Flexible and accessible workflows for improved proteogenomic analysis using the Galaxy framework.

ABSTRACT: Proteogenomics combines large-scale genomic and transcriptomic data with mass-spectrometry-based proteomic data to discover novel protein sequence variants and improve genome annotation. In contrast with conventional proteomic applications, proteogenomic analysis requires a number of additional data processing steps. Ideally, these required steps would be integrated and automated via a single software platform offering accessibility for wet-bench researchers as well as flexibility for user-specific customization and integration of new software tools as they emerge. Toward this end, we have extended the Galaxy bioinformatics framework to facilitate proteogenomic analysis. Using analysis of whole human saliva as an example, we demonstrate Galaxy's flexibility through the creation of a modula

SUBMITTER: Jagtap PD 

PROVIDER: S-EPMC4261978 | biostudies-literature | 2014 Dec

REPOSITORIES: biostudies-literature