Aggregation, Dissemination, and Analysis of High-throughput Scientific Data Sets in the Field of Proteomics.

Abstract

Open-access software and data sets play an important role in the analysis and reproducibility of analysis for high-throughput proteomics data sets. This work details the development of a set of tools, websites, and practices for aggregating, disseminating, and analyzing high-throughput mass spectrometry based proteomics data sets. The majority of this work is framed around development of the ProteomeCommons.org website and the Tranche P2P network. Work is also presented that involves development of an open-access reference data set for proteomics and a post-analysis refinement tool that can identify unexpected peptide and protein modifications, estimate identifiable spectra, and act as a spectral library for cross data set comparisons.