EGAGenomicsIllumina HiSeq 2500;https://ega-archive.org/datasets/EGAD00001001994376EGA dataset EGAD00001001994EGACholangiocarcinoma (CCA) is a hepatobiliary malignancy exhibiting high incidence in countries with endemic liver-fluke infection. We analyzed 489 CCAs from 10 countries, combining whole-genome (71 cases), targeted/exome, copy-number, gene expression, and DNA methylation information. Integrative clustering defined 4 CCA clusters-fluke-positive CCAs (clusters 1/2) are enriched in <i>ERBB2</i> amplifications and <i>TP53</i> mutations; conversely, fluke-negative CCAs (clusters 3/4) exhibit high copy-number alterations and <i>PD-1</i>/<i>PD-L2</i> expression, or epigenetic mutations (<i>IDH1/2, BAP1</i>) and <i>FGFR</i>/<i>PRKA</i>-related gene rearrangements. Whole-genome analysis highlighted <i>FGFR2</i> 3' untranslated region deletion as a mechanism of <i>FGFR2</i> upregulation. Integration of noncoding promoter mutations with protein-DNA binding profiles demonstrates pervasive modulation of H3K27me3-associated sites in CCA. Clusters 1 and 4 exhibit distinct DNA hypermethylation patterns targeting either CpG islands or shores-mutation signature and subclonality analysis suggests that these reflect different mutational pathways. Our results exemplify how genetics, epigenetics, and environmental carcinogens can interplay across different geographies to generate distinct molecular subtypes of cancer.<b>Significance:</b> Integrated whole-genome and epigenomic analysis of CCA on an international scale identifies new CCA driver genes, noncoding promoter mutations, and structural variants. CCA molecular landscapes differ radically by etiology, underscoring how distinct cancer subtypes in the same organ may arise through different extrinsic and intrinsic carcinogenic processes. <i>Cancer Discov; 7(10); 1116-35. ©2017 AACR.</i><i>This article is highlighted in the In This Issue feature, p. 1047</i>.Whole-Genome and Epigenomic Landscapes of Etiologically Distinct Subtypes of Cholangiocarcinoma.Jusakul Apinya A, Cutcutache Ioana I, Yong Chern Han CH, Lim Jing Quan JQ, Huang Mi Ni MN, Padmanabhan Nisha N, Nellore Vishwa V, Kongpetch Sarinya S, Ng Alvin Wei Tian AWT, Ng Ley Moy LM, Choo Su Pin SP, Myint Swe Swe SS, Thanan Raynoo R, Nagarajan Sanjanaa S, Lim Weng Khong WK, Ng Cedric Chuan Young CCY, Boot Arnoud A, Liu Mo M, Ong Choon Kiat CK, Rajasegaran Vikneswari V, Lie Stefanus S, Lim Alvin Soon Tiong AST, Lim Tse Hui TH, Tan Jing J, Loh Jia Liang JL, McPherson John R JR, Khuntikeo Narong N, Bhudhisawasdi Vajaraphongsa V, Yongvanit Puangrat P, Wongkham Sopit S, Totoki Yasushi Y, Nakamura Hiromi H, Arai Yasuhito Y, Yamasaki Satoshi S, Chow Pierce Kah-Hoe PK, Chung Alexander Yaw Fui AYF, Ooi London Lucien Peng Jin LLPJ, Lim Kiat Hon KH, Dima Simona S, Duda Dan G DG, Popescu Irinel I, Broet Philippe P, Hsieh Sen-Yung SY, Yu Ming-Chin MC, Scarpa Aldo A, Lai Jiaming J, Luo Di-Xian DX, Carvalho André Lopes AL, Vettore André Luiz AL, Rhee Hyungjin H, Park Young Nyun YN, Alexandrov Ludmil B LB, Gordân Raluca R, Rozen Steven G SG, Shibata Tatsuhiro T, Pairojkul Chawalit C, Teh Bin Tean BT, Tan Patrick PCholangiocellular Carcinoma, Carcinomas, intrahepatic bile duct cancer (cholangiocarcinoma), Intrahepatic Cholangiocarcinoma, Carcinoma, Extrahepatic Cholangiocarcinoma, distinct, Genomes, bile duct cancer, Cholangiocellular Carcinomas, Cholangiocarcinomas, Intrahepatic Cholangiocarcinomas, Extrahepatic, whole genome, Extrahepatic Cholangiocarcinomas, Intrahepatic, Cholangiocellular, Intrahepatic., CholangiocarcinomaVasp, VASP, Data Set., DmelCG15112, ENHANCER OF ATNSI ACTIVITY, MENA, NDPP1, l(2)02029, Enb, enb, ENA, Ena, CG15112, ENA/VASPUVO Gene Mutation, Erbb-2, ERBB2 Gene Amplification Negative, DmelCG8445, H. pylori Positive, Materials, lambdatop, CT22273, CDH1 Wild-Type, Cytogenetically Normal, CEK Gene Mutation Negative, Intrahepatic Cholangiocarcinomas, BCC7 Gene Mutation Negative, Person-time Rates, ESTRB Negative, Proportion, ECT1 Gene Rearrangement Negative, AIP3, DNA Methylations, Biochemical Pathway, 2300006C11Rik, Tumor, type 9, ERBB2 Amplification, Positive Charge, TRT Promoter Mutation Negative, GNA11 Gene Mutation Negative, Normal Tissue, FGF receptor activity, RET/PTC Rearrangement, Hepatitis C Virus RNA Positive, p53 Mutation, PDCD1L2, analysis, PGR Positive, Met Proto-Oncogene (Hepatocyte Growth Factor Receptor) Gene Amplification Negative, node-negative, HOW, Related, International Scale, BRAF Wildtype, Analysis, H. pylori Negative, Hepatitis B Virus Core Antibody Negative, PICD, Fgf-r, Methylated MGMT Promoter, ERA Positive, No rearrangement detected, HER2/neu Gene Mutation Negative, Widespread, G Protein Subunit Alpha q Gene Mutation, Analyses, IDH Gene Mutation, CD324 Gene Mutation, ESR Negative, FGFBR Gene Mutation Negative, Molecular, Hepatitis B Virus Core Antibody Positive, c-KIT Positive, KGFR Gene Mutation Negative, PDCD1L1 Negative, N, hepatobiliary, Flavoprotein Subunit of Complex II Positive, Tissue, stru, B7H1 Positive, BEK Gene Mutation, l(3)S053606, MET Amplification Negative, node-positive, Cadherin 1 Gene Mutation, ESTRB Positive, HER2 Non-Amplified, XH2 Gene Mutation, PGR Negative, 3'UTR, BTL/FGFR2, Fgfr7, ATRX Mutation Negative, XNP Gene Mutation Negative, intrahepatic bile duct cancer (cholangiocarcinoma), Mechanism Device, Catenin Beta 1 Gene Mutation, ER Beta Positive, BEK, FMS-Like Tyrosine Kinase 2 Gene Rearrangement Negative, IDPC, Cholangiocarcinomas, PAX8 Gene Rearrangement Negative, Btdc, Hepatitis B DNA Positive, Telomerase Reverse Transcriptase Gene Promoter Mutation, FGFR1 Rearrangement Negative, Relationship, Tk2, Tk1, Protein Domain, Methylated MGMT Gene Promoter, Tumors, Protein Feature, uch-x4, CpG-Rich Islands, anatomical protrusion, TP53 Gene Mutation Negative, Human Immunodeficiency Virus Positive, Anti-HBc Negative, KGFR Gene Rearrangement, c-erbB2 Gene Amplification, Serum CA 19-9 Normal, TP53 Mutation Negative, AACR, B-RAF Gene Rearrangement, Anti-HBc Positive, BRAF wt, Normal skin, Normalcy, Hepatitis B Virus Surface Antibody Positive, Estrogen Receptor Alpha Positive, 1p/19q Co-deletion Negative, Human Immunodeficiency Virus Negative, TMEM16A Negative, Signed, Benign, RING2, JWS, SDHIP Positive, CTNNB1 Wildtype, African Burkitt's Lymphoma, International Scale for BCR-ABL1 Measurement, FGFR-2 Gene Rearrangement, FLT2 Gene Mutation, FGFR-1 Gene Rearrangement, LCAM Gene Mutation Negative, Flavoprotein Subunit of Complex II Negative, Person-time Rate, RET Gene Rearrangement, Ret Proto-Oncogene Rearrangement Negative, African Burkitt Lymphoma, FGFR3 Wild-Type, c-neu, Carcinomas, HD-38, Idh-1, statistical significance, NRAS Gene Mutation, EMS2, ECAD Gene Mutation, Definite Attribution, BBDS, Benign Neoplasms, Infection and Infestation, Androgen Receptor Negative, whole genome, EST2 Promoter Mutation, i100, B7-H Negative, surveillance, Present, ESR Positive, Islands, PDCD1L1 Positive, c-KIT Negative, Malignant Neoplasms, FR1, p16INK4a Negative, v-Ets Erythroblastosis Virus E26 Oncogene Like Gene Rearrangement Negative, Positive EBV Serum Test, IDH Gene Family Mutation, AW553466, Untranslated Regions, ATRX Gene Mutation Negative, Imaging Feature, Info, Unmethylated O-6-Methylguanine-DNA Methyltransferase Gene Promoter, hSLE1, EBV Negative, N-RAS Gene Mutation, HER2/Neu Amplification, TRP53 Gene Mutation Negative, distal, Nepal Bhasa, KRAS Gene Mutation, B7H1 Negative, l(3)00208, DNA, Expression of PD-L1, Epigenetics, 3' UTR, Hepatitis B Core Antibody Negative, SDHF Positive, Nuclear Receptor Subfamily 3 Group A Member 2 Positive, i79, BRCA1-Associated Protein 1 Gene Mutation, Neoplasms, CDHE Gene Mutation, HER-2 Gene Mutation Negative, Traverse, B-RAF1 Gene Rearrangement Negative, number, Alpha Thalassemia/Mental Retardation Syndrome X-Linked Gene Mutation Negative, Analytical, Anti-HBc Antibody Negative, Succinate Dehydrogenase [Ubiquinone] Iron-Sulfur Subunit, Hepatitis B Virus Surface Antigen Positive, jecur, Rate, New Lesion, SDHF Negative, IS, multiple with arachnodactyly, BRCA1 Associated Protein 1 Gene Mutation Negative, K-SAM Gene Mutation Negative, Gene Products, Nuclear Receptor Subfamily 3 Group A Member 2 Negative, CEK3, N-SAM Gene Rearrangement Negative, Attack Rates, NRAS Wildtype, G Protein Subunit Alpha 11 Gene Mutation, HER-2/neu, CD333 Gene Mutation Negative, Expression Negative, KRAS Wildtype, GNA11 Wild-Type, ETV Rearrangement Negative, ESR1 Negative, B7-H Positive, c-MET Gene Amplification Negative, CD273, Cadherin-Associated Protein, Pervasive, B-RAF1 Gene Mutation Negative, MGMT Gene Methylation, Hepatitis B Core Antibody Positive, Tissues, FGFR1 Gene Mutation Negative, FGFR-2 Gene Mutation Negative, CDH1 Mutation Negative, plasmid binding, prevalence, Target, MAGI1c, Magi-1, FGFR-2 Gene Rearrangement Negative, SDHA Negative, clinical infection, CpG, CD279, KRAS2 Gene Mutation Negative, CG6714, BEK Gene Rearrangement, Neoplasias, RET Rearrangement, HUCEP-13, Alpha 11 Gene Mutation Negative, Pdc1, UTRs, RAD54 Homolog Gene Mutation, anatomical unit, Estrogen Receptor Alpha Negative, ETV Family Rearrangement Negative, Person-time, FLT2 Gene Mutation Negative, body organ, Person time Rate, Keratinocyte Growth Factor Receptor Gene Rearrangement Negative, ERBB2 wt, BFR-1, p53 Gene Mutation Negative, HBsAg Negative, HER-2 Gene Amplification, HEPATOBILIARY SYSTEM, NORMAL, Neu, New, Positive EBV Test, Hepatitis B Virus Surface Antibody Negative, Q Polypeptide Gene Mutation Negative, Malignant Neoplasm, Fibroblast Growth Factor Receptor 1 Gene Rearrangement Negative, Endemic, ETS Transcription Factor ERG Gene Rearrangement Negative, PR Positive, HER-2|neu, Harvey Rat Sarcoma Viral Oncogene Homolog Gene Mutation Negative, arthrogryposis, Hepatitis B Surface Protein Antigen Positive, SDHIP Negative, UTR, copies, Estrogen Receptor Positive, Secondary Attack, FGFR2 Wild-Type, l(3)S090417, Negative Number, B-RAF1 Gene Rearrangement, Beta Catenin Gene Mutation Negative, del(10q23)/PTEN Gene Locus Deletion Negative, MT, ATRX, CTNNB1 Gene Mutation Negative, fgf-r, native protein, BRAF Gene Rearrangement, chemical analysis, TP53 wt, i150, FLG Gene Mutation, PAX8 Rearrangement, Alpha-11 Gene Mutation Negative, Androgen Receptor Positive, HGFR Gene Amplification, ESR1 Positive, Hepatitis B Surface Protein Antigen Negative, NEGATIVE, Cluster Analyses, MET Gene Amplification, c-MET Gene Amplification, Paired Domain Gene 8 Gene Rearrangement Negative, ER-Alpha Positive, Definitely Related to Intervention, New Lesion Identification, BEK Gene Mutation Negative, Methylated MGMT, Unmethylated MGMT Promoter, c-erbB2, ERG Rearrangement, HBsAg Positive, 60S ribosomal protein L23, 3' UTRs, malignant tumor, TERT Gene Promoter Mutation, ERBB2 Wildtype, CG32134, CpG Rich Islands, No, Incidence Proportion, Ret Proto-Oncogene Rearrangement, Differential, Lack of Expression of PD-L1, Catenin Beta 1 Gene Mutation Negative, IDH Mutation, BAIAP1, 1p/19q Co-deletion, SDHA Positive, Q Polypeptide Gene Mutation, Dtk1, Dtk2, Succinate Dehydrogenase [Ubiquinone] Flavoprotein Subunit, Neoplasia, Estrogen Receptor 2 Positive, Anti-Hepatitis B Core Antibody Negative, XNP Gene Mutation, O-6-Methylguanine-DNA Methyltransferase Gene Promoter Methylation, LFS1 Gene Mutation Negative, ER Positive, Normal Male External Genitalia, BAP1 Wildtype, Telomerase Reverse Transcriptase Gene Promoter Mutation Negative, v-Ets Erythroblastosis Virus E26 Oncogene Like Gene Rearrangement, Feature, Infestations and Infections, protein, Human Herpesvirus-4 Negative, Intrahepatic, Tp53, HRAS1 Gene Mutation, element, G-ALPHA-q Gene Mutation, BAP1 Gene Mutation, DFGF-R2, congenital, Statistical Significance, AI314845, DFGF-R1, pathogenesis, Incidence Rate, ESR2 Negative, protein aggregate, Newari, v-Erb-B2 Avian Erythroblastic Leukemia Viral Oncogene Homolog 2 Gene Mutation, ORAOV2 Negative, Endemic Burkitt's Lymphoma, l(3)j5D5, TP53, Abnormal, DFR2, gene expression, DFR1, Definite, ATRX Wildtype, BRAF Mutation Negative, arachnodactyly, 24B, Protein Motif, ESR-Beta Negative, Estrogen Receptor Beta Positive, Gene Expressions, statistically significant, CD274 Negative, Extrahepatic, DOG1 Positive, Keratinocyte Growth Factor Receptor Gene Mutation Negative, iecur, Association, Copies, DNA methylation, BAP1 wt, ETV Family Gene Rearrangement, Ets Variant Family Rearrangement, FLT2 Gene Rearrangement, PAX8 Rearrangement Negative, Rearrangement identified, l(3)j5B5, How Often Felt Normal, Novel, FGFR3 Gene Rearrangement, Chromatin Remodeler Gene Mutation Negative, CpG Clusters, FGFR-1 Gene Rearrangement Negative, ECT1 Gene Mutation, Estrogen Receptor 1 Positive, Fibroblast Growth Factor Receptor 2 Gene Mutation, Histone H3 Trimethyl Lys27, Erb-B2 Receptor Tyrosine Kinase Gene Mutation Negative, IDH Family Mutation, DFR-1, CD333 Gene Rearrangement, Normal, None detected, BAP1 Wild-Type, Anti-Hepatitis C Antibody Positive, ring2, ER-Alpha Negative, None Detected, ATRX Gene Mutation, SDHB Loss, MAGI-1, ERG Gene Rearrangement, Ha-ras Gene Mutation Negative, Magi1d, GNA-11 Gene Mutation Negative, GNAQ Wildtype, HBsAb Negative, SLEB2, IDH, FGFR-1 Gene Mutation Negative, Negative, IDP, HER2 Gene Mutation, F730015O22Rik, Fgfr-7, Cholangiocellular, Fgfr-2, results, FLT-2 Gene Mutation Negative, mKIAA0272, Feature., BRAF Wild Type, Gene Expression, Ets Variant Gene Family Rearrangement Negative, Defined, ESRA Negative, FGFR3 Rearrangement Negative, Hepatitis B Surface Antibody Positive, Cholangiocellular Carcinomas, KAL2 Gene Mutation Negative, SZ1, significant, ESTRR Negative, B7-DC, HIV Positive, CG8445, Adverse Event Related to Intervention, Region, Fibroblast Growth Factor Receptor 2 Gene Mutation Negative, Problem, Domain, HIV positive, PD-1, 1p/19q Codeletion, FGFR2 Mutation Negative, POSITIVE, p16INK4 Negative, Guanine Nucleotide Binding Protein (G Protein), Yes, 3' Untranslated Region, Epigenetic, DmelCG32134, HHV-4 Negative, SDH2 Positive, HRAS Gene Mutation Negative, E-Cadherin Gene Mutation Negative, ERBB2 Gene Mutation, rpl23, estrogen receptor negative, Features, 1p/19q Intact, HER2 Wildtype, hPD-1, CpG-Rich Island, MLN 19, FLT-2 Gene Rearrangement Negative, hPD-l, Expressed, ER-Beta Positive, Clustering, rpl17, P53, TKR1, p44, HRAS Gene Mutation, Tumor Protein p53 Gene Mutation Negative, Unmethylated MGMT Gene Promoter, molecular pathway, Harvey Rat Sarcoma Viral Oncogene Homolog Gene Mutation, DTRK(FR1), PR Negative, AU043015, BRAF Rearrangement, Normal Chest Appearance, Extrahepatic Cholangiocarcinoma, CDH1 Gene Mutation, KAL2 Gene Rearrangement Negative, tissue, KGFR, K-SAM, P62, GAQ Gene Mutation Negative, p53, Negative Finding, v-Kit Hardy-Zuckerman 4 Feline Sarcoma Viral Oncogene Homolog Negative, Anti-HBs Positive, c-erbB2 Gene Activation, Malignant, Secondary Attack Rate, JKT4 Gene Mutation Negative, FGFR1 Wildtype, Neuroblastoma RAS Viral Oncogene Homolog Gene Mutation Negative, Definition, OGD Gene Mutation Negative, Fp Positive, Relations, Fibroblast Growth Factor Receptor 1 Gene Rearrangement, OGD Gene Mutation, SDHB Deficient, Anti-HBcAb Positive, Hep C RNA Positive, Anti-Hepatitis B Virus Surface Antibody Negative, c-K-ras Gene Mutation Negative, CD274 Antigen Positive, Epithelial Gene Mutation, Cholangiocellular Carcinoma, MET Proto-Oncogene, Mitochondrial Negative, Site, 0844/01, Article, NR3A1 Negative, HHV4 Negative, ANALYSIS, NRAS Wild-Type, SWS Gene Mutation, TAOS2 Positive, GNA11 Wildtype, Mechanism, Normal Gait, G-ALPHA-q Gene Mutation Negative, PDL1 Negative, ECT1, Methylguanine-DNA Methyltransferase Gene Promoter Methylation, FGFR1 Gene Rearrangement Negative, CD331 Gene Mutation Negative, p16(INK4a) Negative, Infestation and Infection, Neuroblastoma RAS Viral Oncogene Homolog Gene Mutation, H-ras Gene Mutation, ETV Gene Rearrangement, Erg-3 Gene Rearrangement Negative, CD332 Gene Rearrangement, causality, Ets Variant Gene Family Rearrangement, Normal Abdomen on Visual Inspection, N-RAS Gene Mutation Negative, HER2 Gene Amplification, L17, Incidence Proportions, Characteristics, TRP53, AIP-3, Anti-Hepatitis C Virus Antibody Positive, CTNNB Gene Mutation, progesterone receptor positive, RASH1 Gene Mutation, incidence, KGFR Gene Rearrangement Negative, CD332 Gene Rearrangement Negative, Hepatobiliary System, Succinate Dehydrogenase Complex Flavoprotein Subunit A Negative, FLG Gene Rearrangement Negative, Anti-Hepatitis B Virus Core Antibody Positive, Beta Gene Mutation Negative, protein complex, clone 2.39, Cumulative Incidence, FGFR3 Gene Mutation Negative, Incidence, Targeted, l17, FGFR1 Mutation Negative, Normal Precordial Palpation Finding, Related Attribution, Xp53, Baiap1, Anti-HBs Antibody Negative, contractural Beals type, count in organism, NR3A2 Positive, MGMT Gene Promoter Methylation, GNA11 wt, Infection, structure specific DNA binding, Endemic Burkitt Lymphoma, Copy, TMEM16A Positive, Catenin Beta-1 Gene Mutation, MGMT Methylation, AR Positive, who, Anoctamin-1 Negative, Cross, ER Beta Negative, Exhibit, FMS-Like Tyrosine Kinase 2 Gene Mutation, UVO Gene Mutation Negative, HIV Positivity, Mast/Stem Cell Growth Factor Receptor Kit Positive, ERBB2 Mutation Negative, Normality, FGFR3 wt, Succinate Dehydrogenase Complex Iron Sulfur Subunit B Negative, FGFR-2 Gene Mutation, KIT Negative, ERA Negative, OGD Gene Rearrangement Negative, B-RAF Gene Mutation Negative, CTNNB1 wt, Calcium-Dependent Adhesion Protein, Absent, Cholangiocarcinoma, HTL/FGFR1, CCA, SDH1 Negative, Protein Gene Products, NEU Gene Amplification Negative, 3' Untranslated, GTPase Gene Mutation Negative, CD324 Gene Mutation Negative, B7 Homolog 1 Negative, IDH wt Allele, qkr[93F], HD-311, HBs Antigen Positive, CD274 Molecule Positive, BAP1 Gene Mutation Negative, Duplicate, Motif, Intrinsic, GTPase Gene Mutation, ring1b, Anti-HBsAb Positive, Beta Gene Mutation, Incidences, Across, CDKN2A-p16(INK4a) Negative, Cyclin-Dependent Kinase 4 Inhibitor A Negative, CFD1, Hepatitis B Surface Antigen Negative, Progesterone Receptor Positive, Gukmi1, dev, sci, FGFBR Gene Rearrangement, GNAQ Gene Mutation Negative, CDH1 Wildtype, Integrated, UCHL2 Gene Mutation Negative, Mutations, DmelCG7223, RPL23, Kiaa3023, Nuclear Receptor Subfamily 3 Group A Member 1 Negative, GNAQ Mutation Negative, Regions, Progesterone Receptor Negative, hucep-13, FGFR-3 Gene Mutation Negative, H-ras Gene Mutation Negative, bbl, Normal Appearance of the Extremities, C-HA-RAS1 Gene Mutation Negative, How, HCV Antibody Positive, Nuclear Receptor Subfamily 3 Group A Member 1 Positive, CDKN2A-p16 Negative, domain, Erg-3 Gene Rearrangement, CD332 Gene Mutation, Ha-ras Gene Mutation, v-raf Murine Sarcoma Viral Oncogene Homolog B1 Gene Rearrangement Negative, Id-1, organ, average, EXPRESSED, HRas Proto-Oncogene, Loss of Expression, BFGFR Gene Rearrangement Negative, Genomes, BCC7, TRT Promoter Mutation, Idpc, HBcAb Negative, GAQ Gene Mutation, Met Proto-Oncogene (Hepatocyte Growth Factor Receptor) Gene Amplification, Pathways, Isocitrate Dehydrogenase (NADP+) Gene Family Wildtype, Cytogenetic Abnormalities Absent, FGFR1 Gene Rearrangement, IP Negative, Normality-Based Dosing Unit, PD-L1+, Normal Capillary Refill Time, Epigenomic, NEU Gene Mutation, v-raf Murine Sarcoma Viral Oncogene Homolog B1 Gene Rearrangement, replicate, contractures, Anti-HBsAb Negative, FGFR3 Gene Mutation, SDHB Positive, Bek, K-RAS Mutation, Receptor Tyrosine Kinase Gene Amplification Negative, CD331 Gene Rearrangement, Catenin Beta-1 Gene Mutation Negative, C-HA-RAS1 Gene Mutation, Infections and Infestations, MET Amplification, RING1B, ZNF-HX Gene Mutation, Negative Charge, HBs Antigen Negative, ERBB2 Gene Amplification, H3K27me3, Beta Catenin Gene Mutation, FGFR-3 Gene Rearrangement Negative, ER Alpha Negative, ERB Negative, ERBB2 Wild-Type, FGFR1 wt, Issue, Pathway, CDH1 Gene Mutation Negative, Array Feature, Difference, MLN19, HIPI3, Alpha 11 Gene Mutation, GNA11 Mutation Negative, Incidence Rates, CD331 Gene Mutation, ERB Positive, CD117 Negative, Cadherin, JKT4 Gene Rearrangement, Helicobacter pylori Negative, bfy, Arc-1 Gene Mutation Negative, CMC1 Gene Mutation, PD1, 3'UTRs, Htl, Fr1, P53 Gene Mutation, Epstein Barr Virus Negative, EST2 Promoter Mutation Negative, HGFR Gene Amplification Negative, Guanine Nucleotide-Binding Protein, PAX8 Gene Rearrangement, HRAS Mutation Negative, v-Erb-B2 Avian Erythroblastic Leukemia Viral Oncogene Homolog 2 Gene Amplification Negative, NR3A1 Positive, ding, Keratinocyte Growth Factor Receptor Gene Rearrangement, INSDC_feature:gene, HER2 Amplification, Beta-Catenin Gene Mutation Negative, ATRX wt, DING, CD333 Gene Mutation, Positive Epstein-Barr Virus Test, Anti-Hepatitis B Virus Core Antibody Negative, HBs Negative, TERT Promoter Mutation Negative, ERG Gene Rearrangement Negative, bap-1, Material, GNAQ wt, WWP3, CDHE Gene Mutation Negative, FGFBR Gene Mutation, CTNNB Gene Mutation Negative, TCS1 Promoter Mutation, bhy, MET Gene Amplification Negative, KRAS Gene Mutation Negative, Secondary Attack Rates, BRAF Gene Mutation Negative, BFGFR Gene Mutation, Epstein-Barr Virus Negative, uchl2, c-Met Amplification Negative, whole exome, HER2 Gene Mutation Negative, G Protein Subunit Alpha q Gene Mutation Negative, Not Expressed, AA989761, Different, HCV RNA Positive, Negative Estrogen Receptor, HER2 wt, protein-containing complex, LFS1, ER+, ER-, Receptor Tyrosine Kinase Gene Amplification, FGFR1 Gene Mutation, Structural, p55 Gene Rearrangement, FLG Gene Rearrangement, CMC1 Gene Mutation Negative, PDCD1LG1 Positive, FGFBR Gene Rearrangement Negative, Li-Fraumeni Syndrome Gene Mutation Negative, Island, Sites, fibroblast growth factor-activated receptor activity, IDH Family Gene Mutation Negative, NRAS Gene Mutation Negative, Negative Lymph Node, Normalities, ETV Rearrangement, androgen receptor positive, Ly101, Normal Skin, HBs Positive, occurrence, Positive Number, FGFR3 Mutation Negative, JKT4 Gene Rearrangement Negative, hipi3, positive test result, v-Ki-ras2 Kirsten Rat Sarcoma Viral Oncogene Homolog Gene Mutation, ZNF-HX Gene Mutation Negative, GA11 Gene Mutation Negative, Ets Variant Family Rearrangement Negative, Paired Box Gene 8 Gene Rearrangement Negative, GNAQ Gene Mutation, Expressions, PDCD1LG1 Negative, Structure, PD-L1 Positive, NEU Gene Mutation Negative, Cumulative, Intrahepatic Cholangiocarcinoma, CTNNB1 Gene Mutation, FGFR2 Gene Rearrangement, del10q23/Phosphatase and Tensin Homolog Gene Locus Negative, ANO1 Positive, CTNNB1 Wild-Type, Statistically Significant, FGFR, RAD54 Gene Mutation, NEG, ER-Beta Negative, Expression, BRCA1-Associated Protein 1 Gene Mutation Negative, Programmed Cell Death 1 Ligand 1 Negative, BFGFR Gene Mutation Negative, Methylations, Cancer, NEU, SSY2, TCS1 Promoter Mutation Negative, HER2/neu Gene Amplification Negative, CD117 Positive, FGFR2 Gene Mutation, NEW, Helicobacter pylori Positive, Epithelial Gene Mutation Negative, FGFR3 Wildtype, ESRB Positive, Proteins, j372, dtk2, CTNNB1 Mutation Negative, dtk1, qkr, Hepatocyte Growth Factor Receptor Gene Amplification Negative, xfgfr2, DNA Integration, Cumulative Incidences, Positive Finding, TERT Gene Promoter Mutation Negative, GNA11 Gene Mutation, KH93F, Neoplasm, KRAS Wild-Type, NGL, ATRX Wild-Type, CD333 Gene Rearrangement Negative, Replicate, KIT Proto-Oncogene Tyrosine Protein Kinase Negative, Hepatocyte Growth Factor Receptor Gene Amplification, Extrahepatic Cholangiocarcinomas, outbreaks, INSDC_feature:regulatory, ESRB Negative, B-RAF Gene Rearrangement Negative, American Association of Cancer Research, Destination, RET Rearrangement Negative, BRAF Rearrangement Negative, IDH Mutation Negative, Erb-B2 Receptor Tyrosine Kinase Gene Amplification Negative, primary cancer, HBcAb Positive, p16 Negative, Information, DFR1/DFGF-R2, PD-L1 Negative, HER2 Gene Amplification Negative, Tumor Protein p53 Gene Mutation, Fibroblast Growth Factor Receptor 1 Gene Mutation Negative, Cancers, IP Positive, Hepatitis B Surface Antigen Positive, Normal Appearance of Extremities, Normal Capillary Refill, Anti-HCV Antibody Positive, RAD54L Gene Mutation Negative, N-RAS Mutation, FLT-2 Gene Mutation, CT20816, Protein Region, ETS Transcription Factor ERG Gene Rearrangement, Integration, Gene Proteins, Fibroblast Growth Factor Receptor 3 Gene Rearrangement Negative, IDP Gene Mutation Negative, NRAS Mutation Negative, CDH1 wt, ETV Family Gene Rearrangement Negative, CEK Gene Mutation, ANO1 Negative, epidemics, FGFR1 Wild-Type, p16-INK4 Negative, Alpha-11 Gene Mutation, Chromatin Remodeler Gene Mutation, CEK Gene Rearrangement Negative, CpG-Rich, Dfr1, Fibroblast Growth Factor Receptor 1 Gene Mutation, determination, SWS Gene Mutation Negative, G Protein Subunit Alpha 11 Gene Mutation Negative, Hepatitis C Viral RNA Positive, ER Negative, Significant, dFGFR, FLT-2 Gene Rearrangement, JKT4 Gene Mutation, AR+, KRAS Mutation, CD332, BRAF Gene Rearrangement Negative, Driver Device, CD340, ESR-Beta Positive, Fibroblast Growth Factor Receptor 2 Gene Rearrangement, FGFR-3 Gene Rearrangement, FLG Gene Mutation Negative, FGF-R2, HRAS Wild-Type, KGFR Gene Mutation, Human Herpesvirus 4 Negative, {Copies}, contractural arachnodactyly, BAP1 Mutation Negative, Btl, estrogen receptor positive, CD332 Gene Mutation Negative, Ear anomalies-contractures-dysplasia of bone with kyphoscoliosis, Targeting, No mutation detected, DNA methylation maintenance, FGF-activated receptor activity, p55 Gene Rearrangement Negative, Cyclin-Dependent Kinase Inhibitor 2A Negative, CD331 Gene Rearrangement Negative, Alpha Thalassemia/Mental Retardation Syndrome X-Linked Gene Mutation, CT39172, 3', Dfr-1, TNRC19, Dfr-2, CG10293, c-Met Gene Amplification, PR+, FMS-Like Tyrosine Kinase 2 Gene Rearrangement, PR-, malignant neoplasm, TP53 Wildtype, FGFR2 Gene Rearrangement Negative, bap1, Environmental Carcinogens, Anti-Hepatitis B Core Antibody Positive, Estrogen Receptor 2 Negative, FGFR2 Gene Mutation Negative, B7 Homolog 1 Positive, svs, Analyzed, Beta 1 (88kD) Gene Mutation, Malignancies, Positive, associated, CD274 Molecule Negative, SDH2 Negative, BAP1, v-Ha-ras Harvey Rat Sarcoma Viral Oncogene Homolog Gene Mutation Negative, Normal Thoracic Appearance, PDL2, negative test result, Carcinoma, 0904/17, FMS-Like Tyrosine Kinase 2 Gene Mutation Negative, Estrogen Receptor 1 Negative, bA574F11.2, Anti-HBs Antibody Positive, XH2 Gene Mutation Negative, TP53 Gene Mutation, frequency, Paired Box 8 Gene Rearrangement Negative, Hepatitis B Surface Antibody Negative, Normal Reference Range, 1p/19q co-deletion, BAP-1, CG7223, KIT Proto-Oncogene Tyrosine Protein Kinase Positive, v-Ha-ras Harvey Rat Sarcoma Viral Oncogene Homolog Gene Mutation, Clusters, Metabolic Network, Positive Estrogen Receptor, NR3A2 Negative, Significance, IDCD, HBsAb Positive, K-SAM Gene Mutation, Succinate Dehydrogenase Complex Flavoprotein Subunit A Positive, HRAS wt, rpl17a, pd-1, UCHL2, Genetic Materials, NOS, Estrogen Receptor Negative, Adverse Event Definitely Related to Intervention, Conflict, Succinate Dehydrogenase Complex Iron Sulfur Subunit B Positive, KRAS2 Gene Mutation, Normal Immune Presence, Genetic Material, ETV Gene Rearrangement Negative, Untranslated Region, IDH Gene Family Wildtype, Clusterings, HER-2 Gene Amplification Negative, Image Feature, Paired Domain Gene 8 Gene Rearrangement, ERBB2 Gene Mutation Negative, Driver, RASH1 Gene Mutation Negative, IDH Gene Mutation Negative, Isocitrate Dehydrogenase Gene Family Wild Type, GNAQ Wild-Type, 10q23/PTEN Locus Deletion Negative, Exomes, Programmed Cell Death 1 Ligand 1 Positive, ESR2 Positive, BEK Gene Rearrangement Negative, Hepatitis C RNA Positive, morbidity, TK25, Type 1, Positive Laboratory Test Result, Paired Box 8 Gene Rearrangement, ECAD Gene Mutation Negative, LCAM Gene Mutation, Health, Cluster, spine, DOG1 Negative, E-Cadherin Gene Mutation, v-Ki-ras2 Kirsten Rat Sarcoma Viral Oncogene Homolog Gene Mutation Negative, FGFR2 Wildtype, Hepatitis B Virus Surface Antigen Negative, DmHD-38, Cistron, anon-EST:Liang-2.39, Arc-1 Gene Mutation, N-SAM Gene Mutation, N-SAM Gene Rearrangement, Methylation, TK14, CD274 Positive, LOST, v-Erb-B2 Avian Erythroblastic Leukemia Viral Oncogene Homolog 2 Gene Mutation Negative, Definable, KRAS-2 Gene Mutation, PDL1 Positive, Benign Neoplasm, IDH Family Wildtype, Gene, KIT Positive, Anti-HBc Antibody Positive, TERT Promoter Mutation, ECT1 Gene Mutation Negative, presence, KAL2 Gene Mutation, ECT1 Gene Rearrangement, Anti-HBcAb Negative, protrusion, FGFR2 wt, Anoctamin-1 Positive, FGFR-3 Gene Mutation, FLT2 Gene Rearrangement Negative, CD274 Antigen Negative, heredity, HRAS Wildtype, Anti-Hepatitis B Virus Surface Antibody Positive, Fp Negative, Negative Test Result, Anti-HBs Negative, HIV test positive, HEL-216, AI788952, FGFR3 Gene Rearrangement Negative, N-SAM Gene Mutation Negative, Erb-B2 Receptor Tyrosine Kinase Gene Mutation, BFGFR Gene Rearrangement, CpG Cluster, SDHB Deficiency, Routine Signature, 1p/19q Codeletion Negative, Genetic, l(3)s2612, Malignancy, HER-2, AW556123, Fibroblast Growth Factor Receptor 3 Gene Mutation, Cadherin 1, Mast/Stem Cell Growth Factor Receptor Kit Negative, E-Cadherin (Epithelial) Gene Mutation, HER2/neu Gene Mutation, causes, BRCA1 Associated Protein 1 Gene Mutation, v-Kit Hardy-Zuckerman 4 Feline Sarcoma Viral Oncogene Homolog Positive, PD-L2, E030024J03Rik, hucep-6, Ect1, RAD54 Gene Mutation Negative, DA9, Trp53, microtubule/chromatin interaction, Positive Lymph Node, TISSUE, Newar Language, B7DC, C-H-RAS Gene Mutation, DmelCG10293, OGD Gene Rearrangement, KAL2 Gene Rearrangement, SDH1 Positive, ER Alpha Positive, Cadherin 1 Gene Mutation Negative, FGFR2, FGFR1, UCHL2 Gene Mutation, v-raf Murine Sarcoma Viral Oncogene Homolog B1 Gene Mutation Negative, RAD54L Gene Mutation, AR Negative, GNA-11 Gene Mutation, structure-specific DNA binding, RET Gene Rearrangement Negative, HIV Negative, CEK Gene Rearrangement, bile duct cancer, NRAS wt, KRAS-2 Gene Mutation Negative, del(1p/19q) Negative, DPR3, Attack Rate, mKIAA3023, D-FGFR, Hepatitis C Antibody Positive, Certain, FGFR2 Rearrangement Negative, ERBB2 Non-Amplified, Fibroblast Growth Factor Receptor 3 Gene Mutation Negative, Loss of Chromosomes 1p/19q, Cistrons, ESTRR Positive, K-SAM Gene Rearrangement, KRAS wt, TP2 Promoter Mutation Negative, IDH Wild Type, Characteristic, del(1p/19q), Normal Point of Maximum Impulse, HER2 Wild-Type, DmHD-311, Fibroblast Growth Factor Receptor 3 Gene Rearrangement, Protein, HEL-S-26, Fibroblast Growth Factor Receptor 2 Gene Rearrangement Negative, mKIAA4129, ESRA Positive, ERG Rearrangement Negative, KSAM, K-SAM Gene Rearrangement Negative, ERBB2 Mutation, signatureText, progesterone receptor negative, ETV Family Rearrangement, KGFRTr, Hepatitis C Virus Antibody Positive, CpG Island, Beta-Catenin Gene Mutation, GA11 Gene Mutation, distinct, MGMT Gene Promoter Methylation Negative, Paired Box Gene 8 Gene Rearrangement, TP2 Promoter Mutation, ORAOV2 Positive, Unit of Concentration, Who/How, RET/PTC Rearrangement Negative, Unmethylated Methylguanine-DNA Methyltransferase Gene Promoter, No abnormality detected, endemics, EOMD, Secondary, Livers, BAP1 Mutation, c-K-ras Gene Mutation, Estrogen Receptor Beta Negative, DEL, Attack, cardinality, SDHB Negative, FGFR-1 Gene Mutation, assay, International Scale for Quantitative BCR-ABL1 Result Reporting, Signature, Mitochondrial Positive, fibroblast growth factor receptor activity, HER2, TAOS2 NegativeCholangiocellular Carcinoma, arachnodactyly, Carcinomas, Carcinoma, Ear anomalies-contractures-dysplasia of bone with kyphoscoliosis, Extrahepatic Cholangiocarcinoma, bile duct cancer, arthrogryposis, Intrahepatic Cholangiocarcinomas, Extrahepatic, Intrahepatic, Cholangiocellular, type 9, DA9, Cholangiocarcinoma, CCA, EOMD, contractural Beals type, intrahepatic bile duct cancer (cholangiocarcinoma), Intrahepatic Cholangiocarcinoma, contractures, Cholangiocellular Carcinomas, congenital, multiple with arachnodactyly, Cholangiocarcinomas, distal, Extrahepatic Cholangiocarcinomas, contractural arachnodactyly, Intrahepatic.falseena-DATASET-DUKE-NUS-01-04-2016-09:56:06:868-175 - samplesCCA targeted sequencing2017-08-01 10:51:03EGAD00001001994960628667006EGAC00001000256EGAS00001001653