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New TraIT tool: cBioPortal

The popular data integration and analysis tool cBioPortal is now available in TraIT.

Originally developed at Memorial Sloan Kettering Cancer Center (MSK)1,2cBioPortal became open source in 2011 and is used by tens of thousands of researchers across the globe. The portal is actively developed and maintained by a multi-institutional team, consisting of MSK, the Dana Farber Cancer Institute, Princess Margaret Cancer Centre in Toronto, Children's Hospital of Philadelphia, The Hyve in the Netherlands, and Bilkent University in Ankara, Turkey.

TraIT cBioPortal provides a web-based resource for researchers to explore, visualize, analyze, and share multidimensional cancer genomics data sets as well as other studies with multidimensional genomics data. The user-friendly web interface makes visualization of gene-level data across genes, samples and data types available to users, without requiring bioinformatics expertise. Visualizations include survival analysis, networks analysis, co-expression and the oncoprint (geneprint). Furthermore, a study view is available, which provides summary statistics of your clinical data and allows you to create a subset of your data for further analysis.

The portal supports a variety of genomic data types, including somatic mutations, DNA copy-number alterations (CNAs), mRNA and microRNA (miRNA) expression, DNA methylation, protein abundance, and phosphoprotein abundance. To protect your data, the cBioPortal hosted by TraIT has access policies, meaning that as a study owner you can decide which users have access to your studies.

Please read more on the TraIT cBioPortal tool page.

For further questions regarding this TraIT platform, including requests for usage, please contact the TraIT Servicedesk.

 

References:
1
. Cerami et al: The cBio Cancer Genomics Portal: An Open Platform for Exploring Multidimensional Cancer Genomics Data (http://cancerdiscovery.aacrjournals.org/content/2/5/401)
2. Gao et al: Integrative analysis of complex cancer genomics and clinical profiles using the cBioPortal  (https://www.ncbi.nlm.nih.gov/pubmed/23550210 )