Detection of recurrent alternative splicing switches in tumor samples reveals novel signatures of cancer.

ABSTRACT: The determination of the alternative splicing isoforms expressed in cancer is fundamental for the development of tumor-specific molecular targets for prognosis and therapy, but it is hindered by the heterogeneity of tumors and the variability across patients. We developed a new computational method, robust to biological and technical variability, which identifies significant transcript isoform changes across multiple samples. We applied this method to more than 4000 samples from the The Cancer Genome Atlas project to obtain novel splicing signatures that are predictive for nine different cancer types, and find a specific signature for basal-like breast tumors involving the tumor-driver CTNND1. Additionally, our method identifies 244 isoform switches, for which the change occurs in the most

SUBMITTER: Sebestyen E 

PROVIDER: S-EPMC4330360 | biostudies-literature | 2015 Feb

REPOSITORIES: biostudies-literature