Supplementary Table S1. Sensitivity to JQ1 of a Collection of Cancer Cell Lines

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1 Supplementary Table S1. Sensitivity to JQ1 of a Collection of Cancer Cell Lines # Cell_Line Organ Histology MYCN Copy Number LN_IC50 EMax 1 TGBC24TKB Biliary tract Gall bladder 0<cn< ETK-1 Biliary tract Adenocarcinoma 0<cn< TGBC1TKB Biliary tract Gall bladder 0<cn< SW-1710 Bladder Transitional cell carcinoma 0<cn< BFTC-905 Bladder Transitional cell carcinoma 0<cn< SCaBER Bladder Squamous cell carcinoma HT-1197 Bladder Transitional cell carcinoma 0<cn< TCCSUP Bladder Transitional cell carcinoma V Bladder Transitional cell carcinoma 0<cn< V Bladder Transitional cell carcinoma 0<cn< EJ138 Bladder Carcinoma DSH1 Bladder Carcinoma 0<cn< CAL-29 Bladder Transitional cell carcinoma LB831-BLC Bladder Carcinoma 0<cn< J82 Bladder Transitional cell carcinoma 0<cn< Bladder Carcinoma SW 780 Bladder Transitional cell carcinoma 0<cn< RT-112 Bladder Transitional cell carcinoma 0<cn< HT 1376 Bladder Transitional cell carcinoma 0<cn< RT4 Bladder Transitional cell carcinoma 0<cn< RT112/84 Bladder Carcinoma KU Bladder Transitional cell carcinoma 0<cn< UM-UC-3 Bladder Transitional cell carcinoma T24 Bladder Transitional cell carcinoma 0<cn< MG-63 Bone Sarcoma 0<cn< Saos-2 Bone Sarcoma 0<cn< NOS-1 Bone Sarcoma HuO9N2 Bone Sarcoma U-2 OS Bone Sarcoma 0<cn< SJSA-1 Bone Sarcoma 0<cn< CS1R Bone Unknown CAL-72 Bone Sarcoma B PML BK TK Bone Sarcoma G-292 Clone A141B1 Bone Sarcoma HOS Bone Sarcoma 0<cn< MHH-ES-1 Bone Ewing's Sarcoma KHOS-240S Bone Sarcoma OSA 80 Bone Sarcoma CS1 Bone Normal cells KHOS-312H Bone Sarcoma EW-16 Bone Ewing's Sarcoma 0<cn< NY Bone Sarcoma CHSA 0108 Bone Sarcoma B Bone Sarcoma 0<cn< ES8 Bone Ewing's Sarcoma 0<cn< Sarc9371 Bone Sarcoma ES4 Bone Ewing's Sarcoma 0<cn< ES6 Bone Ewing's Sarcoma 0<cn< CHSA8926 Bone Sarcoma CAL-85-1 Breast Adenocarcinoma 0<cn< CAMA-1 Breast Adenocarcinoma 0<cn< HCC1395 Breast Ductal carcinoma HCC1428 Breast Adenocarcinoma HCC1569 Breast Metastatic Carcinoma 0<cn< HCC38 Breast Ductal carcinoma MDA-MB-330 Breast Carcinoma MDA-MB-361 Breast Adenocarcinoma 0<cn< SK-BR-3 Breast Carcinoma EFM-192B Breast Ductal carcinoma OCUB-M Breast Carcinoma 0<cn<

2 # Cell_Line Organ Histology MYCN Copy Number LN_IC50 EMax 61 ZR Breast Ductal carcinoma 0<cn< MDA-MB-453 Breast Metastatic Carcinoma BT-474 Breast Ductal carcinoma 0<cn< MDA-MB-468 Breast Adenocarcinoma 0<cn< HCC70 Breast Ductal carcinoma HCC1419 Breast Ductal carcinoma 0<cn< MB 157 Breast Carcinoma EFM-192A Breast Carcinoma BT-549 Breast Ductal carcinoma EFM-19 Breast Ductal carcinoma 0<cn< MCF7 Breast Adenocarcinoma 0<cn< SW527 Breast Carcinoma JIMT-1 Breast Carcinoma CAL-120 Breast Adenocarcinoma ZR-75-1 Breast Ductal carcinoma AU565 Breast Adenocarcinoma 0<cn< MDA-MB-415 Breast Adenocarcinoma 0<cn< HCC1806 Breast Ductal carcinoma UACC-893 Breast Ductal carcinoma 0<cn< MDA-MB-231 Breast Adenocarcinoma 0<cn< EFM-192C Breast Carcinoma MDA-MB-436 Breast Adenocarcinoma CAL-51 Breast Carcinoma 0<cn< Hs 578T Breast Ductal carcinoma 0<cn< T47D Breast Carcinoma KPL-1 Breast Carcinoma HCC1937 Breast Ductal carcinoma 0<cn< HCC1143 Breast Ductal carcinoma MDA-MB-175-VII Breast Ductal carcinoma 0<cn< BT-20 Breast Ductal carcinoma 0<cn< MT-3 Breast Carcinoma HDQ-P1 Breast Carcinoma HCC1954 Breast Ductal carcinoma 0<cn< MDA-MB-435S Breast Ductal carcinoma DoTc Cervix Carcinoma 0<cn< Ca Ski Cervix Squamous cell carcinoma SISO Cervix Adenocarcinoma MS751 Cervix Carcinoma HT-3 Cervix Carcinoma C-4 II Cervix Carcinoma 0<cn< CAL-39 Cervix Squamous cell carcinoma C-4 I Cervix Carcinoma ME-180 Cervix Carcinoma 0<cn< SKG-IIIb Cervix Squamous cell carcinoma C-33 A Cervix Carcinoma HeLa Cervix Adenocarcinoma SiHa Cervix Squamous cell carcinoma SKG-IIIa Cervix Carcinoma 0<cn< SW756 Cervix Squamous cell carcinoma 0<cn< Hs 588.T Cervix Adenocarcinoma OMC-1 Cervix Squamous cell carcinoma BOKU Cervix Squamous cell carcinoma 0<cn< MG-BA CNS Glioblastoma 0<cn< SVG p12 CNS Glioblastoma GI-1 CNS Glioblastoma 0<cn< no-10 CNS Glioblastoma D-566MG CNS Glioblastoma 0<cn< SNB75 CNS Glioblastoma 0<cn< SK-MG-1 CNS Glioblastoma 0<cn< M059K CNS Glioblastoma M059J CNS Glioblastoma 0<cn< MOG-G-CCM CNS Astrocytoma 0<cn< H4 CNS Glioblastoma 0<cn< KS-1 CNS Glioblastoma 0<cn< no-11 CNS Glioblastoma

3 # Cell_Line Organ Histology MYCN Copy Number LN_IC50 EMax 126 Daoy CNS Medulloblastoma 0<cn< MOG-G-UVW CNS Astrocytoma 0<cn< ONS-76 CNS Medulloblastoma 0<cn< LN-18 CNS Glioblastoma YKG-1 CNS Glioblastoma U-138 MG CNS Glioblastoma N1 CNS Astrocytoma SF-295 CNS Glioblastoma 0<cn< D-247MG CNS Glioblastoma 0<cn< D-542MG CNS Glioblastoma 0<cn< KALS-1 CNS Glioblastoma 0<cn< D-336MG CNS Glioblastoma 0<cn< Hs 683 CNS Glioblastoma B2-17 CNS Glioblastoma 0<cn< D-392MG CNS Glioblastoma 0<cn< D-423MG CNS Glioblastoma 0<cn< T98G CNS Glioblastoma 0<cn< LNZTA3WT4 CNS Glioblastoma GAMG CNS Glioblastoma 0<cn< U373 MG CNS Glioblastoma DK-MG CNS Glioblastoma 0<cn< SW 1783 CNS Astrocytoma U-251 MG CNS Glioblastoma KG-1-C CNS Glioblastoma LNZTA3WT11 CNS Glioblastoma LN-229 CNS Glioblastoma SF126 CNS Glioblastoma 0<cn< YH-13 CNS Glioblastoma 0<cn< GB-1 CNS Glioblastoma DBTRG-05MG CNS Glioblastoma 0<cn< Becker CNS Glioblastoma 0<cn< U-118 MG CNS Glioblastoma 0<cn< A172 CNS Glioblastoma 0<cn< LN-405 CNS Astrocytoma 0<cn< MG-BA CNS Glioblastoma SF268 CNS Glioblastoma 0<cn< KNS-42 CNS Glioblastoma 0<cn< GOS-3 CNS Astrocytoma SNB-19 CNS Glioblastoma 0<cn< D-502MG CNS Glioblastoma 0<cn< KNS-81-FD CNS Glioblastoma 0<cn< CCF-STTG1 CNS Astrocytoma 0<cn< GMS-10 CNS Glioblastoma KINGS-1 CNS Glioblastoma 0<cn< SW 1088 CNS Astrocytoma 0<cn< D-263MG CNS Glioblastoma 0<cn< KYSE-50 Esophagus Squamous cell carcinoma KYSE-270 Esophagus Squamous cell carcinoma KYSE-30 Esophagus Squamous cell carcinoma KYSE-150 Esophagus Squamous cell carcinoma 0<cn< OE21 Esophagus Squamous cell carcinoma T.T Esophagus Squamous cell carcinoma KYSE-410 Esophagus Squamous cell carcinoma 0<cn< KYSE-450 Esophagus Squamous cell carcinoma 0<cn< T.Tn Esophagus Squamous cell carcinoma TE-10 Esophagus Squamous cell carcinoma 0<cn< KYSE-510 Esophagus Squamous cell carcinoma KYSE-220 Esophagus Squamous cell carcinoma TE-15 Esophagus Squamous cell carcinoma TE-5 Esophagus Squamous cell carcinoma 0<cn< KYSE-180 Esophagus Squamous cell carcinoma TE7 Esophagus Adenocarcinoma OE33 Esophagus Adenocarcinoma 0<cn< KYSE-140 Esophagus Squamous cell carcinoma 0<cn< TE-11 Esophagus Squamous cell carcinoma

4 # Cell_Line Organ Histology MYCN Copy Number LN_IC50 EMax 191 COLO-680N Esophagus Squamous cell carcinoma 0<cn< KYSE-520 Esophagus Squamous cell carcinoma OE19 Esophagus Adenocarcinoma 0<cn< TE-9 Esophagus Squamous cell carcinoma 0<cn< HCE7 Esophagus Adenocarcinoma KYSE-70 Esophagus Squamous cell carcinoma 0<cn< TE-12 Esophagus Squamous cell carcinoma 0<cn< TE-1 Esophagus Squamous cell carcinoma 0<cn< HCE-4 Esophagus Squamous cell carcinoma 0<cn< TE-8 Esophagus Squamous cell carcinoma PCI-4A Head & Neck Squamous cell carcinoma BB30-HNC Head & Neck Squamous cell carcinoma PCI-6A Head & Neck Squamous cell carcinoma Ca9-22 Head & Neck Carcinoma 0<cn< SCC-9 Head & Neck Squamous cell carcinoma 0<cn< HSC-2 Head & Neck Squamous cell carcinoma PCI-4B Head & Neck Carcinoma H3118 Head & Neck Carcinoma KOSC-2 cl3-43 Head & Neck Squamous cell carcinoma HSC-3 Head & Neck Squamous cell carcinoma 0<cn< CAL-33 Head & Neck Squamous cell carcinoma 0<cn< LB771-HNC Head & Neck Squamous cell carcinoma RPMI 2650 Head & Neck Squamous cell carcinoma 0<cn< SCC-4 Head & Neck Squamous cell carcinoma BICR 78 Head & Neck Squamous cell carcinoma JHU-011 Head & Neck Squamous cell carcinoma BHY Head & Neck Squamous cell carcinoma 0<cn< SCC-15 Head & Neck Squamous cell carcinoma 0<cn< KON Head & Neck Squamous cell carcinoma Detroit 562 Head & Neck Carcinoma OSC-19 Head & Neck Squamous cell carcinoma PCI-15 Head & Neck Squamous cell carcinoma JHU-029 Head & Neck Squamous cell carcinoma ACCS Head & Neck Adenoid cystic carcinoma FaDu Head & Neck Squamous cell carcinoma SCC-25 Head & Neck Squamous cell carcinoma 0<cn< BICR 10 Head & Neck Squamous cell carcinoma OSC-20 Head & Neck Squamous cell carcinoma BICR 31 Head & Neck Squamous cell carcinoma DOK Head & Neck Dysplastic oral keratinocyte A253 Head & Neck Mucoepidermoid carcinoma 0<cn< SAT Head & Neck Squamous cell carcinoma PCI-15A Head & Neck Squamous cell carcinoma PCI-38 Head & Neck Squamous cell carcinoma HO-1-N-1 Head & Neck Squamous cell carcinoma SACC-83 Head & Neck Adenoid cystic carcinoma HO-1-u-1 Head & Neck Squamous cell carcinoma CAL 27 Head & Neck Squamous cell carcinoma 0<cn< ACC3 Head & Neck Adenoid cystic carcinoma SAS Head & Neck Squamous cell carcinoma 0<cn< SKN-3 Head & Neck Squamous cell carcinoma BICR 22 Head & Neck Squamous cell carcinoma JHU-022 Head & Neck Squamous cell carcinoma RKO Intestine Carcinoma 0<cn< Caco-2 Intestine Adenocarcinoma COLO 205 Intestine Adenocarcinoma 0<cn< Gp2D Intestine Adenocarcinoma 0<cn< C170 Intestine Carcinoma LS-411N Intestine Adenocarcinoma 0<cn< HT-29 Intestine Adenocarcinoma 0<cn< HCT 116 Intestine Carcinoma 0<cn< HRT-18 Intestine Adenocarcinoma WiDr Intestine Adenocarcinoma Hs 257.T Intestine Adenocarcinoma GP5d Intestine Adenocarcinoma 0<cn<

5 # Cell_Line Organ Histology MYCN Copy Number LN_IC50 EMax 256 HCT-15 Intestine Adenocarcinoma 0<cn< COLO 201 Intestine Adenocarcinoma NCI-H747 Intestine Adenocarcinoma 0<cn< LS174T Intestine Adenocarcinoma 0<cn< LoVo Intestine Adenocarcinoma HCC2998 Intestine Adenocarcinoma 0<cn< SW 48 Intestine Adenocarcinoma 0<cn< HUTU-80 Intestine Adenocarcinoma 0<cn< SNU-C2B Intestine Adenocarcinoma 0<cn< HCT-8 Intestine Adenocarcinoma HT115 Intestine Carcinoma RCM-1 Intestine Adenocarcinoma 0<cn< SW620 Intestine Adenocarcinoma 0<cn< COLO-678 Intestine Carcinoma SW 1463 Intestine Adenocarcinoma 0<cn< SW837 Intestine Adenocarcinoma 0<cn< CaR-1 Intestine Adenocarcinoma 0<cn< COLO 741 Intestine Carcinoma 0<cn< OUMS-23 Intestine Carcinoma LS-1034 Intestine Adenocarcinoma 0<cn< HT55 Intestine Carcinoma 0<cn< LS-123 Intestine Adenocarcinoma SK-CO-1 Intestine Adenocarcinoma 0<cn< RCC10RGB Kidney Carcinoma 0<cn< A498 Kidney Carcinoma 0<cn< O Kidney Clear cell renal cell adenocarcinoma 0<cn< Caki-1 Kidney Clear cell renal cell adenocarcinoma 0<cn< UO-31 Kidney Carcinoma G-402 Kidney Leiomyoblastoma 0<cn< VMRC-RCZ Kidney Carcinoma 0<cn< P Kidney Clear cell renal cell adenocarcinoma OS-RC-2 Kidney Carcinoma 0<cn< BFTC-909 Kidney Transitional cell carcinoma 0<cn< TK10 Kidney Carcinoma ACHN Kidney Adenocarcinoma 0<cn< HA7-RCC Kidney Carcinoma 0<cn< LB996-RCC Kidney Carcinoma 0<cn< KMRC-1 Kidney Carcinoma SW 13 Kidney Adrenal cortex adenocarcinoma LB1047-RCC Kidney Carcinoma 0<cn< SN-12C Kidney Carcinoma 0<cn< G-401 Kidney Rhabdoid tumor 0<cn< LB2241-RCC Kidney Carcinoma 0<cn< BB65-RCC Kidney Carcinoma 0<cn< RXF393 Kidney Carcinoma 0<cn< A704 Kidney Carcinoma 0<cn< SNU-398 Liver Carcinoma SNU-387 Liver Carcinoma 0<cn< HuH-7 Liver Carcinoma 0<cn< HuCCT1 Liver Extrahepatic cholangiocarcinoma 0<cn< Hep 3B2.1-7 Liver Carcinoma JHH-1 Liver Carcinoma SNU-182 Liver Carcinoma JHH-6 Liver Carcinoma SNU-423 Liver Carcinoma 0<cn< HLE Liver Carcinoma 0<cn< SK-HEP-1 Liver Adenocarcinoma 0<cn< JHH-7 Liver Carcinoma C3A Liver Carcinoma 0<cn< SNU-449 Liver Carcinoma JHH-4 Liver Carcinoma Hep G2 Liver Carcinoma HLF Liver Carcinoma EGI-1 Liver Extrahepatic cholangiocarcinoma 0<cn< PLC/PRF/5 Liver Carcinoma 0<cn<

6 # Cell_Line Organ Histology MYCN Copy Number LN_IC50 EMax 321 huh-1 Liver Carcinoma HOP-62 Lung Adenocarcinoma 0<cn< SBC-3 Lung Small cell carcinoma IA-LM Lung Large cell carcinoma 0<cn< NCI-H727 Lung Carcinoma 0<cn< UMC-11 Lung Carcinoma 0<cn< H2052 Lung Mesothelioma cn DMS 273 Lung Small cell carcinoma 0<cn< LC-2-ad Lung Adenocarcinoma H2731 Lung Mesothelioma LXF-289 Lung Adenocarcinoma SBC-5 Lung Small cell carcinoma 0<cn< NCI-H157 Lung Squamous cell carcinoma 0<cn< H2369 Lung Mesothelioma H2722 Lung Mesothelioma Lu-135 Lung Small cell carcinoma H2461 Lung Mesothelioma H2595 Lung Mesothelioma SW 1271 Lung Carcinoma H292 Lung Pulmonary mucoepidermoid carcinoma 0<cn< H2804 Lung Mesothelioma H2803 Lung Mesothelioma H2596 Lung Mesothelioma NCI-H196 Lung Small cell carcinoma Calu-6 Lung Adenocarcinoma 0<cn< H2591 Lung Mesothelioma NCI-H1355 Lung Adenocarcinoma 0<cn< IST-MES1 Lung Mesothelioma H2795 Lung Mesothelioma NCI-H2126 Lung Adenocarcinoma 0<cn< H2373 Lung Mesothelioma DMS 53 Lung Small cell carcinoma H28 Lung Mesothelioma 0<cn< H290 Lung Mesothelioma NCI-H2452 Lung Mesothelioma 0<cn< MPP-89 Lung Mesothelioma 0<cn< EKVX Lung Adenocarcinoma H2869 Lung Mesothelioma NCI-H841 Lung Small cell carcinoma NCI-H2286 Lung Carcinoma H513 Lung Mesothelioma COR-L 105 Lung:NSCLC Adenocarcinoma 0<cn< LCLC-97TM1 Lung:NSCLC Large cell carcinoma 0<cn< BEN Lung:NSCLC Carcinoma 0<cn< VMRC-LCP Lung:NSCLC Squamous cell carcinoma cn NCI-H650 Lung:NSCLC Carcinoma 0<cn< LU65A Lung:NSCLC Giant cell carcinoma HCC-44 Lung:NSCLC Carcinoma LU99C Lung:NSCLC Giant cell carcinoma SK-MES-1 Lung:NSCLC Squamous cell carcinoma 0<cn< NCI-H2009 Lung:NSCLC Adenocarcinoma 0<cn< NCI-H1437 Lung:NSCLC Adenocarcinoma 0<cn< NCI-H522 Lung:NSCLC Carcinoma 0<cn< NCI-H810 Lung:NSCLC Large cell carcinoma NCI-H2342 Lung:NSCLC Adenocarcinoma 0<cn< LU99B Lung:NSCLC Giant cell carcinoma NCI-H1944 Lung:NSCLC Carcinoma LU65C Lung:NSCLC Giant cell carcinoma NCI-H2073 Lung:NSCLC Adenocarcinoma LCLC-103H Lung:NSCLC Large cell carcinoma 0<cn< NCI-H460 Lung:NSCLC Large cell carcinoma 0<cn< NCI-H596 Lung:NSCLC Squamous cell carcinoma 0<cn< T Lung:NSCLC Squamous cell carcinoma NCI-H1299 Lung:NSCLC Large cell carcinoma 0<cn< NCI-H3122 Lung:NSCLC Adenocarcinoma

7 # Cell_Line Organ Histology MYCN Copy Number LN_IC50 EMax 386 NCI-H1755 Lung:NSCLC Adenocarcinoma 0<cn< NCI-H2122 Lung:NSCLC Adenocarcinoma NCI-H1650 Lung:NSCLC Carcinoma NCI-H2030 Lung:NSCLC Adenocarcinoma 0<cn< ABC-1 Lung:NSCLC Adenocarcinoma 0<cn< T Lung:NSCLC Adenocarcinoma Calu-3 Lung:NSCLC Adenocarcinoma SK-LU-1 Lung:NSCLC Adenocarcinoma 0<cn< NCI-H2347 Lung:NSCLC Carcinoma 0<cn< NCI-H2085 Lung:NSCLC Carcinoma LC-1 sq Lung:NSCLC Squamous cell carcinoma HCC-366 Lung:NSCLC Carcinoma NCI-H520 Lung:NSCLC Squamous cell carcinoma 0<cn< NCI-H322 Lung:NSCLC Carcinoma NCI-H1693 Lung:NSCLC Adenocarcinoma 0<cn< Calu-1 Lung:NSCLC Carcinoma 0<cn< NCI-H2110 Lung:NSCLC Carcinoma LU99A Lung:NSCLC Giant cell carcinoma 0<cn< A549 Lung:NSCLC Carcinoma 0<cn< NCI-H2023 Lung:NSCLC Carcinoma NCI-H1734 Lung:NSCLC Adenocarcinoma 0<cn< NCI-H1568 Lung:NSCLC Carcinoma NCI-H1975 Lung:NSCLC Adenocarcinoma 0<cn< NCI-H441 Lung:NSCLC Carcinoma 0<cn< ChaGo-K-1 Lung:NSCLC Carcinoma HCC-15 Lung:NSCLC Carcinoma NCI-H2228 Lung:NSCLC Adenocarcinoma NCI-H358 Lung:NSCLC Carcinoma 0<cn< HARA Lung:NSCLC Squamous cell carcinoma NCI-H1915 Lung:NSCLC Carcinoma NCI-H2405 Lung:NSCLC Adenocarcinoma 0<cn< DV-90 Lung:NSCLC Adenocarcinoma 0<cn< NCI-H1651 Lung:NSCLC Adenocarcinoma NCI-H1648 Lung:NSCLC Adenocarcinoma 0<cn< NCI-H838 Lung:NSCLC Carcinoma 0<cn< NCI-H661 Lung:NSCLC Large cell carcinoma 0<cn< PC-14 Lung:NSCLC Adenocarcinoma 0<cn< COR-L23 Lung:NSCLC Large cell carcinoma 0<cn< PC-3 [JPC-3] Lung:NSCLC Adenocarcinoma NCI-H2172 Lung:NSCLC Carcinoma NCI-H1435 Lung:NSCLC Carcinoma NCI-H1993 Lung:NSCLC Adenocarcinoma 0<cn< RERF-LC-MS Lung:NSCLC Adenocarcinoma 0<cn< NCI-H1793 Lung:NSCLC Adenocarcinoma 0<cn< HOP92 Lung:NSCLC Large cell carcinoma 0<cn< NCI-H2170 Lung:NSCLC Squamous cell carcinoma 0<cn< NCI-H1703 Lung:NSCLC Squamous cell carcinoma 0<cn< LK-2 Lung:NSCLC Squamous cell carcinoma SW 1573 Lung:NSCLC Adenocarcinoma 0<cn< CAL-12T Lung:NSCLC Carcinoma 0<cn< NCI-H1792 Lung:NSCLC Adenocarcinoma 0<cn< NCI-H1781 Lung:NSCLC Adenocarcinoma SW 900 Lung:NSCLC Squamous cell carcinoma HCC-827 Lung:NSCLC Carcinoma RERF-LC-Sq1 Lung:NSCLC Squamous cell carcinoma NCI-H1623 Lung:NSCLC Adenocarcinoma 0<cn< NCI-H1563 Lung:NSCLC Adenocarcinoma SW982 Misc Sarcoma 0<cn< SK-LMS-1 Misc Sarcoma 0<cn< SW872 Misc Liposarcoma 0<cn< VA-ES-BJ Misc Sarcoma 0<cn< SW684 Misc Fibrosarcoma 0<cn< MFH-ino Misc Malignant fibrous histiocytoma 0<cn< BeWo Miscellaneous Choriocarcinoma Hs 633T Miscellaneous Fibrosarcoma

8 # Cell_Line Organ Histology MYCN Copy Number LN_IC50 EMax 451 HT 1080 Miscellaneous Fibrosarcoma 0<cn< GCT Miscellaneous Malignant fibrous histiocytoma 0<cn< SK-UT-1 Muscle Leiomyosarcoma A-204 Muscle Rhabdomyosarcoma 0<cn< RH-30 Muscle Rhabdomyosarcoma RD Muscle Rhabdomyosarcoma 0<cn< OVTOKO Ovary Adenocarcinoma IGROV-1 Ovary Carcinoma 0<cn< FU-OV-1 Ovary Carcinoma KGN Ovary Granulosa cell tumor 0<cn< OC-314 Ovary Carcinoma SK-OV-3 Ovary Adenocarcinoma 0<cn< OVMIU Ovary Adenocarcinoma PA-1 Ovary Teratocarcinoma 0<cn< EFO-27 Ovary Adenocarcinoma 0<cn< OVCAR-8 Ovary Carcinoma 0<cn< MDA-H2774 Ovary Carcinoma KURAMOCHI Ovary Carcinoma 0<cn< SW 626 Ovary Adenocarcinoma RMG-I Ovary Mesonephroid adenocarcinoma 0<cn< OVISE Ovary Adenocarcinoma EFO-21 Ovary Carcinoma NCI/ADR-RES Ovary Carcinoma 0<cn< NIH:OVCAR-3 Ovary Adenocarcinoma 0<cn< OVCAR-4 Ovary Carcinoma 0<cn< A2780cis Ovary Carcinoma TOV-21G Ovary Adenocarcinoma OV-90 Ovary Adenocarcinoma OAW42 Ovary Carcinoma 0<cn< OVCAR-5 Ovary Carcinoma 0<cn< OVSAYO Ovary Adenocarcinoma RKN Ovary Myoma MCAS Ovary Adenocarcinoma TYK-nu Ovary Carcinoma OAW28 Ovary Carcinoma A2780ADR Ovary Carcinoma OVKATE Ovary Adenocarcinoma SUIT-2 Pancreas Adenocarcinoma BxPC-3 Pancreas Adenocarcinoma 0<cn< PL18 Pancreas Carcinoma CFPAC-1 Pancreas Adenocarcinoma 0<cn< MZ1-PC Pancreas Carcinoma Panc Pancreas Adenocarcinoma 0<cn< SU Pancreas Adenocarcinoma KP-1NL Pancreas Carcinoma PA-TU-8988T Pancreas Adenocarcinoma MIA PaCa-2 Pancreas Adenocarcinoma Panc Pancreas Adenocarcinoma HUP-T4 Pancreas Carcinoma 0<cn< Panc Pancreas Adenocarcinoma 0<cn< HPAF-II Pancreas Adenocarcinoma 0<cn< KP-1N Pancreas Carcinoma A13A Pancreas Carcinoma Hs 766T Pancreas Adenocarcinoma MP2 Pancreas Adenocarcinoma MP17 Pancreas Adenosquamous carcinoma PL45 Pancreas Adenocarcinoma Panc Pancreas Adenocarcinoma MP5 Pancreas IPMN MP9 Pancreas Adenocarcinoma SW 1990 Pancreas Adenocarcinoma 0<cn< HUP-T3 Pancreas Carcinoma 0<cn< PL4 Pancreas Carcinoma PA-TU-8902 Pancreas Adenocarcinoma Panc Pancreas Adenocarcinoma 0<cn<

9 # Cell_Line Organ Histology MYCN Copy Number LN_IC50 EMax 516 AsPC-1 Pancreas Adenocarcinoma 0<cn< YAPC Pancreas Carcinoma 0<cn< PANC-1 Pancreas Adenocarcinoma DAN-G Pancreas Adenocarcinoma Capan-2 Pancreas Adenocarcinoma 0<cn< PSN1 Pancreas Carcinoma 0<cn< NB69 PNS Neuroblastoma cn CHP-212 PNS Neuroblastoma cn ACN PNS Neuroblastoma 0<cn< NB16 PNS Neuroblastoma 0<cn< BE(2)-C PNS Neuroblastoma MC-IXC PNS Neuroepithelia 0<cn< SK-N-SH PNS Neuroblastoma 0<cn< NB12 PNS Neuroblastoma 0<cn< GI-ME-N PNS Neuroblastoma 0<cn< SK-N-AS PNS Neuroblastoma 0<cn< BPH-1 Prostate Benign 0<cn< DU 145 Prostate Adenocarcinoma 0<cn< RV1 Prostate Adenocarcinoma 0<cn< PC-3 Prostate Adenocarcinoma 0<cn< HCE-T Sinus Squamous cell carcinoma 0<cn< COLO-679 Skin Melanoma 0<cn< MEL-HO Skin Melanoma 0<cn< MGH-ST-1 Skin Melanoma WM35 Skin Melanoma CHL-1 Skin Melanoma 0<cn< Lu Skin Melanoma MGH-PO-1 Skin Melanoma MGH-BO-1 Skin Melanoma SK-MEL-24 Skin Melanoma 0<cn< MGH-TH-1 Skin Melanoma SH-4 Skin Melanoma 0<cn< MM608 Skin Melanoma SK-MEL-30 Skin Melanoma 0<cn< IPC-298 Skin Melanoma 0<cn< COLO 857 Skin Melanoma MGH-SW-1 Skin Melanoma WM1158 Skin Melanoma WM793B Skin Melanoma K4 Skin Melanoma M-14 Skin Melanoma 0<cn< MZ7-mel Skin Melanoma 0<cn< WM164 Skin Melanoma A373-C6 Skin Melanoma A375.S2 Skin Melanoma IGR-1 Skin Melanoma 0<cn< A101D Skin Melanoma 0<cn< Hs 940.T Skin Melanoma WM278 Skin Melanoma MGH-MC-1 Skin Melanoma HT-144 Skin Melanoma 0<cn< MGH-BA-1 Skin Melanoma IST-MEL1 Skin Melanoma BU-ML Skin Melanoma UISO-MCC 1 Skin Merkel cell carcinoma COLO-849 Skin Melanoma COLO 853 Skin Melanoma IGR-37 Skin Melanoma Hs 939.T Skin Melanoma Lu Skin Melanoma IGR-39 Skin Melanoma NAE Skin Melanoma WM1552C Skin Melanoma K19 Skin Melanoma CP50-MEL-B Skin Melanoma 0<cn<

10 # Cell_Line Organ Histology MYCN Copy Number LN_IC50 EMax 581 UACC-62 Skin Melanoma 0<cn< WM Skin Melanoma RVH-421 Skin Melanoma 0<cn< LB373-MEL-D Skin Melanoma 0<cn< SK-MEL-3 Skin Melanoma MEL-JUSO Skin Melanoma 0<cn< DJM-1 Skin Malignant trichilemmal cyst 0<cn< COLO-829 Skin Melanoma 0<cn< MM455 Skin Melanoma MMAC-SF Skin Melanoma 0<cn< MGH-MCC-1 Skin Merkel cell carcinoma UACC903 Skin Melanoma Hs 944.T Skin Melanoma HMVII Skin Melanoma 0<cn< SK-MEL-5 Skin Melanoma 0<cn< COLO-818 Skin Melanoma MCC13 Skin Merkel cell carcinoma SK-MEL-119 Skin Melanoma UACC-257 Skin Melanoma 0<cn< SK-MEL-131 Skin Melanoma K2 Skin Melanoma A-375 Skin Melanoma 0<cn< GAK Skin Melanoma 0<cn< MZ2-MEL. Skin Melanoma 0<cn< CP66-MEL Skin Melanoma 0<cn< A2058 Skin Melanoma 0<cn< WM239A Skin Melanoma WM902B Skin Melanoma MCC26 Skin Merkel cell carcinoma LB2518-MEL Skin Melanoma 0<cn< SK-MEL-37 Skin Melanoma G-MEL Skin Melanoma K8 Skin Melanoma MEWO Skin Melanoma 0<cn< SK-MEL-28 Skin Melanoma 0<cn< WM-115 Skin Melanoma 0<cn< COLO-800 Skin Melanoma C32 Skin Melanoma 0<cn< HGC-27 Stomach Adenocarcinoma 0<cn< IM-95m Stomach Adenocarcinoma MKN74 Stomach Adenocarcinoma IM-95 Stomach Adenocarcinoma GT3TKB Stomach Adenocarcinoma 0<cn< AGS Stomach Adenocarcinoma 0<cn< MKN1 Stomach Squamous cell carcinoma 0<cn< ECC12 Stomach Adenocarcinoma MKN45 Stomach Adenocarcinoma GCIY Stomach Adenocarcinoma 0<cn< MKN28 Stomach Adenocarcinoma 0<cn< GTL-16 Stomach Carcinoma /87 Stomach Adenocarcinoma 0<cn< TMK-1 Stomach Adenocarcinoma NUGC-3 Stomach Carcinoma 0<cn< AZ-521 Stomach Adenocarcinoma NCI-N87 Stomach Adenocarcinoma 0<cn< NUGC-4 Stomach Adenocarcinoma NTERA-S-cl-D1 Testes Germ cell tumor CGTH-W-1 Thyroid Follicular carcinoma 0<cn< KMH-2 Thyroid Anaplastic carcinoma CAL-62 Thyroid Anaplastic carcinoma 0<cn< TT2609-C02 Thyroid Follicular carcinoma C Thyroid Anaplastic carcinoma 0<cn< HTC-C3 Thyroid Carcinoma 0<cn< B-CPAP Thyroid Anaplastic carcinoma 0<cn< FTC-238 Thyroid Follicular carcinoma

11 # Cell_Line Organ Histology MYCN Copy Number LN_IC50 EMax 646 ML-1 Thyroid Follicular carcinoma C Thyroid Anaplastic carcinoma ASH-3 Thyroid Anaplastic carcinoma BHT-101 Thyroid Anaplastic carcinoma 0<cn< K5 Thyroid Follicular carcinoma 0<cn< S-117 Thyroid Sarcoma RO82-W-1 Thyroid Follicular carcinoma FTC-133 Thyroid Follicular carcinoma TT Thyroid Medullary carcinoma 0<cn< A388 Unknown Carcinoma 0<cn< Ishikawa Uterus Adenocarcinoma KLE Uterus Adenocarcinoma 0<cn< MFE-319 Uterus Adenocarcinoma MES-SA Uterus Sarcoma 0<cn< HEC-1 Uterus Adenocarcinoma MES-SA/Dx-5 Uterus Sarcoma SNG-M Uterus Adenocarcinoma 0<cn< JEG-3 Uterus Choriocarcinoma ESS-1 Uterus Sarcoma 0<cn< RL95-2 Uterus Squamous cell carcinoma 0<cn< MFE-296 Uterus Adenocarcinoma 0<cn< Ishikawa (Heraklio) 02 ER- Uterus Adenocarcinoma EFE-184 Uterus Carcinoma 0<cn< MFE-280 Uterus Adenocarcinoma 0<cn< AN3CA Uterus Adenocarcinoma 0<cn< EN Uterus Carcinoma SW954 Vulva Squamous cell carcinoma 0<cn< SW962 Vulva Squamous cell carcinoma

12 Supplementary Table S2. GI 50 and E max for multiple neuroblastoma cell lines treated with active or inactive BET inhibitors. BE(2)-C Kelly LAN-1 NGP SH-SY5Y SK-N-AS GI 50 (μm) E max (%) GI 50 (μm) E max (%) GI 50 (μm) E max (%) GI 50 (μm) E max (%) GI 50 (μm) E max (%) GI 50 (μm) E max (%) JQ1R ND ND 44 ND 49 ND 41 JQ1S ND I-BET ND ND 41 I-BET ND ND 24

13 Supplementary Table S3. Genes differentially expressed in JQ1 vs Vehicle treated neuroblastoma # vs_ct GeneSymbol GeneTitle SNR Pvalue FDR (BH) log2(fold Change) CT_ CT_ Std Std 1 Down GTF3C6 general transcription factor IIIC, polypeptide 6, alpha 35kDa E E Down HDAC9 histone deacetylase E E Down UTRN utrophin E E Down TBL1XR1 transducin (beta)-like 1 X-linked receptor E E Down ZMYND8 zinc finger, MYND-type containing E E Down DLAT dihydrolipoamide S-acetyltransferase E E Down BATF3 basic leucine zipper transcription factor, ATF-like E E Down FAM101A family with sequence similarity 101, member A E E Down C14orf1 chromosome 14 open reading frame E E Down RAB7L1 RAB7, member RAS oncogene family-like E E Down LTV1 LTV1 homolog (S. cerevisiae) E E Down C18orf55 chromosome 18 open reading frame E E Down TH tyrosine hydroxylase E E Down HOXC8 homeobox C E E Down LOC hypothetical LOC E E Down SULF2 sulfatase E E Down PA2G4 proliferation-associated 2G4, 38kDa E E Down RNF157 ring finger protein E E Down ASB13 ankyrin repeat and SOCS box-containing E E Down RAC3 ras-related C3 botulinum toxin substrate 3 (rho family, small GTP E E Down HEATR2 HEAT repeat containing E E Down SLC5A6 solute carrier family 5 (sodium-dependent vitamin transporter), m E E Down SORBS3 sorbin and SH3 domain containing E E Down ITPRIPL2 inositol 1,4,5-triphosphate receptor interacting protein-like E E Down PON2 paraoxonase E E Down RGS19 regulator of G-protein signaling E E Down TBL2 transducin (beta)-like E E Down SLC18A1 solute carrier family 18 (vesicular monoamine), member E E Down OAF OAF homolog (Drosophila) E E Down C5orf43 chromosome 5 open reading frame E E Down ADORA2B adenosine A2b receptor E E Down MAPK3 mitogen-activated protein kinase E E Down TOMM40L translocase of outer mitochondrial membrane 40 homolog (yeast) E E Down LRP8 low density lipoprotein receptor-related protein 8, apolipoprotein e E E Down AEBP1 AE binding protein E E Down JAM2 junctional adhesion molecule E E Down CC2D2A coiled-coil and C2 domain containing 2A E E Down MTHFD1L methylenetetrahydrofolate dehydrogenase (NADP+ dependent) E E Down TFAP2B transcription factor AP-2 beta (activating enhancer binding protein E E Down PLIN3 perilipin E E Down ANK3 ankyrin 3, node of Ranvier (ankyrin G) E E Down RAB33A RAB33A, member RAS oncogene family E E Down ARHGAP23 Rho GTPase activating protein E E Down MRPL15 mitochondrial ribosomal protein L E E Down AS3MT arsenic (+3 oxidation state) methyltransferase E E Down UBL4A ubiquitin-like 4A E E Down MRPL11 mitochondrial ribosomal protein L E E Down NOP16 NOP16 nucleolar protein homolog (yeast) E E Down CHRM1 cholinergic receptor, muscarinic E E Down C1orf31 chromosome 1 open reading frame E E Down MCHR1 melanin-concentrating hormone receptor E E Down C6orf192 chromosome 6 open reading frame E E Down AIFM2 apoptosis-inducing factor, mitochondrion-associated, E E Down C8orf38 chromosome 8 open reading frame E E Down ZC3H7B zinc finger CCCH-type containing 7B E E Down CDK5RAP2 CDK5 regulatory subunit associated protein E E Down CDCA3 cell division cycle associated E E Down SENP3 SUMO1/sentrin/SMT3 specific peptidase E E Down BDH1 3-hydroxybutyrate dehydrogenase, type E E Down ZNF573 zinc finger protein E E Down L3MBTL2 l(3)mbt-like 2 (Drosophila) E E Down LOC signal peptidase complex subunit 2 homolog pseudogen E E Down BIRC5 baculoviral IAP repeat-containing E E Down TXNDC15 thioredoxin domain containing E E Down LRRC34 leucine rich repeat containing E E

14 # vs_ct GeneSymbol GeneTitle SNR Pvalue FDR (BH) log2(fold Change) CT_ CT_ Std Std 66 Down ZBTB2 zinc finger and BTB domain containing E E Down FDXACB1 ferredoxin-fold anticodon binding domain containing E E Down TRMT1 TRM1 trna methyltransferase 1 homolog (S. cerevisiae) E E Down KLHDC5 kelch domain containing E E Down HMP19 HMP19 protein E E Down IL12A interleukin 12A (natural killer cell stimulatory factor 1, cytotoxic lym E E Down GRWD1 glutamate-rich WD repeat containing E E Down MAGOHB mago-nashi homolog B (Drosophila) E E Down GINS1 GINS complex subunit 1 (Psf1 homolog) E E Down FAM13A family with sequence similarity 13, member A E E Down APBA2 amyloid beta (A4) precursor protein-binding, family A, member E E Down IMPDH1 IMP (inosine 5'-monophosphate) dehydrogenase E E Down CAB39L calcium binding protein 39-like E E Down RNF112 ring finger protein E E Down BCAT1 branched chain amino-acid transaminase 1, cytosolic E E Down UROD uroporphyrinogen decarboxylase E E Down TMEM100 transmembrane protein E E Down BRIX1 BRX1, biogenesis of ribosomes, homolog (S. cerevisiae) E E Down ADAT2 adenosine deaminase, trna-specific 2, TAD2 homolog (S. cerev E E Down ANKRD43 ankyrin repeat domain E E Down FAM35A family with sequence similarity 35, member A E E Down MRPL3 mitochondrial ribosomal protein L E E Down BCL2 B-cell CLL/lymphoma E E Down F12 coagulation factor XII (Hageman factor) E E Down SLITRK5 SLIT and NTRK-like family, member E E Down MAP2 microtubule-associated protein E E Down HEBP2 heme binding protein E E Down SEMA6D sema domain, transmembrane domain (TM), and cytoplasmic dom E E Down SERF1A small EDRK-rich factor 1A (telomeric) E E Down MCPH1 microcephalin E E Down CNRIP1 cannabinoid receptor interacting protein E E Down NME1 non-metastatic cells E E Down DPP7 dipeptidyl-peptidase E E Down RASL10B RAS-like, family 10, member B E E Down NOL12 nucleolar protein E E Down NUP205 nucleoporin 205kDa E E Down TRAF5 TNF receptor-associated factor E E Down EML3 echinoderm microtubule associated protein like E E Down PEMT phosphatidylethanolamine N-methyltransferase E E Down HAX1 HCLS1 associated protein X E E Down BEND3 BEN domain containing E E Down EMILIN1 elastin microfibril interfacer E E Down OBFC2B oligonucleotide/oligosaccharide-binding fold containing 2B E E Down TUB tubby homolog (mouse) E E Down TCF7 transcription factor 7 (T-cell specific, HMG-box) E E Down ZFP36L2 zinc finger protein 36, C3H type-like E E Down LSM3 LSM3 homolog, U6 small nuclear RNA associated (S. cerevisiae) E E Down ALKBH8 alkb, alkylation repair homolog 8 (E. coli) E E Down E2F8 E2F transcription factor E E Down PDGFRB platelet-derived growth factor receptor, beta polypeptide E E Down DEDD death effector domain containing E E Down PDE4B phosphodiesterase 4B, camp-specific E E Down ARMC6 armadillo repeat containing E E Down SLC35F2 solute carrier family 35, member F E E Down AURKA aurora kinase A E E Down BAI3 brain-specific angiogenesis inhibitor E E Down DCLRE1A DNA cross-link repair 1A E E Down WDR35 WD repeat domain E E Down DKK1 dickkopf homolog 1 (Xenopus laevis) E E Down PTPRU protein tyrosine phosphatase, receptor type, U E E Down SLC3A2 solute carrier family 3 (activators of dibasic and neutral amino aci E E Down KCNMA1 potassium large conductance calcium-activated channel, subfami E E Down PPIL1 peptidylprolyl isomerase (cyclophilin)-like E E Down NPM3 nucleophosmin/nucleoplasmin E E Down KEAP1 kelch-like ECH-associated protein E E Down RNASEH2B ribonuclease H2, subunit B E E Down APOBEC3C apolipoprotein B mrna editing enzyme, catalytic polypeptide-like E E Down SYN2 synapsin II E E Down SENP1 SUMO1/sentrin specific peptidase E E Down SPAG5 sperm associated antigen E E

15 # vs_ct GeneSymbol GeneTitle SNR Pvalue FDR (BH) log2(fold Change) CT_ CT_ Std Std 136 Down DCTPP1 dctp pyrophosphatase E E Down ATP5G1 ATP synthase, H+ transporting, mitochondrial Fo complex, subun E E Down INO80E INO80 complex subunit E E E Down C1orf216 chromosome 1 open reading frame E E Down TTC27 tetratricopeptide repeat domain E E Down PRRT4 proline-rich transmembrane protein E E Down ADAM12 ADAM metallopeptidase domain E E Down KCNG3 potassium voltage-gated channel, subfamily G, member E E Down CCDC59 coiled-coil domain containing E E Down PCDH1 protocadherin E E Down ANP32A acidic (leucine-rich) nuclear phosphoprotein 32 family, member A E E Down LZTS2 leucine zipper, putative tumor suppressor E E Down NUDC nuclear distribution gene C homolog (A. nidulans) E E Down DENND1B DENN/MADD domain containing 1B E E Down DCAF4 DDB1 and CUL4 associated factor E E Down ABHD14A abhydrolase domain containing 14A E E Down CAMK1D calcium/calmodulin-dependent protein kinase ID E E Down TIMM13 translocase of inner mitochondrial membrane 13 homolog (yeast) E E Down EXOSC8 exosome component E E Down PLD6 phospholipase D family, member E E Down HSPC159 galectin-related protein E E Down DAZAP1 DAZ associated protein E E Down ZNF629 zinc finger protein E E Down SERTAD4 SERTA domain containing E E Down PSMD11 proteasome (prosome, macropain) 26S subunit, non-atpase, E E Down CUTA cuta divalent cation tolerance homolog (E. coli) E E Down CAND2 cullin-associated and neddylation-dissociated 2 (putative) E E Down FAR2 fatty acyl CoA reductase E E Down ATF1 activating transcription factor E E Down APH1A anterior pharynx defective 1 homolog A (C. elegans) E E Down AMMECR1 Alport syndrome, mental retardation, midface hypoplasia and ellip E E Down GPR19 G protein-coupled receptor E E Down SEMA3E sema domain, immunoglobulin domain (Ig), short basic domain, s E E Down PTRH2 peptidyl-trna hydrolase E E Down LDLR low density lipoprotein receptor E E Down ELOVL6 ELOVL family member 6, elongation of long chain fatty acids (FE E E Down ITGB1BP1 integrin beta 1 binding protein E E Down TMEM33 transmembrane protein E E Down ABLIM1 actin binding LIM protein E E Down SLC7A5 solute carrier family 7 (cationic amino acid transporter, y+ system E E Down CARM1 coactivator-associated arginine methyltransferase E E Down ATPIF1 ATPase inhibitory factor E E Down RBMXL1 RNA binding motif protein, X-linked-like E E Down KCTD15 potassium channel tetramerisation domain containing E E Down CCDC58 coiled-coil domain containing E E Down CHD3 chromodomain helicase DNA binding protein E E Down FAM189B family with sequence similarity 189, member B E E Down C1orf174 chromosome 1 open reading frame E E Down IGF2AS insulin-like growth factor 2 antisense E E Down IPO8 importin E E Down MGST2 microsomal glutathione S-transferase E E Down CUL4A cullin 4A E E Down TSEN2 trna splicing endonuclease 2 homolog (S. cerevisiae) E E Down CENPK centromere protein K E E Down ERF Ets2 repressor factor E E Down CNGB1 cyclic nucleotide gated channel beta E E Down PMP22 peripheral myelin protein E E Down MRPS18C mitochondrial ribosomal protein S18C E E Up ADI1 acireductone dioxygenase E E Up OSTM1 osteopetrosis associated transmembrane protein E E Up PAPD5 PAP associated domain containing E E Up IFNAR2 interferon (alpha, beta and omega) receptor E E Up HEXDC hexosaminidase (glycosyl hydrolase family 20, catalytic domain) c E E Up FAM173A family with sequence similarity 173, member A E E Up TUBB3 tubulin, beta E E Up RPGR retinitis pigmentosa GTPase regulator E E Up EEF2 eukaryotic translation elongation factor E E Up DUSP14 dual specificity phosphatase E E Up SLC30A9 solute carrier family 30 (zinc transporter), member E E Up CCDC126 coiled-coil domain containing E E