Identification of Differentially Expressed Splice Variants by the Proteogenomic Pipeline Splicify.

ABSTRACT: Proteogenomics, i.e. comprehensive integration of genomics and proteomics data, is a powerful approach identifying novel protein biomarkers. This is especially the case for proteins that differ structurally between disease and control conditions. As tumor development is associated with aberrant splicing, we focus on this rich source of cancer specific biomarkers. To this end, we developed a proteogenomic pipeline, Splicify, which can detect differentially expressed protein isoforms. Splicify is based on integrating RNA massive parallel sequencing data and tandem mass spectrometry proteomics data to identify protein isoforms resulting from differential splicing between two conditions. Proof of concept was obtained by applying Splicify to RNA sequencing and mass spectrometry data obta

SUBMITTER: Komor MA 

PROVIDER: S-EPMC5629268 | biostudies-literature | 2017 Oct

REPOSITORIES: biostudies-literature