{"database":"EGA","file_versions":[],"scores":null,"additional":{"omics_type":["Genomics"],"dataset_type":["Illumina HiSeq 2000;"],"full_dataset_link":["https://ega-archive.org/datasets/EGAD00001000985"],"sample_count":["58"],"description":["EGA dataset EGAD00001000985"],"repository":["EGA"],"title":["TCS validation of 11 lung adenos"],"pubmed_abstract":["Cancers are composed of populations of cells with distinct molecular and phenotypic features, a phenomenon termed intratumor heterogeneity (ITH). ITH in lung cancers has not been well studied. We applied multiregion whole-exome sequencing (WES) on 11 localized lung adenocarcinomas. All tumors showed clear evidence of ITH. On average, 76% of all mutations and 20 out of 21 known cancer gene mutations were identified in all regions of individual tumors, which suggested that single-region sequencing may be adequate to identify the majority of known cancer gene mutations in localized lung adenocarcinomas. With a median follow-up of 21 months after surgery, three patients have relapsed, and all three patients had significantly larger fractions of subclonal mutations in their primary tumors than patients without relapse. These data indicate that a larger subclonal mutation fraction may be associated with increased likelihood of postsurgical relapse in patients with localized lung adenocarcinomas."],"pubmed_title":["Intratumor heterogeneity in localized lung adenocarcinomas delineated by multiregion sequencing."],"pubmed_authors":["Zhang Jianjun J, Fujimoto Junya J, Zhang Jianhua J, Wedge David C DC, Song Xingzhi X, Zhang Jiexin J, Seth Sahil S, Chow Chi-Wan CW, Cao Yu Y, Gumbs Curtis C, Gold Kathryn A KA, Kalhor Neda N, Little Latasha L, Mahadeshwar Harshad H, Moran Cesar C, Protopopov Alexei A, Sun Huandong H, Tang Jiabin J, Wu Xifeng X, Ye Yuanqing Y, William William N WN, Lee J Jack JJ, Heymach John V JV, Hong Waun Ki WK, Swisher Stephen S, Wistuba Ignacio I II, Futreal P Andrew PA"],"name_synonyms":["Vasp, VASP, Data Set., DmelCG15112, ENHANCER OF ATNSI ACTIVITY, MENA, NDPP1, l(2)02029, Enb, enb, ENA, Ena, CG15112, ENA/VASP"],"description_synonyms":["BamF, bim, GRP1/cytohesin 1, biml, Malignant Neoplasm, whole blood, BamC, Neoplasms, Blood, bam, Benign Neoplasm, stepk, ham, white cell count, BOD, Tumor, Malignant, fs(3)neo61, TCOF, Mutations, CG11633, cytohesin/GRP1, CG10422, Benign, GRP1, PBMC, Grp1, 3.1.3.48, Neoplasm, bim-beta7, bod, DmelCG10422, l(2)SH0323, bimel, CYH1, WES, TCS, Peripheral Blood, TCS1, Malignancy, Step, CG11628, HCAP, bim-beta6, PTPSTEP, RCB0638, l(2)SH2 0323, Benign Neoplasms, Striatum-enriched protein-tyrosine phosphatase, alpha, Cancers, WBC, treacle, CDLS3, BMH, white blood cell count., DmelCG11628, Malignant Neoplasms, Reticuloendothelial System, Neoplasias, MFD1, Neural-specific protein-tyrosine phosphatase, BIM, STEP, Bam-C, l(2)k08110, PBMCs, BAM, Bam, SMC3L1, Malignancies, CSPG6, other neoplasm, Neoplasia, GPH, Cancer, Tumors"],"pubmed_title_synonyms":["Adenocarcinoma, Carcinomas, Carcinoma, Oxyphilic, localised, localized, pulmo, Adenomas, Adenoma, Basal Cell, Granular Cell Carcinoma, Tubular Adenocarcinoma, Oxyphilic Adenocarcinoma, lung parenchyma, Cribriform, Tubular Carcinomas, Cribriform Carcinomas, Malignant, ADNOS, Adenocarcinomas, Tubular Adenocarcinomas, Malignant Adenomas, Granular Cell Adenocarcinomas, Tubular, Cribriform Carcinoma., Granular Cell Carcinomas, pulmonary, Malignant Adenoma, parenchyma of lung, heterogeneity, Granular Cell Adenocarcinoma, lung, Tubular Carcinoma, Lungs, Granular Cell, Oxyphilic Adenocarcinomas, Basal Cell Adenocarcinomas, neoplasm, Basal Cell Adenocarcinoma, neoplasms"],"pubmed_abstract_synonyms":["Adenocarcinoma, Recovery from surgery, localised, Materials, Complete Exome, Adenomas, region or site annotation, Neoplasms, Oxyphilic Adenocarcinoma, Benign Neoplasm, Gene, Tumor, composed of, Malignant, ADNOS, supernumerary, Granular Cell Adenocarcinomas, Mutations, relapse, parenchyma of lung, Granular Cell Adenocarcinoma, lung, Tubular Carcinoma, Whole Transcriptome, Transcriptome Sequencing, Relapses, Basal Cell Adenocarcinomas, neoplasm, Cribriform Carcinoma, average, increased, WES, positional, Complete, Exome Sequencings, localized, Genetic, Malignancy, Adenoma, Recrudescences, Granular Cell Carcinoma, Complete Exome Sequencing, Whole Transcriptome Sequencing, Recurrences, Tubular Adenocarcinoma, composition, Tubular Carcinomas, Cribriform Carcinomas, Sequencing, Neoplasias, geographical area, Whole Exome, Granular Cell Carcinomas, malignant neoplasm, Clients, Whole, heterogeneity, Malignancies, Cancer, Tumors, Relapse, Carcinoma, Oxyphilic, adequate, pulmo, Complete Exome Sequencings, Malignant Neoplasm, Basal Cell, Exome, lung parenchyma, compositionality, Cistrons, Adenocarcinomas, Client, Cell, Exome Sequencing, Tubular, Benign, MT, Malignant Adenoma, Recrudescence, Neoplasm, sequence, Genetic Materials, Granular Cell, median, Oxyphilic Adenocarcinomas, Basal Cell Adenocarcinoma, neoplasms, Genetic Material, Carcinomas, Complete Transcriptome, primary cancer, Complete Transcriptome Sequencing, positional polypeptide feature, distinct, increased number, content, follow up, Cribriform, Benign Neoplasms, INSDC_feature:gene, Cancers, malignant tumor, Tubular Adenocarcinomas, Malignant Adenomas, primary structure of sequence macromolecule, Malignant Neoplasms, present in greater numbers in organism, Cribriform Carcinoma., clear, hyaline, pulmonary, Patient, Material, structure, Whole Exome Sequencing, Cistron, Lungs, Transcriptome Sequencings, Neoplasia, accessory"],"additional_accession":[]},"is_claimable":false,"name":"ena-DATASET-MDACC-20-08-2014-16:58:44:853-680 - samples","description":"This is the targeted capture deep sequencing (TCS) data for validation of the mutations discovered in the WES step. There are 58 bam files of TCS data including 48 tumor samples and 10 peripheral blood WBC samples.","dates":{"updated":"2017-07-26 15:39:25"},"accession":"EGAD00001000985","cross_references":{"TAXONOMY":["9606"],"pubmed":["25301631"],"EGA":["EGAC00001000223","EGAS00001000930"]}}