Table 5 Comprehensive cancer projects and resources

         Comprehensive cancer projects

The Cancer Genome Atlas

A joint effort to accelerate our understanding of the molecular basis of cancer through the application of genome analysis technologies

http://cancergenome.nih.gov/

International Cancer Genome Consortium

International consortium with the goal of obtaining comprehensive description of genomic, transcriptomic, and epigenomic changes in 50 different cancer types and/or subtypes of clinical and societal importance across the globe

http://icgc.org/icgc

Cancer Genome Anatomy Project

Interdisciplinary program to determine the gene expression profiles of normal, precancer, and cancer cells, leading eventually to improved detection, diagnosis, and treatment for the patient

http://cgap.nci.nih.gov/

Cancer Genome Project

To identify somatically acquired sequence variants/mutations and hence identify genes critical in the development of human cancers

http://www.sanger.ac.uk/genetics/CGP/

The Clinical Proteomic Tumor Analysis Consortium

A comprehensive and coordinated effort to accelerate the understanding of the molecular basis of cancer through the application of proteomic technologies

http://proteomics.cancer.gov/

Resources

COSMIC

Catalogue of Somatic Mutations in Cancer

http://www.sanger.ac.uk/genetics/CGP/cosmic/

Progenetix

Copy number abnormalities in human cancer from CGH experiments

http://www.progenetix.org/cgi-bin/pgHome.cgi

MethyCancer

An information resource and analysis platform for study interplay of DNA methylation, gene expression and cancer

http://methycancer.psych.ac.cn/

IntOGen

Integrates multidimensional OncoGenomics Data for the identification of genes and groups of genes involved in cancer development

http://www.intogen.org/

Oncomine

A cancer microarray database and integrated data-mining platform

http://www.oncomine.org/

cBio

Provides visualization, analysis and download of large-scale cancer genomics data sets

http://www.cbioportal.org/

Firehose

Provides L3 data and L4 analyses packaged in a form amenable to immediate algorithmic analysis

https://confluence.broadinstitute.org/display/GDAC/Home

UCSC Cancer Genomics Browser

A suite of web-based tools to visualize, integrate and analyze cancer genomics and its associated clinical data

https://genome-cancer.soe.ucsc.edu/

Cancer Genome Workbench

Hosts mutation, copy number, expression, and methylation data from a number of projects, including TCGA, TARGET, COSMIC, GSK, NCI60. It has tools for visualizing sample-level genomic and transcription alterations in various cancers.

https://cgwb.nci.nih.gov/