Show simple item record Schroeder, Michael Philipp, 1986- González-Pérez, Abel López Bigas, Núria 2015-03-16T08:16:18Z 2015-03-16T08:16:18Z 2013
dc.identifier.citation Schroeder MP, Gonzalez-Perez A, Lopez-Bigas N. Visualizing multidimensional cancer genomics data. Genome Medicine. 2013; 5: 9. DOI 10.1186/gm413
dc.identifier.issn 1756-994X
dc.description.abstract Cancer genomics projects employ high-throughput technologies to identify the complete catalog of somatic alterations that characterize the genome, transcriptome and epigenome of cohorts of tumor samples. Examples include projects carried out by the International Cancer Genome Consortium (ICGC) and The Cancer Genome Atlas (TCGA). A crucial step in the extraction of knowledge from the data is the exploration by experts of the different alterations, as well as the multiple relationships between them. To that end, the use of intuitive visualization tools that can integrate different types of alterations with clinical data is essential to the field of cancer genomics. Here, we review effective and common visualization techniques for exploring oncogenomics data and discuss a selection of tools that allow researchers to effectively visualize multidimensional oncogenomics datasets. The review covers visualization methods employed by tools such as Circos, Gitools, the Integrative Genomics Viewer, Cytoscape, Savant Genome Browser, StratomeX and platforms such as cBio Cancer Genomics Portal, IntOGen, the UCSC Cancer Genomics Browser, the Regulome Explorer and the Cancer Genome Workbench.
dc.description.sponsorship We acknowledge funding from the Spanish Ministry of Science and Technology (grant number SAF009-06954 and FPI fellowship assigned to MPS), and from the Spanish National Institute of Bioinformatics (INB)
dc.format.mimetype application/pdf
dc.language.iso eng
dc.publisher BioMed Central
dc.relation.ispartof Genome Medicine. 2013; 5: 9
dc.rights © 2013 BioMed Central Ltd
dc.subject.other Càncer -- Aspectes genètics
dc.title Visualizing multidimensional cancer genomics data
dc.type info:eu-repo/semantics/article
dc.rights.accessRights info:eu-repo/semantics/openAccess
dc.type.version info:eu-repo/semantics/publishedVersion

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