UALCAN: A Portal for Facilitating Tumor Subgroup Gene Expression and Survival Analyses.

TitleUALCAN: A Portal for Facilitating Tumor Subgroup Gene Expression and Survival Analyses.
Publication TypeJournal Article
Year of Publication2017
AuthorsChandrashekar, DS, Bashel, B, Balasubramanya, SAkshaya Ho, Creighton, CJ, Ponce-Rodriguez, I, Chakravarthi, BVSK, Varambally, S
JournalNeoplasia
Volume19
Issue8
Pagination649-658
Date Published2017 Aug
ISSN1476-5586
Abstract

Genomics data from The Cancer Genome Atlas (TCGA) project has led to the comprehensive molecular characterization of multiple cancer types. The large sample numbers in TCGA offer an excellent opportunity to address questions associated with tumo heterogeneity. Exploration of the data by cancer researchers and clinicians is imperative to unearth novel therapeutic/diagnostic biomarkers. Various computational tools have been developed to aid researchers in carrying out specific TCGA data analyses; however there is need for resources to facilitate the study of gene expression variations and survival associations across tumors. Here, we report UALCAN, an easy to use, interactive web-portal to perform to in-depth analyses of TCGA gene expression data. UALCAN uses TCGA level 3 RNA-seq and clinical data from 31 cancer types. The portal's user-friendly features allow to perform: 1) analyze relative expression of a query gene(s) across tumor and normal samples, as well as in various tumor sub-groups based on individual cancer stages, tumor grade, race, body weight or other clinicopathologic features, 2) estimate the effect of gene expression level and clinicopathologic features on patient survival; and 3) identify the top over- and under-expressed (up and down-regulated) genes in individual cancer types. This resource serves as a platform for in silico validation of target genes and for identifying tumor sub-group specific candidate biomarkers. Thus, UALCAN web-portal could be extremely helpful in accelerating cancer research. UALCAN is publicly available at http://ualcan.path.uab.edu.

DOI10.1016/j.neo.2017.05.002
Alternate JournalNeoplasia
PubMed ID28732212
PubMed Central IDPMC5516091
Grant ListP30 CA125123 / CA / NCI NIH HHS / United States
R01 CA154980 / CA / NCI NIH HHS / United States
R01 CA157845 / CA / NCI NIH HHS / United States