CGWB (The 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. The three main viewers in CGWB are:
Integrated track: a sample-level view of genomic alterations from multiple data sources in a customized version of the UCSC genome browser.
Heatmap view: an interactive, high-level graphical view of gene expression and copy number data alongside the associated clinical features.
Bambino: an alignment viewer for next-generation sequencing data in SAM/BAM format. Also includes a command line SNP and indel caller.