Exploring TCGA Pan-Cancer Data at the UCSC Cancer Genomics Browser
Open Access
- 2 October 2013
- journal article
- Published by Springer Science and Business Media LLC in Scientific Reports
- Vol. 3 (1), 2652
- https://doi.org/10.1038/srep02652
Abstract
The UCSC Cancer Genomics Browser (https://genome-cancer.ucsc.edu) offers interactive visualization and exploration of TCGA genomic, phenotypic, and clinical data, as produced by the Cancer Genome Atlas Research Network. Researchers can explore the impact of genomic alterations on phenotypes by visualizing gene and protein expression, copy number, DNA methylation, somatic mutation and pathway inference data alongside clinical features, Pan-Cancer subtype classifications and genomic biomarkers. Integrated Kaplan–Meier survival analysis helps investigators to assess survival stratification by any of the information.This publication has 13 references indexed in Scilit:
- The Cancer Genome Atlas Pan-Cancer analysis projectNature Genetics, 2013
- Genomic and Epigenomic Landscapes of Adult De Novo Acute Myeloid LeukemiaThe New England Journal of Medicine, 2013
- Visualizing multidimensional cancer genomics dataGenome Medicine, 2013
- The UCSC Cancer Genomics Browser: update 2013Nucleic Acids Research, 2012
- The guanine nucleotide exchange factor (GEF) Ect2 is an oncogene in human cancerAdvances in Enzyme Regulation, 2010
- Integrative clustering of multiple genomic data types using a joint latent variable model with application to breast and lung cancer subtype analysisBioinformatics, 2009
- Current Treatments for Advanced Stage Non-Small Cell Lung CancerProceedings of the American Thoracic Society, 2009
- The UCSC Cancer Genomics BrowserNature Methods, 2009
- Gene expression–based survival prediction in lung adenocarcinoma: a multi-site, blinded validation studyNature Medicine, 2008
- Diagnostic agreement in the histopathological evaluation of lung cancer tissue in a population-based case-control studyLung Cancer, 2006