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Supplemental Table S4. Foundation Medicine 404 Gene Panel for Hematologic Malignancies – January 2014 to Present (N = 141) DNA – Entire Coding Sequence (Base Substitutions, Indels, Copy Number Alterations) ABI1 BRIP1 CRLF2 FANCD2 GRIN2A JARID2 MKI67 PC RUNX1 TCF3 ACTB BRSK1 CSF1R FANCE GSK3B JUN MLH1 PCBP1 RUNX1T1 TCL1A ADGRA2 BTG1 CSF3R FANCF GTSE1 KAT6A MPL PCLO S1PR2 TET2 AKT1 BTG2 CTCF FANCG HDAC1 KDM2B MRE11 PDCD1 SDHA TGFBR2 AKT2 BTK CTNNA1 FANCL HDAC4 KDM4C MSH2 PDCD11 SDHB TLL2 AKT3 BTLA CTNNB1 FAS HDAC7 KDM5A MSH3 PDCD1LG2 SDHC TMEM30A ALK CAD CUX1 FBXO11 HGF KDM5C MSH6 PDGFRA SDHD TMSB4XP8 AMER1 CARD11 CXCR4 FBXO31 HIST1H1C KDM6A MTOR PDGFRB SERP2 TNFAIP3 APC CBFB DAXX FBXW7 HIST1H1D KDR MUTYH PDK1 SETBP1 TNFRSF11A APH1A CBL DDR2 FGF10 HIST1H1E KEAP1 MYC PHF6 SETD2 TNFRSF14 AR CCND1 DDX3X FGF14 HIST1H2AC KIT MYCL PIK3CA SF3B1 TNFRSF17 ARAF CCND2 DNM2 FGF19 HIST1H2AG KLHL6 MYCN PIK3CG SGK1 TOP1 ARFRP1 CCND3 DNMT3A FGF23 HIST1H2AL KMT2A MYD88 PIK3R1 SMAD2 TP53 ARHGAP26 CCNE1 DOT1L FGF3 HIST1H2AM KMT2C MYO18A PIK3R2 SMAD4 TP63 ARID1A CCT6B DTX1 FGF4 HIST1H2BC KRAS NCOR2 PIM1 SMARCA1 TRAF2 ARID2 CD22 DUSP2 FGF6 HIST1H2BJ LEF1 NCSTN POT1 SMARCA4 TRAF3 ASMTL CD274 DUSP9 FGFR1 HIST1H2BK LMO1 NF1 POU2AF1 SMARCB1 TRAF5 ASXL1 CD36 EBF1 FGFR2 HIST1H2BO LRP1B NF2 PRDM1 SMC1A TSC1 ATM CD58 ECT2L FGFR3 HIST1H3B LRRK2 NFE2L2 PRKAR1A SMC3 TSC2 ATR CD70 EED FGFR4 HNF1A MAF NFKBIA PRKDC SMO TUSC3 ATRX CD79A EGFR FHIT HRAS MAFB NKX2-1 PRSS8 SOCS1 TYK2 AURKA CD79B ELP2 FLCN HSP90AA1 MAGED1 NOD1 PTCH1 SOCS2 U2AF1 AURKB CDC73 EMSY FLT1 ICK MALT1 NOTCH1 PTEN SOCS3 U2AF2 AXIN1 CDH1 EP300 FLT3 ID3 MAP2K1 NOTCH2 PTPN11 SOX10 VHL AXL CDK12 EPHA3 FLT4 IDH1 MAP2K2 NPM1 PTPN2 SOX2 WDR90 B2M CDK4 EPHA5 FLYWCH1 IDH2 MAP2K4 NRAS PTPN6 SPEN WISP3 BAP1 CDK6 EPHA7 FOXL2 IKBKE MAP3K1 NSD1 PTPRO SPOP WT1 BARD1 CDK8 EPHB1 FOXO1 IKZF1 MAP3K14 NSD2 RAD21 SRC XBP1 BCL10 CDKN1B ERBB2 FOXO3 IKZF2 MAP3K6 NT5C2 RAD50 SRSF2 XPO1 BCL11B CDKN2A ERBB3 FOXP1 IKZF3 MAP3K7 NTRK1 RAD51 STAG2 YY1AP1 BCL2 CDKN2B ERBB4 FRS2 IL7R MAPK1 NTRK2 RAF1 STAT3 ZMYM2 BCL2L2 CDKN2C ERG GADD45B INHBA MCL1 NTRK3 RARA STAT4 ZNF217 BCL6 CEBPA ESR1 GATA1 INPP4B MDM2 NUP93 RASGEF1A STAT5A ZNF24 BCOR CHEK1 ETS1 GATA2 INPP5D MDM4 NUP98 RB1 STAT5B ZNF703 BCORL1 CHEK2 ETV6 GATA3 IRF1 MED12 P2RY8 RELN STAT6 ZRSR2 BIRC3 CIC EXOSC6 GID4 IRF4 MEF2B PAG1 RET STK11 BLM CIITA EZH2 GNA11 IRF8 MEF2C PAK3 RHOA SUFU BRAF CKS1B FAF1 GNA12 IRS2 MEN1 PALB2 RICTOR SUZ12 BRCA1 CPS1 FAM46C GNA13 JAK1 MET PASK RNF43 SYK BRCA2 CREBBP FANCA GNAQ JAK2 MIB1 PAX5 ROS1 TAF1 BRD4 CRKL FANCC GNAS JAK3 MITF PBRM1 RPTOR TBL1XR1 DNA – Select Rearrangements ALK BRAF EGFR ETV4 EWSR1 IGK JAK2 NTRK1 RAF1 ROS1 BCL2 CCND1 EPOR ETV5 FGFR2 IGL KMT2A PDGFRA RARA TMPRSS2 BCL6 CRLF2 ETV1 ETV6 IGH JAK1 MYC PDGFRB RET TRG BCR RNA – Select Rearrangements ABI1 BCOR CKS1B ETS1 HLF LCP1 MYCN PCM1 RHOH TEC ABL1 BCR CLP1 ETV1 HMGA1 LEF1 MYH11 PCSK7 RNF213 TET1 RNF217- ABL2 BIRC3 CLTC ETV4 HMGA2 LMO1 MYH9 PDCD1 TFE3 AS1 ACSL6 BRAF CLTCL1 ETV5 HOXA11 LMO2 NACA PDCD1LG2 ROS1 TFG ACTB BRCA1 CNTRL ETV6 HOXA13 LPP NBEAP1 PDE4DIP RPL22 TFPT AFDN BRCA2 COL1A1 EWSR1 HOXA3 LYL1 NCOA2 PDGFB RPN1 TFRC AFF1 BTG1 CREB3L1 FBXW7 HOXA9 MAF NDRG1 PDGFRA RUNX1 TGFBR2 AFF4 BTK CREB3L2 FCGR2B HOXC11 MAFB NF1 PDGFRB RUNX1T1 TLX1 AKT1 CAMTA1 CREBBP FCRL4 HOXC13 MALT1 NF2 PDK1 RUNX2 TLX3 AKT2 CARS CRKL FEV HOXD11 MAP3K7 NFKB2 PER1 SEC31A TMPRSS2 AKT3 CBFA2T3 CRLF2 FGFR1 HOXD13 MCL1 NIN PHF1 SEPT5 TNFRSF11A ALK CBFB CSF1 FGFR1OP HSP90AA1 MDM2 NKX2-1 PICALM SEPT6 TOP1 AR CBL CSF1R FGFR2 HSP90AB1 MDS2 NOTCH1 PIK3CA SEPT9 TP53 ARHGAP26 CCND1 CSF3R FGFR3 IGF1R MECOM NOTCH2 PIK3R1 SET TP63 ARHGEF12 CCND2 CTNNB1 FGFR4 IGH MEF2C NPM1 PIK3R2 SH3GL1 TPM3 ARID1A CCND3 DDIT3 FLI1 IKZF1 MEN1 NR4A3 PIM1 SLC1A2 TPM4 ARNT CCNE1 DDX10 FLT1 IKZF3 MET NRAS PLAG1 SMAD2 TRAF2 ASXL1 CD22 DDX6 FLT3 IL21R MITF NSD1 PML SMAD4 TRAF3 ATF1 CD274 DEK FNBP1 IL3 MKI67 NSD2 POU2AF1 SMARCB1 TRAF5 ATG5 CD70 DNMT3A FOXO1 IRF4 MKL1 NSD3 PPP1CB SNX29 TRIM24 ATIC CD79A DUSP22 FOXO3 ITK MLF1 NTRK1 PRDM1 SRC TRIP11 ATM CD79B EGFR FOXO4 JAK1 MLH1 NTRK2 PRDM16 SRSF3 TSC1 ATR CDH1 EIF4A2 FOXP1 JAK2 MLLT1 NTRK3 PRRX1 SS18 TSC2 AURKA CDK4 ELF4 FSTL3 JAK3 MLLT10 NUMA1 PSIP1 SSX1 TTL AURKB CDK6 ELL FUS JAZF1 MLLT3 NUP214 PTCH1 SSX2 TYK2 AXL CDK8 ELN GAS7 KAT6A MLLT6 NUP98 PTEN SSX4 USP6 BAP1 CDKN1A EML4 GLI1 KDM4C MN1 NUTM2A PTK7 STAT6 VHL BCL10 CDKN1B EMSY GMPS KDM5A MNX1 OMD RABEP1 STK11 WT1 BCL11A CDKN2A EP300 GPHN KDR MSH2 P2RY8 RAF1 SYK YPEL5 BCL11B CDX2 EPHA7 HDAC4 KDSR MSH6 PAFAH1B2 RALGDS TAF15 ZBTB16 BCL2 CEBPA EPOR HERPUD1 KIF5B MSI2 PALB2 RAP1GDS1 TAL1 ZMYM2 BCL3 CHIC2 EPS15 HEY1 KIT MSN PAX3 RARA TAL2 ZNF384 BCL6 CHN1 ERBB2 HGF KMT2A MUC1 PAX5 RB1 TBL1XR1 ZNF521 BCL7A CIC ERG HIP1 KRAS MYB PAX7 RBM15 TCF3 BCL9 CIITA ESR1 HIST1H4I LASP1 MYC PBX1 RET TCL1A .
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    Toxicogenomics responses in the in vitro liver : a view on human interindividual variation Citation for published version (APA): Jetten, M. J. A. (2014). Toxicogenomics responses in the in vitro liver : a view on human interindividual variation. Maastricht University. https://doi.org/10.26481/dis.20141205mj Document status and date: Published: 01/01/2014 DOI: 10.26481/dis.20141205mj Document Version: Publisher's PDF, also known as Version of record Please check the document version of this publication: • A submitted manuscript is the version of the article upon submission and before peer-review. There can be important differences between the submitted version and the official published version of record. People interested in the research are advised to contact the author for the final version of the publication, or visit the DOI to the publisher's website. • The final author version and the galley proof are versions of the publication after peer review. • The final published version features the final layout of the paper including the volume, issue and page numbers. Link to publication General rights Copyright and moral rights for the publications made accessible in the public portal are retained by the authors and/or other copyright owners and it is a condition of accessing publications that users recognise and abide by the legal requirements associated with these rights. • Users may download and print one copy of any publication from the public portal for the purpose of private study or research. • You may not further distribute the material or use it for any profit-making activity or commercial gain • You may freely distribute the URL identifying the publication in the public portal.
  • Epigenetic Services Citations

    Epigenetic Services Citations

    Active Motif Epigenetic Services Publications The papers below contain data generated by Active Motif’s Epigenetic Services team. To learn more about our services, please give us a call or visit us at www.activemotif.com/services. Technique Target Journal Year Reference Justin C. Boucher et al. CD28 Costimulatory Domain- ATAC-Seq, Cancer Immunol. Targeted Mutations Enhance Chimeric Antigen Receptor — 2021 RNA-Seq Res. T-cell Function. Cancer Immunol. Res. doi: 10.1158/2326- 6066.CIR-20-0253. Satvik Mareedu et al. Sarcolipin haploinsufficiency Am. J. Physiol. prevents dystrophic cardiomyopathy in mdx mice. RNA-Seq — Heart Circ. 2021 Am J Physiol Heart Circ Physiol. doi: 10.1152/ Physiol. ajpheart.00601.2020. Gabi Schutzius et al. BET bromodomain inhibitors regulate Nature Chemical ChIP-Seq BRD4 2021 keratinocyte plasticity. Nat. Chem. Biol. doi: 10.1038/ Biology s41589-020-00716-z. Siyun Wang et al. cMET promotes metastasis and ChIP-qPCR FOXO3 J. Cell Physiol. 2021 epithelial-mesenchymal transition in colorectal carcinoma by repressing RKIP. J. Cell Physiol. doi: 10.1002/jcp.30142. Sonia Iyer et al. Genetically Defined Syngeneic Mouse Models of Ovarian Cancer as Tools for the Discovery of ATAC-Seq — Cancer Discovery 2021 Combination Immunotherapy. Cancer Discov. doi: doi: 10.1158/2159-8290 Vinod Krishna et al. Integration of the Transcriptome and Genome-Wide Landscape of BRD2 and BRD4 Binding BRD2, BRD4, RNA Motifs Identifies Key Superenhancer Genes and Reveals ChIP-Seq J. Immunol. 2021 Pol II the Mechanism of Bet Inhibitor Action in Rheumatoid Arthritis Synovial Fibroblasts. J. Immunol. doi: doi: 10.4049/ jimmunol.2000286. Daniel Haag et al.