Introduction to UCSC Xena: a tool for multi-omic data & associate clinical and phenotypic annotations
When: Mar. 13th, 2024 11:00 am - 12:00 pm
Learning Level: Any
To Know
About this Class
Dear Colleagues,
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, genome-wide GSEA 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 this gene associated with lower survival in these two cancer types?
• Is this gene differentially expressed in TCGA tumor vs GTEx normal?
• What are the most differentially expressed genes for the subgroups I just made?