{"database":"EGA","file_versions":[],"scores":null,"additional":{"omics_type":["Genomics"],"dataset_type":["Illumina HiSeq 2000;ILLUMINA"],"full_dataset_link":["https://ega-archive.org/datasets/EGAD00001002883"],"sample_count":["60"],"description":["EGA dataset EGAD00001002883"],"repository":["EGA"],"title":["Illumina_RNA_T-XEN_Validation_Cohort"],"pubmed_abstract":["Colorectal carcinoma represents a heterogeneous entity, with only a fraction of the tumours responding to available therapies, requiring a better molecular understanding of the disease in precision oncology. To address this challenge, the OncoTrack consortium recruited 106 CRC patients (stages I-IV) and developed a pre-clinical platform generating a compendium of drug sensitivity data totalling >4,000 assays testing 16 clinical drugs on patient-derived in vivo and in vitro models. This large biobank of 106 tumours, 35 organoids and 59 xenografts, with extensive omics data comparing donor tumours and derived models provides a resource for advancing our understanding of CRC. Models recapitulate many of the genetic and transcriptomic features of the donors, but defined less complex molecular sub-groups because of the loss of human stroma. Linking molecular profiles with drug sensitivity patterns identifies novel biomarkers, including a signature outperforming RAS/RAF mutations in predicting sensitivity to the EGFR inhibitor cetuximab."],"pubmed_title":["Molecular dissection of colorectal cancer in pre-clinical models identifies biomarkers predicting sensitivity to EGFR inhibitors."],"pubmed_authors":["Schütte Moritz M, Risch Thomas T, Abdavi-Azar Nilofar N, Boehnke Karsten K, Schumacher Dirk D, Keil Marlen M, Yildiriman Reha R, Jandrasits Christine C, Borodina Tatiana T, Amstislavskiy Vyacheslav V, Worth Catherine L CL, Schweiger Caroline C, Liebs Sandra S, Lange Martin M, Warnatz Hans-Jörg HJ, Butcher Lee M LM, Barrett James E JE, Sultan Marc M, Wierling Christoph C, Golob-Schwarzl Nicole N, Lax Sigurd S, Uranitsch Stefan S, Becker Michael M, Welte Yvonne Y, Regan Joseph Lewis JL, Silvestrov Maxine M, Kehler Inge I, Fusi Alberto A, Kessler Thomas T, Herwig Ralf R, Landegren Ulf U, Wienke Dirk D, Nilsson Mats M, Velasco Juan A JA, Garin-Chesa Pilar P, Reinhard Christoph C, Beck Stephan S, Schäfer Reinhold R, Regenbrecht Christian R A CR, Henderson David D, Lange Bodo B, Haybaeck Johannes J, Keilholz Ulrich U, Hoffmann Jens J, Lehrach Hans H, Yaspo Marie-Laure ML"],"name_synonyms":["Vasp, VASP, Data Set., DmelCG15112, ENHANCER OF ATNSI ACTIVITY, MENA, NDPP1, l(2)02029, Enb, enb, ENA, Ena, CG15112, ENA/VASP"],"pubmed_title_synonyms":["DER/faint little ball, Colorectal Neoplasm, Biological Markers, Viral Marker, Colorectal Cancer, Surrogate Endpoints, D-Egf, PhrB photolyase activity, Clinical Markers, Laboratory, Clinical Marker, C-erb, Neoplasms, Elp-B1, der, DER1., Biochemical, Elp-1, mor1, Endpoint, Errb1, Tumor, photoreactivating enzyme activity, Serum, mENA, pigmented epithelium, EK2-6, autosomal dominant, Surrogate End Points, PIG61, Colorectal, colorectal cancer, Surrogate Markers, Laboratory Markers, Biological, sensitive, epidermal growth factor-activated receptor activity, AI552599, c-erbB, EGFr, Egfr, torpedo/Egfr, EGF receptor activity, 3, stratum pigmentosa retinae, TOP, NUP96, Egf-r, d-egf-r, epithelium, sensitivity, Colorectal Tumors, Biomarker, EGF-R, MOS3, deoxyribocyclobutadipyrimidine pyrimidine-lyase activity, Clinical, PRECOCIOUS, Biological Marker, pigmented retina, F23A5.3, top, Colorectal Carcinomas, Torpedo/DER, Colorectal Tumor, DNA cyclobutane dipyrimidine photolyase activity, flb, large intestine cancer, SUPPRESSOR OF AUXIN RESISTANCE 3, top/flb, cancer of the large intestine, allergic reaction, Immunologic Markers, Immune, Markers, l(2)57EFa, Viral Markers, Sensitivity, 9030024J15Rik, D-EGFR, l(2)57Ea, Immunologic Marker, somatic mutation, F23A5_3, Biologic, NISBD2, colorectal (colon or rectal) cancer, Tumors, Cancer, Elp-B1RB1, Dissections, PRE, Carcinoma, Viral, Elp, Surrogate Endpoint, Wa5, l(2)09261, TGF-alpha receptor activity, ERBB, dEGFR1, DEgfr, deoxyribonucleic cyclobutane dipyrimidine photolyase activity, Serum Markers, End Point, Biochemical Markers, Biologic Marker, CG10079, Immune Marker, torpedo/egfr, MODIFIER OF SNC1, epidermal growth factor receptor activity, retinal pigment, wa2, DmelCG10079, Marker, Surrogate End Point, deoxyribonucleic photolyase activity, Neoplasm, dipyrimidine photolyase (photosensitive), CRC, Colorectal Cancers, DER/top, retinal pigment layer, Biologic Markers, Carcinomas, large bowel cancer, egfr, Serum Marker, RPE, HD-33, El, End Points, top/DER, photolyase activity, Surrogate, DER/EGFR, EGFR, EGfr, EgfR, susceptibility to, Colorectal Carcinoma, Endpoints, dEgfr, Specificity, DER flb, ERBB1, Cancers, Immunologic, wa-2, Laboratory Marker, Torpedo/Egfr, cancer of large bowel, Surrogate Marker, p. pigmentosa retinae, Degfr, phr A photolyase activity, Egf, colon cancer, EFG-R, DNA-photoreactivating enzyme, Specificity and Sensitivity, Biochemical Marker, Errp, Erbb, DEGFR, l(2)57DEFa, l(2)05351, Der, DER, cancer of the large bowel, dEGFR, deoxyribonucleate pyrimidine dimer lyase (photosensitive), transforming growth factor-alpha receptor activity, cancer of large intestine, DmHD-33, DER/torpedo, HER1, Immune Markers"],"description_synonyms":["Colorectal Neoplasm, Carcinoma, Colorectal Cancer, Heterograft, Neoplasms, TRANSPL HETEROL, Tumor, Transplantations, Client, autosomal dominant, heterologous transplantation, Colorectal, colorectal cancer, XENOTRANSPL, Neoplasm, CRC, Colorectal Cancers, Heterologous Transplantations, Colorectal Tumors, Carcinomas, large bowel cancer, Xenograft, Xenotransplantation, Transplantation, susceptibility to, Colorectal Carcinoma, Heterografts, HETEROL TRANSPL, Colorectal Carcinomas, patient, Xenografts, Cancers, Colorectal Tumor, cancer of large bowel, sample population, large intestine cancer, cancer of the large intestine, sample., colon cancer, Xenotransplantations, Patient, Clients, xenotransplant, cancer of the large bowel, cancer of large intestine, somatic mutation, Heterologous, colorectal (colon or rectal) cancer, Tumors, Cancer"],"pubmed_abstract_synonyms":["Colorectal Neoplasm, RAS, Ras, l(1)G0098, Surrogate Endpoints, PhrB photolyase activity, Product, Laboratory, acetylglucosaminyltransferase-like protein, Addresses, Elp-B1, der, Elp-1, Errb1, raf, TRANSPL HETEROL, Tumor, Ras-1, PIG61, Mutations, ras, c-ras2, MAb C225, Biological, epidermal growth factor-activated receptor activity, 3, NUP96, myd, epithelium, Atf4, Colorectal Tumors, 929, DmelCG8669, like-acetylglucosaminyltransferase, Draf-1, cell process disease, tumor disease, Tissue, F20O9.210, Mbp-1, Colorectal Carcinomas, CRUCIFERIN C, Colorectal Tumor, D-raf1, flb, SUPPRESSOR OF AUXIN RESISTANCE 3, allergic reaction, Xenotransplantations, Organoid, medicine, 9030024J15Rik, Homo sapiens disease, Tissue Donor, colorectal (colon or rectal) cancer, CG1799, Tumors, Transplant Donor, Viral, Ras2, RAS2, Elp, l(1)phl, Ras1, RAS1, DEgfr, potp, Transplant, familial, Semen Donors, tumours, torpedo/egfr, Marker, mKIAA0609, dRas85D, dipyrimidine photolyase (photosensitive), Donors, Colorectal Cancers, l(2)crc, ras1, ras2, BcDNA:RE36103, Carcinomas, fg, egfr, Xenotransplantation, l(1)pole hole, HD-33, El, End Points, DER/EGFR, EGFR, EGfr, EgfR, Hras-1, DER flb, Dm Ras1, Immunologic, Laboratory Marker, l(1)polehole, Torpedo/Egfr, D-raf, cancer of large bowel, human, Semen Donor, Degfr, ATF-4, MDC1D, RasI, enr, antagonists and inhibitors, DEGFR, l(2)05351, cancer of the large bowel, Afr-1, EG:BACH48C10.3, ATF4/crc, other neoplasm, Organ Donors, Harvey-ras, Hras1, Colorectal Cancer, Clr, D-Egf, Clinical Marker, Neoplasms, dRas, CG1167, H-ras, DRaf, DRAS1, DRas2, IMPDH, mENA, AFR1, EK2-6, Afr1, LARGE1, draf, LD06825, NEOPL, Human, Dras2, Dras1, colorectal cancer, IMC-C225, D-Ras, sensitive, EGFr, Egfr, disease or disorder, Kras-2, torpedo/Egfr, anon-EST:Liang-2.17, TOP, anon-EST:Liang-2.11, IMPdH, neoplasm, Ha-ras, Man, D-RAF, D-Raf, Dras, ras 1, mKIAA0854, Clinical, MDDGB6, raspberry/impd, F23A5.3, top, Phl, tumour, Ras[V12], EK3-4, Transplant Donors, cancer of the large intestine, DRas, DRas85D/Ras, Dmras64B, MALIGNANT AND UNSPECIFIED (INCL CYSTS AND POLYPS), drugs, Draf, Ovum Donor, constitutitional genetic, Neoplastic Growth, Heterologous, Biologic, Cancer, Pharmaceuticals, Organ, Elp-B1RB1, inhibitors, Products, TGF-alpha receptor activity, ERBB, dEGFR1, raf-1, Serum Markers, disorders, eth, D-ras-1, Immune Marker, E(faf), DmelCG1167, neoplastic growth, XENOTRANSPL, Surrogate End Point, Neoplasm, S35097, condition, Donor, Crc, CRC, DER/top, Biologic Markers, RAS85D, RPE, Dmras85D, Pharmaceutic Preparations, l(1)9Eb, Surrogate, Colorectal Carcinoma, Endpoints, Specificity, crc, Cancers, CRIB, Understanding, wa-2, disease of cellular proliferation, p. pigmentosa retinae, l(1)polehole/draf, crt, colon cancer, like-glycosyltransferase, Erbb, Erbitux, deoxyribonucleate pyrimidine dimer lyase (photosensitive), ph, Pharmaceutical Products, hereditary, NEOPLASMS BENIGN, Neoplasia, stromal connective tissue, Immune Markers, DER/faint little ball, Ras1/RAs85D, Biological Markers, Viral Marker, Heterograft, neoplasia, Mbp1, Biochemical, Endpoint, c-rasHa, E(sev)3C, Serum, F20O9_210, pigmented epithelium, CG11485, Readability, Laboratory Markers, diseases, AI552599, Pharmaceutical Product, diseases and disorders, d-egf-r, D-Ras1, human disease, Man (Taxonomy), RTK, neoplasm (disease), l(1)G0436, pigmented retina, ras85B, ras85D, DNA cyclobutane dipyrimidine photolyase activity, large intestine cancer, genetic, Immune, D-ras-2, Markers, Pharmaceutical, Viral Markers, D-EGFR, tumor, somatic mutation, NISBD2, DER1, PRE, Carcinoma, l(3)s1747, Surrogate Endpoint, Wa5, l(2)09261, gyltl1b-b, Ki-ras, deoxyribonucleic cyclobutane dipyrimidine photolyase activity, Modern, KIAA0854, neoplastic disease, Biochemical Markers, Biologic Marker, CG10079, ZHX2, retinal pigment, wa2, MDDGA6, Diseases, p21[Ras1], Pharmaceutic, dRas1, dRAS1, KIAA0609, DRaf1, retinal pigment layer, Heterologous Transplantations, Dras85D, anon-EST:fe3D7, acetylglucosaminyltransferase-like 1A, ras-2, l(1)G0475, Xenograft, cruciferin 3, l(1)G0351, gyltl1b, LD02673, Transplantation, DmelCG1799, c-Ha-ras, Draf1, C225, D-ras1, l(1)G0238, susceptibility to, D-ras2, raf1, dEgfr, Heterogeneity, mdc1d, C-ras1, Xenografts, Dras64B, LARGE_HUMAN, C-ras2, l(3)06677, loss of, l(1)G0002, disease, phr A photolyase activity, l(1)G0482, Semen, DNA-photoreactivating enzyme, Patient, Specificity and Sensitivity, Biochemical Marker, c-H-ras, l(1)G0127, l(2)57DEFa, CG8669, C110, dEGFR, inherited genetic, cancer of large intestine, DmHD-33, mKIAA0147, Ovum, Ovum Donors, AI118201, rafl, other disease, human being, RasV12, Clinical Markers, C-erb, Kras2, mor1, DmelCG9375, photoreactivating enzyme activity, Transplantations, autosomal dominant, froggy, Gyltl1a, heterologous transplantation, Surrogate End Points, l(1)G0388, Colorectal, Surrogate Markers, dATF-4, Homo sapiens, Genetic heterogeneity, c-erbB, EGF receptor activity, stratum pigmentosa retinae, Egf-r, clone 2.11, IMC C225., l(1)G0380, sensitivity, Raf1, Drugs, p21B, Biomarker, EGF-R, MOS3, deoxyribocyclobutadipyrimidine pyrimidine-lyase activity, dras1, Dm-ras-64B, PRECOCIOUS, DmelCG2845, clone 2.17, Biological Marker, Scrb1, CG9429, Heterografts, inhibiteur, Torpedo/DER, LARGE, Ire1, l(1)G0391, top/flb, non-neoplastic, BPFD#36, Ras 85D, Immunologic Markers, inhibidor, l(1)raf, l(2)57EFa, vartul, Clients, disorder, Sensitivity, l(2)57Ea, Preparation, ras-l, Immunologic Marker, F23A5_3, l(1)G0056, CG9375, SCRIB1, End Point, inhibitor, K-ras, l(1)2Fe, medical condition, Medications, Client, MODIFIER OF SNC1, fs(3)05703, Raf/phl, epidermal growth factor receptor activity, DmelCG10079, EP(X)1093, deoxyribonucleic photolyase activity, AI929937, antagonists, large bowel cancer, Serum Marker, Organ Donor, top/DER, photolyase activity, HETEROL TRANSPL, patient, ERBB1, l(1)ph, Su(tor)3-2, Surrogate Marker, 11-29, Drug, DmelCG9429, Preparations, Egf, EFG-R, Errp, Modern Man, Der, DER, transforming growth factor-alpha receptor activity, Raf, RAF, DER/torpedo, HER1, Pharmaceutical Preparation, glycosyltransferase-like protein LARGE1, CG2845"],"additional_accession":[]},"is_claimable":false,"name":"ena-DATASET-MPIMG-07-11-2016-13:59:08:076-797 - samples","description":"RNAseq on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from colorectal cancer sample of a validation cohort of 60 PDX","dates":{"updated":"2017-07-26 15:39:29"},"accession":"EGAD00001002883","cross_references":{"TAXONOMY":["9606"],"pubmed":["28186126"],"EGA":["EGAC00001000469","EGAS00001001752"]}}