Subtype data__TCGA

source: http://bioconductor.org/packages/release/bioc/vignettes/TCGAbiolinksGUI/inst/doc/data.html

The Cancer Genome Atlas (TCGA) Research Network has reported integrated genome-wide studies of various diseases. We have added some of the subtypes defined by these reports in our package.

TCGA dataset Link Paper Journal
ACC doi:10.1016/j.ccell.2016.04.002 Comprehensive Pan-Genomic Characterization of Adrenocortical Carcinoma. Cancer cell 2016
BRCA https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3465532/ Comprehensive molecular portraits of human breast tumors Nature 2013
BLCA http://www.cell.com/cell/fulltext/S0092-8674(17)31056-5 Comprehensive Molecular Characterization of Muscle-Invasive Bladder Cancer Cell 2017
CHOL http://www.sciencedirect.com/science/article/pii/S2211124717302140?via%3Dihub Integrative Genomic Analysis of Cholangiocarcinoma Identifies Distinct IDH-Mutant Molecular Profiles Cell Reports 2017
COAD http://www.nature.com/nature/journal/v487/n7407/abs/nature11252.html Comprehensive molecular characterization of human colon and rectal cancer Nature 2012
ESCA https://www.nature.com/articles/nature20805 Integrated genomic characterization of oesophageal carcinoma Nature 2017
GBM http://dx.doi.org/10.1016/j.cell.2015.12.028 Molecular Profiling Reveals Biologically Discrete Subsets and Pathways of Progression in Diffuse Glioma Cell 2016
HNSC http://www.nature.com/nature/journal/v517/n7536/abs/nature14129.html Comprehensive genomic characterization of head and neck squamous cell carcinomas Nature 2015
KICH http://www.sciencedirect.com/science/article/pii/S1535610814003043 The Somatic Genomic Landscape of Chromophobe Renal Cell Carcinoma Cancer cell 2014
KIRC http://www.nature.com/nature/journal/v499/n7456/abs/nature12222.html Comprehensive molecular characterization of clear cell renal cell carcinoma Nature 2013
KIRP http://www.nejm.org/doi/full/10.1056/NEJMoa1505917 Comprehensive Molecular Characterization of Papillary Renal-Cell Carcinoma NEJM 2016
LIHC http://linkinghub.elsevier.com/retrieve/pii/S0092-8674(17)30639-6 Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma Cell 2017
LGG http://dx.doi.org/10.1016/j.cell.2015.12.028 Molecular Profiling Reveals Biologically Discrete Subsets and Pathways of Progression in Diffuse Glioma Cell 2016
LUAD http://www.nature.com/nature/journal/v511/n7511/abs/nature13385.html Comprehensive molecular profiling of lung adenocarcinoma Nature 2014
LUSC http://www.nature.com/nature/journal/v489/n7417/abs/nature11404.html Comprehensive genomic characterization of squamous cell lung cancers Nature 2012
PAAD http://www.cell.com/cancer-cell/fulltext/S1535-6108(17)30299-4 Integrated Genomic Characterization of Pancreatic Ductal Adenocarcinoma Cancer Cell 2017
PCPG http://dx.doi.org/10.1016/j.ccell.2017.01.001 Comprehensive Molecular Characterization of Pheochromocytoma and Paraganglioma Cancer cell 2017
PRAD http://www.sciencedirect.com/science/article/pii/S0092867415013392 The Molecular Taxonomy of Primary Prostate Cancer Cell 2015
READ http://www.nature.com/nature/journal/v487/n7407/abs/nature11252.html Comprehensive molecular characterization of human colon and rectal cancer Nature 2012
SARC http://www.cell.com/cell/fulltext/S0092-8674(17)31203-5 Comprehensive and Integrated Genomic Characterization of Adult Soft Tissue Sarcomas Cell 2017
SKCM http://www.sciencedirect.com/science/article/pii/S0092867415006340 Genomic Classification of Cutaneous Melanoma Cell 2015
STAD http://www.nature.com/nature/journal/v511/n7511/abs/nature13385.html Comprehensive molecular characterization of gastric adenocarcinoma Nature 2013
THCA http://www.sciencedirect.com/science/article/pii/S0092867414012380 Integrated Genomic Characterization of Papillary Thyroid Carcinoma Cell 2014
UCEC http://www.nature.com/nature/journal/v497/n7447/abs/nature12113.html Integrated genomic characterization of endometrial carcinoma Nature 2013
UCS http://www.cell.com/cancer-cell/fulltext/S1535-6108(17)30053-3 Integrated Molecular Characterization of Uterine Carcinosarcoma Cancer Cell 2017
UVM http://www.cell.com/cancer-cell/fulltext/S1535-6108(17)30295-7 Integrative Analysis Identifies Four Molecular and Clinical Subsets in Uveal Melanoma Cancer Cell 2017

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