl syndrome 92.6840.212 209848_s_atSILVsilver homolog (mouse)2.6770.126 202454_s_atERBB3v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)2.6520.140 211990_atHLA-DPA1major histocompatibility complex, class II, DP alpha 12.6500.151 214040_s_atGSNgelsolin2.6500.222 202708_s_atHIST2H2BEhistone cluster 2, H2be2.6260.246 221541_atCRISPLD2cysteine-rich secretory protein LCCL domain containing 22.6200.177 204217_s_atRTN2reticulon 22.6170.225 220150_s_atFAM184Afamily with sequence similarity 184, member A2.5980.076 204321_atNEO1neogenin homolog 1 (chicken)2.5960.121 214823_atZNF204Pzinc finger protein 204 (pseudogene)2.5780.128 203151_atMAP1Amicrotubule-associated protein 1A2.5590.075 210102_atVWA5Avon Willebrand factor A domain containing 5A2.5510.093 210675_s_atPTPRRprotein tyrosine phosphatase, receptor type, R2.5370.110 205259_atNR3C2nuclear receptor subfamily 3, group C, member 22.4950.523 209504_s_atPLEKHB1pleckstrin homology domain containing, family B (evectins) member 12.4840.022 206518_s_atRGS9regulator of G-protein signaling 92.4750.210 203961_atNEBLnebulette2.4310.289 204035_atSCG2secretogranin II2.4300.041 210090_atARCactivity-regulated cytoskeleton-associated protein2.4210.043 208300_atPTPRHprotein tyrosine phosphatase, receptor type, H2.4060.147 204622_x_atNR4A2nuclear receptor subfamily 4, group A, member 22.3950.213 204437_s_atFOLR1folate receptor 1 (adult)2.3760.160 205489_atCRYMcrystallin, mu2.3310.073 218839_atHEY1hairy/enhancer-of-split related with YRPW motif 12.3190.219 213106_atATP8A1ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 12.3150.386 202575_atCRABP2cellular retinoic acid binding protein 22.2800.043 209462_atAPLP1amyloid beta (A4) precursor-like protein 12.2750.255 213096_atTMCC2transmembrane and coiled-coil domain family 22.2640.235 218789_s_atC11orf71chromosome 11 open reading frame 712.2430.009 201107_s_atTHBS1thrombospondin 12.2270.149 205125_atPLCD1phospholipase C, delta 12.2240.173 Table S2. Gene expression induced by treatment with SAHA in MDA-MB-231 cells Vasilatos et al.

7 IDGene SymbolGene TitleFold InductionSD 210130_s_atTM7SF2transmembrane 7 superfamily member 22.2140.315 219747_atC4orf31chromosome 4 open reading frame 312.1980.190 207536_s_atTNFRSF9tumor necrosis factor receptor superfamily, member 92.1790.227 219529_atCLIC3chloride intracellular channel 32.1730.059 211506_s_atIL8interleukin 82.1710.233 218976_atDNAJC12DnaJ (Hsp40) homolog, subfamily C, member 122.1650.248 213679_atTTC30Atetratricopeptide repeat domain 30A2.1620.135 201566_x_atID2inhibitor of DNA binding 2, dominant negative helix-loop-helix protein2.1600.052 220361_atIQCHIQ motif containing H2.1550.195 208216_atDLX4distal-less homeobox 42.1480.164 205676_atCYP27B1cytochrome P450, family 27, subfamily B, polypeptide 12.1380.167 203388_atARRB2arrestin, beta 22.1110.083 213045_atMAST3microtubule associated serine/threonine kinase 32.1050.153 205239_atAREGamphiregulin2.0930.045 211348_s_atCDC14BCDC14 cell division cycle 14 homolog B (S. cerevisiae)2.0790.137 221986_s_atKLHL24kelch-like 24 (Drosophila)2.0780.353 203798_s_atVSNL1visinin-like 12.0610.162 206176_atBMP6bone morphogenetic protein 62.0540.106 206448_atZNF365zinc finger protein 3652.0370.305 204966_atBAI2brain-specific angiogenesis inhibitor 22.0360.209 215321_atRUNDC3BRUN domain containing 3B2.0350.110 33646_g_atGM2AGM2 ganglioside activator2.0110.055 204546_atKIAA0513 2.0070.145 210078_s_atKCNAB1potassium voltage-gated channel, shaker-related subfamily, beta member 11.9850.161 59437_atC9orf116chromosome 9 open reading frame 1161.9680.176 212701_atTLN2talin 21.9640.132 202455_atHDAC5histone deacetylase 51.9640.112 209002_s_atCALCOCO1calcium binding and coiled-coil domain 11.9640.131 209737_atMAGI2membrane associated guanylate kinase, WW and PDZ domain containing 21.9620.116 219268_atETNK2ethanolamine kinase 21.9330.149 214130_s_atPDE4DIPphosphodiesterase 4D interacting protein1.9230.076 212706_atRASA4RAS p21 protein activator 41.9170.215 220244_atLOH3CR2Aloss of heterozygosity, 3, chromosomal region 2, gene A1.9060.024 215364_s_atKIAA0467 1.9060.176 214519_s_atRLN2relaxin 21.9050.231 39248_atAQP3aquaporin 3 (Gill blood group)1.8970.123 205206_atKAL1Kallmann syndrome 1 sequence1.8840.126 221769_atSPSB3splA/ryanodine receptor domain and SOCS box containing 31.8810.027 220673_s_atPPP4R4protein phosphatase 4, regulatory subunit 41.8750.059 219689_atSEMA3Gsema domain, immunoglobulin domain (Ig), short basic domain, secreted, 3G1.8670.229 206218_atMAGEB2melanoma antigen family B, 21.8640.124 218574_s_atLMCD1LIM and cysteine-rich domains 11.8530.085 204567_s_atABCG1ATP-binding cassette, sub-family G (WHITE), member 11.8470.077 213847_atPRPHperipherin1.8430.246 205749_atCYP1A1cytochrome P450, family 1, subfamily A, polypeptide 11.8210.165 203488_atLPHN1latrophilin 11.8060.084 219760_atLIN7Blin-7 homolog B (C. elegans)1.8050.133 205709_s_atCDS1CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) 11.8050.050 201141_atGPNMBglycoprotein (transmembrane) nmb1.7940.211 208116_s_atMAN1A1mannosidase, alpha, class 1A, member 11.7900.176 218780_atHOOK2hook homolog 2 (Drosophila)1.7740.145 210075_atMARCH2membrane-associated ring finger (C3HC4) 21.7680.203 209962_atEPORerythropoietin receptor1.7640.052 215078_atSOD2superoxide dismutase 2, mitochondrial1.7610.106 205141_atANGangiogenin, ribonuclease, RNase A family, 51.7340.166 209568_s_atRGL1ral guanine nucleotide dissociation stimulator-like 11.7280.084 635_s_atPPP2R5Bprotein phosphatase 2, regulatory subunit B', beta1.7280.062 203021_atSLPIsecretory leukocyte peptidase inhibitor1.7250.084 204979_s_atSH3BGRSH3 domain binding glutamic acid-rich protein1.7210.055 202590_s_atPDK2pyruvate dehydrogenase kinase, isozyme 21.7210.065 AFFX-HUMISGF3A/ M97935_MA_at STAT1signal transducer and activator of transcription 1, 91kDa1.7170.097 204279_atPSMB9proteasome (prosome, macropain) subunit, beta type, 91.7090.104 210943_s_atLYSTlysosomal trafficking regulator1.7060.061 216234_s_atPRKACAprotein kinase, cAMP-dependent, catalytic, alpha1.7030.123 204303_s_atKIAA0427 1.7020.082 209859_atTRIM9tripartite motif-containing 91.6890.080 212259_s_atPBXIP1pre-B-cell leukemia homeobox interacting protein 11.6840.078 221606_s_atHMGN5high-mobility group nucleosome binding domain 51.6830.194 Vasilatos et al.

8 IDGene SymbolGene TitleFold InductionSD 211548_s_atHPGDhydroxyprostaglandin dehydrogenase 15-(NAD)1.6730.049 65133_i_atINO80BINO80 complex subunit B1.6730.057 221530_s_atBHLHE41basic helix-loop-helix family, member e411.6720.184 206907_atTNFSF9tumor necrosis factor (ligand) superfamily, member 91.6700.017 203516_atSNTA1syntrophin, alpha 11.6700.137 213013_atMAPK8IP1mitogen-activated protein kinase 8 interacting protein 1 pseudogene1.6690.181 220372_atDNAJC28DnaJ (Hsp40) homolog, subfamily C, member 281.6690.022 221868_atPAIP2Bpoly(A) binding protein interacting protein 2B1.6670.093 205645_atREPS2RALBP1 associated Eps domain containing 21.6650.075 220173_atC14orf45chromosome 14 open reading frame 451.6620.085 211828_s_atTNIKTRAF2 and NCK interacting kinase1.6540.181 218665_atFZD4frizzled homolog 4 (Drosophila)1.6510.115 214369_s_atRASGRP2RAS guanyl releasing protein 2 (calcium and DAG-regulated)1.6480.080 219956_atGALNT6 UDP-N-acetyl-alpha-D-galactosamine:polypeptide N- acetylgalactosaminyltransferase 1.6400.151 204415_atIFI6interferon, alpha-inducible protein 61.6360.074 205728_atODZ1odz, odd Oz/ten-m homolog 1(Drosophila)1.6360.074 215417_atEXOC6Bexocyst complex component 6B1.6360.094 202718_atIGFBP2insulin-like growth factor binding protein 2, 36kDa1.6350.130 219583_s_atSPATA7spermatogenesis associated 71.6320.115 222088_s_atSLC2A14 /// SLC2A3solute carrier family 2 (member 3)1.6290.077 204340_atTMEM187transmembrane protein 1871.6230.052 219195_atPPARGC1Aperoxisome proliferator-activated receptor gamma, coactivator 1 alpha1.6180.179 213234_atKIAA1467 1.6180.158 206401_s_atMAPTmicrotubule-associated protein tau1.6160.070 218466_atTBC1D17TBC1 domain family, member 171.6100.122 213463_s_atFAM149B1family with sequence similarity 149, member B11.6090.068 204334_atKLF7Kruppel-like factor 7 (ubiquitous)1.6020.046 219313_atGRAMD1CGRAM domain containing 1C1.5990.015 218489_s_atALADaminolevulinate dehydratase1.5990.063 218858_atDEPDC6DEP domain containing 61.5960.089 219147_s_atC9orf95chromosome 9 open reading frame 951.5940.045 57540_atRBKSribokinase1.5920.016 209824_s_atARNTLaryl hydrocarbon receptor nuclear translocator-like1.5780.043 207125_atZNF225zinc finger protein 2251.5740.153 220374_atKLHL28kelch-like 28 (Drosophila)1.5740.106 204284_atPPP1R3Cprotein phosphatase 1, regulatory (inhibitor) subunit 3C1.5700.066 206204_atGRB14growth factor receptor-bound protein 141.5700.059 212912_atRPS6KA2ribosomal protein S6 kinase, 90kDa, polypeptide 21.5690.035 221560_atMARK4MAP/microtubule affinity-regulating kinase 41.5670.081 202498_s_atSLC2A3solute carrier family 2 (facilitated glucose transporter), member 31.5650.072 212143_s_atIGFBP3insulin-like growth factor binding protein 31.5640.125 210132_atEFNA3ephrin-A31.5530.033 221053_s_atTDRKHtudor and KH domain containing1.5530.047 205750_atBPHLbiphenyl hydrolase-like (serine hydrolase)1.5520.046 205248_atDOPEY2dopey family member 21.5520.054 211756_atPTHLHparathyroid hormone-like hormone1.5490.081 203722_atALDH4A1aldehyde dehydrogenase 4 family, member A11.5490.029 219270_atCHAC1ChaC, cation transport regulator homolog 1 (E. coli)1.5460.114 215082_atELOVL5ELOVL family member 5, elongation of long chain fatty acids1.5460.053 210954_s_atTSC22D2TSC22 domain family, member 21.5420.045 202284_s_atCDKN1Acyclin-dependent kinase inhibitor 1A (p21, Cip1)1.5410.023 203936_s_atMMP9matrix metallopeptidase 91.5380.064 201044_x_atDUSP1dual specificity phosphatase 11.5360.052 201452_atRHEBRas homolog enriched in brain1.5330.151 204796_atEML1echinoderm microtubule associated protein like 11.5310.111 222043_atCLUclusterin1.5300.029 266_s_atCD24CD24 molecule1.5300.023 218177_atCHMP1Bchromatin modifying protein 1B1.5300.028 219688_atBBS7Bardet-Biedl syndrome 71.5230.060 205769_atSLC27A2solute carrier family 27 (fatty acid transporter), member 21.5220.037 220444_atZNF557zinc finger protein 5571.5220.018 208869_s_atGABARAPL1GABA(A) receptor-associated protein like 11.5180.028 207981_s_atESRRGestrogen-related receptor gamma1.5160.009 219410_atTMEM45Atransmembrane protein 45A1.5100.087 205352_atSERPINI1serpin peptidase inhibitor, clade I (neuroserpin), member 11.5100.030 206483_atLRRC6leucine rich repeat containing 61.5040.133 203604_atZNF516zinc finger protein 5161.5030.038 218631_atAVPI1arginine vasopressin-induced 11.5030.058 Vasilatos et al.

9 IDGene SymbolGene TitleFold ReductionSD 219500_atCLCF1cardiotrophin-like cytokine factor 1-4.6630.014 204747_atIFIT3interferon-induced protein with tetratricopeptide repeats 3-4.2830.017 212776_s_atOBSL1obscurin-like 1-4.1120.029 219911_s_atSLCO4A1solute carrier organic anion transporter family, member 4A1-3.7150.013 60471_atRIN3Ras and Rab interactor 3-3.5460.024 207714_s_atSERPINH1serpin peptidase inhibitor, clade H (heat shock protein 47), member 1, (collagen binding protein 1)-3.3680.017 209676_atTFPItissue factor pathway inhibitor (lipoprotein-associated coagulation inhibitor)-3.2050.026 221270_s_atQTRT1queuine tRNA-ribosyltransferase 1-3.0710.026 202827_s_atMMP14matrix metallopeptidase 14 (membrane-inserted)-3.0480.030 204999_s_atATF5activating transcription factor 5-3.0120.068 201332_s_atSTAT6signal transducer and activator of transcription 6, interleukin-4 induced-2.9700.044 217502_atIFIT2interferon-induced protein with tetratricopeptide repeats 2-2.9460.087 221335_x_atC19orf61chromosome 19 open reading frame 61-2.9230.031 201809_s_atENGendoglin-2.6840.051 213589_s_atB3GNTL1UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase-like 1-2.6190.023 219278_atMAP3K6mitogen-activated protein kinase kinase kinase 6-2.6060.038 207711_atC20orf117chromosome 20 open reading frame 117-2.5740.019 209873_s_atPKP3plakophilin 3-2.5700.049 204503_atEVPLenvoplakin-2.4530.028 209834_atCHST3carbohydrate (chondroitin 6) sulfotransferase 3-2.3990.039 209417_s_atIFI35interferon-induced protein 35-2.3830.003 216250_s_atLPXNleupaxin-2.3640.028 208806_atCHD3chromodomain helicase DNA binding protein 3-2.3400.035 202958_atPTPN9protein tyrosine phosphatase, non-receptor type 9-2.3280.054 219441_s_atLRRK1leucine-rich repeat kinase 1-2.3270.035 218154_atGSDMDgasdermin D-2.3070.057 202240_atPLK1polo-like kinase 1 (Drosophila)-2.2480.025 214927_atITGBL1integrin, beta-like 1 (with EGF-like repeat domains)-2.2450.008 222062_atIL27RAinterleukin 27 receptor, alpha-2.2380.001 210510_s_atNRP1neuropilin 1-2.2160.072 41386_i_atKDM6Blysine (K)-specific demethylase 6B-2.1720.045 217937_s_atHDAC7histone deacetylase 7-2.1710.013 219594_atNINJ2ninjurin 2-2.1680.050 221519_atFBXW4F-box and WD repeat domain containing 4-2.1370.015 37793_r_atRAD51L3RAD51-like 3 (S. cerevisiae)-2.1340.033 219080_s_atCTPS2CTP synthase II-2.1310.008 215429_s_atZNF428zinc finger protein 428-2.1150.018 213323_s_atZC3H7Bzinc finger CCCH-type containing 7B-2.1020.067 214881_s_atUBTFupstream binding transcription factor, RNA polymerase I-2.0970.012 203723_atITPKBinositol 1,4,5-trisphosphate 3-kinase B-2.0900.021 219861_atDNAJC17DnaJ (Hsp40) homolog, subfamily C, member 17-2.0700.016 221566_s_atNOL3nucleolar protein 3 (apoptosis repressor with CARD domain)-2.0640.070 211392_s_atPATZ1POZ (BTB) and AT hook containing zinc finger 1-2.0600.024 210340_s_atCSF2RAcolony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)-2.0460.044 221610_s_atSTAP2signal transducing adaptor family member 2-2.0190.016 206767_atRBMS3RNA binding motif, single stranded interacting protein 3-2.0110.057 203866_atNLE1notchless homolog 1 (Drosophila)-2.0100.043 204038_s_atLPAR1lysophosphatidic acid receptor 1-2.0080.037 212427_atKIAA0368 -2.0030.001 65517_atAP1M2adaptor-related protein complex 1, mu 2 subunit-1.9870.048 220474_atSLC25A21solute carrier family 25 (mitochondrial oxodicarboxylate carrier), member 21-1.9670.051 220169_atTMEM156transmembrane protein 156-1.9260.077 212951_atGPR116G protein-coupled receptor 116-1.9150.019 205379_atCBR3carbonyl reductase 3-1.9130.014 210664_s_atTFPItissue factor pathway inhibitor (lipoprotein-associated coagulation inhibitor)-1.9090.039 215982_s_atDOM3Zdom-3 homolog Z (C. elegans)-1.9000.038 213895_atEMP1epithelial membrane protein 1-1.8950.005 218266_s_atNCS1neuronal calcium sensor 1-1.8940.042 219342_atCASD1CAS1 domain containing 1-1.8810.073 221558_s_atLEF1lymphoid enhancer-binding factor 1-1.8790.023 205090_s_atNAGPAN-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase-1.8780.021 212551_atCAP2CAP, adenylate cyclase-associated protein, 2 (yeast)-1.8740.049 210892_s_atGTF2Igeneral transcription factor IIi-1.8730.035 207247_s_atZFX /// ZFYzinc finger protein, X-linked /// zinc finger protein, Y-linked-1.8620.016 207414_s_atPCSK6proprotein convertase subtilisin/kexin type 6-1.8520.036 209052_s_atWHSC1Wolf-Hirschhorn syndrome candidate 1-1.8500.035 91826_atEPS8L1EPS8-like 1-1.8480.032 219279_atDOCK10dedicator of cytokinesis 10-1.8410.067 204950_atCARD8caspase recruitment domain family, member 8-1.8380.039 219673_atMCM9minichromosome maintenance complex component 9-1.8360.036 218986_s_atDDX60DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-1.8280.033 208719_s_atDDX17DEAD (Asp-Glu-Ala-Asp) box polypeptide 17-1.8230.029 207766_atCDKL1cyclin-dependent kinase-like 1 (CDC2-related kinase)-1.8130.038 204123_atLIG3ligase III, DNA, ATP-dependent-1.8070.015 Table S3. Gene expression reduced by treatment with SAHA in MDA-MB-231 cells. Vasilatos et al.

10 IDGene SymbolGene TitleFold InductionSD 214390_s_atBCAT1branched chain amino-acid transaminase 1, cytosolic-1.8010.039 203964_atNMIN-myc (and STAT) interactor-1.7870.044 202269_x_atGBP1guanylate binding protein 1, interferon-inducible, 67kDa-1.7820.044 211317_s_atCFLARCASP8 and FADD-like apoptosis regulator-1.7760.044 207871_s_atST7suppression of tumorigenicity 7-1.7670.029 38892_atKIAA0240 -1.7510.067 201159_s_atNMT1N-myristoyltransferase 1-1.7470.047 211300_s_atTP53tumor protein p53-1.7440.024 206578_atNKX2-5NK2 transcription factor related, locus 5 (Drosophila)-1.7350.015 215767_atZNF804Azinc finger protein 804A-1.7200.027 204696_s_atCDC25Acell division cycle 25 homolog A (S. pombe)-1.7180.043 218552_atECHDC2enoyl CoA hydratase domain containing 2-1.7180.028 202319_atSENP6SUMO1/sentrin specific peptidase 6-1.7170.049 204401_atKCNN4potassium intermediate/small conductance calcium-activated channel, subfamily N, member 4-1.7070.069 207375_s_atIL15RAinterleukin 15 receptor, alpha-1.7040.015 219491_atLRFN4leucine rich repeat and fibronectin type III domain containing 4-1.6970.044 220643_s_atFAIMFas apoptotic inhibitory molecule-1.6940.036 205726_atDIAPH2diaphanous homolog 2 (Drosophila)-1.6870.071 221826_atANGEL2angel homolog 2 (Drosophila)-1.6820.004 218821_atNPEPL1aminopeptidase-like 1-1.6720.033 213030_s_atPLXNA2plexin A2-1.6700.028 221218_s_atTPK1thiamin pyrophosphokinase 1-1.6670.021 221435_x_atHYIhydroxypyruvate isomerase homolog (E. coli)-1.6630.048 204112_s_atHNMThistamine N-methyltransferase-1.6570.044 205463_s_atPDGFAplatelet-derived growth factor alpha polypeptide-1.6560.004 212494_atTENC1tensin like C1 domain containing phosphatase (tensin 2)-1.6550.031 203887_s_atTHBDthrombomodulin-1.6530.072 211200_s_atEFCAB2EF-hand calcium binding domain 2-1.6510.051 201977_s_atKIAA0141 -1.6450.025 205210_atTGFBRAP1transforming growth factor, beta receptor associated protein 1-1.6410.015 215489_x_atHOMER3homer homolog 3 (Drosophila)-1.6380.064 201932_atLRRC41leucine rich repeat containing 41-1.6370.025 210916_s_atCD44CD44 molecule (Indian blood group)-1.6360.065 46947_atGNL3Lguanine nucleotide binding protein-like 3 (nucleolar)-like-1.6300.036 204493_atBIDBH3 interacting domain death agonist-1.6280.046 205302_atIGFBP1insulin-like growth factor binding protein 1-1.6160.015 218898_atFAM57Afamily with sequence similarity 57, member A-1.6160.047 209938_atTADA2Atranscriptional adaptor 2A-1.6140.049 203506_s_atMED12mediator complex subunit 12-1.6000.009 216836_s_atERBB2v-erb-b2 erythroblastic leukemia viral oncogene homolog 2-1.5960.029 217076_s_atHOXD3homeobox D3-1.5940.022 202137_s_atZMYND11zinc finger, MYND domain containing 11-1.5920.060 206377_atFOXF2forkhead box F2-1.5920.009 205349_atGNA15guanine nucleotide binding protein (G protein), alpha 15 (Gq class)-1.5910.055 218457_s_atDNMT3ADNA (cytosine-5-)-methyltransferase 3 alpha-1.5790.037 203806_s_atFANCAFanconi anemia, complementation group A-1.5690.024 215517_atPYGO1pygopus homolog 1 (Drosophila)-1.5570.025 214496_x_atMYST4MYST histone acetyltransferase (monocytic leukemia) 4-1.5570.014 221849_s_atDCAF15DDB1 and CUL4 associated factor 15-1.5520.038 209040_s_atPSMB8proteasome (prosome, macropain) subunit, beta type, 8 (large multifunctional peptidase 7)-1.5490.053 206805_atSEMA3Asema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3A-1.5450.057 217889_s_atCYBRD1cytochrome b reductase 1-1.5390.032 219749_atSH2D4ASH2 domain containing 4A-1.5380.045 207920_x_atZFXzinc finger protein, X-linked-1.5370.042 217599_s_atMDFICMyoD family inhibitor domain containing-1.5370.041 213437_atRUFY3RUN and FYVE domain containing 3-1.5370.058 212660_atPHF15PHD finger protein 15-1.5370.048 213010_atPRKCDBPprotein kinase C, delta binding protein-1.5310.021 215022_x_atZNF33Bzinc finger protein 33B-1.5290.032 215617_atSPATS2Lspermatogenesis associated, serine-rich 2-like-1.5290.049 48117_atCCDC101coiled-coil domain containing 101-1.5260.018 210278_s_atAP4S1adaptor-related protein complex 4, sigma 1 subunit-1.5210.012 203269_atNSMAFneutral sphingomyelinase (N-SMase) activation associated factor-1.5210.032 213298_atNFICnuclear factor I/C (CCAAT-binding transcription factor)-1.5190.039 219320_atMYO19myosin XIX-1.5190.020 221029_s_atWNT5Bwingless-type MMTV integration site family, member 5B-1.5180.050 218796_atFERMT1fermitin family homolog 1 (Drosophila)-1.5160.051 203260_atHDDC2HD domain containing 2-1.5020.044 Vasilatos et al.


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