title: Integrative analysis of complex cancer genomics and clinical profiles using the cBioPortal.
abstract: The cBioPortal for Cancer Genomics (http://cbioportal.org) provides a Web resource for exploring, visualizing, and analyzing multidimensional cancer genomics data. The portal reduces molecular profiling data from cancer tissues and cell lines into readily understandable genetic, epigenetic, gene expression, and proteomic events. The query interface combined with customized data storage enables researchers to interactively explore genetic alterations across samples, genes, and pathways and, when available in the underlying data, to link these to clinical outcomes. The portal provides graphical summaries of gene-level data from multiple platforms, network visualization and analysis, survival analysis, patient-centric queries, and software programmatic access. The intuitive Web interface of the portal makes complex cancer genomics profiles accessible to researchers and clinicians without requiring bioinformatics expertise, thus facilitating biological discoveries. Here, we provide a practical guide to the analysis and visualization features of the cBioPortal for Cancer Genomics.
authors.affiliation: Computational Biology Center, Memorial Sloan-Kettering Cancer Center, New York, NY 10065, USA.
authors.forename: Jianjiong
authors.initials: J
authors.lastname: Gao
authors.forename: Bülent Arman
authors.initials: BA
authors.lastname: Aksoy
authors.forename: Ugur
authors.initials: U
authors.lastname: Dogrusoz
authors.forename: Gideon
authors.initials: G
authors.lastname: Dresdner
authors.forename: Benjamin
authors.initials: B
authors.lastname: Gross
authors.forename: S Onur
authors.initials: SO
authors.lastname: Sumer
authors.forename: Yichao
authors.initials: Y
authors.lastname: Sun
authors.forename: Anders
authors.initials: A
authors.lastname: Jacobsen
authors.forename: Rileen
authors.initials: R
authors.lastname: Sinha
authors.forename: Erik
authors.initials: E
authors.lastname: Larsson
authors.forename: Ethan
authors.initials: E
authors.lastname: Cerami
authors.forename: Chris
authors.initials: C
authors.lastname: Sander
authors.forename: Nikolaus
authors.initials: N
authors.lastname: Schultz
mesh_terms: D020869:Gene Expression Profiling; D053263:Gene Regulatory Networks; D020022:Genetic Predisposition to Disease / Q000235:genetics*; D023281:Genomics; D006801:Humans; D016247:Information Storage and Retrieval / Q000379:methods*; D020407:Internet; D009369:Neoplasms / Q000235:genetics* / Q000473:pathology; D015203:Reproducibility of Results; D012984:Software
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