PhosFox: a bioinformatics tool for peptide-level processing of LC-MS/MS-based phosphoproteomic data.

ABSTRACT:

Background

It is possible to identify thousands of phosphopeptides and -proteins in a single experiment with mass spectrometry-based phosphoproteomics. However, a current bottleneck is the downstream data analysis which is often laborious and requires a number of manual steps.

Results

Toward automating the analysis steps, we have developed and implemented a software, PhosFox, which enables peptide-level processing of phosphoproteomic data generated by multiple protein identification search algorithms, including Mascot, Sequest, and Paragon, as well as cross-comparison of their identification results. The software supports both qualitative and quantitative phosphoproteomics studies, as well as multiple between-group comparisons. Importantly, PhosFox detects uniquely phosphory

SUBMITTER: Soderholm S 

PROVIDER: S-EPMC4098950 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature