Introduction to UCSC Xena: a tool for multi-omics data & associate clinical and phenotypic annotations

About this Class

UCSC Xena is a web-based visual integration and exploration tool for multi-omic data and associated clinical and phenotypic annotations. Xena showcases seminal cancer genomics datasets from TCGA and the Pan-Cancer Atlas, as well as the GDC, PCAWG, and ICGC; a total of more than 1500 datasets across 50 cancer types. We support virtually any type of functional genomics data modality, including SNPs, INDELs, large structural variants, CNV, gene and other types of expression, DNA methylation, clinical and phenotypic annotations. Browser features include the high performance Visual Spreadsheet, dynamic Kaplan-Meier survival analysis, genome-wide differential gene expression analysis, powerful filtering and subgrouping, charts, statistical analyses, genomic signatures, and live bookmarks. Researchers can use the same visualizations to view their own data privately and securely in Xena. Xena can help you answer questions like:

• Is over-expression of geneA associated with better survival in these two cancer types?
• Is geneB differentially expressed in TCGA tumor vs GTEx normal?
• What are the most differentially expressed genes for the subgroups I just made?
• What is the relationship between expression, mutation, copy number, etc for these genes?

This webinar will include a live demonstration of Xena. Feel free to follow along in either Chrome or Firefox.