ProteomeScout: A repository and analysis resource for post-translational modifications and proteins

Matthew K. Matlock, Alex S. Holehouse, Kristen M. Naegle

Research output: Contribution to journalArticlepeer-review

24 Scopus citations

Abstract

ProteomeScout (https://proteomescout.wustl.edu) is a resource for the study of proteins and their posttranslational modifications (PTMs) consisting of a database of PTMs, a repository for experimental data, an analysis suite for PTM experiments, and a tool for visualizing the relationships between complex protein annotations. The PTM database is a compendium of public PTM data, coupled with useruploaded experimental data. ProteomeScout provides analysis tools for experimental datasets, including summary views and subset selection, which can identify relationships within subsets of data by testing for statistically significant enrichment of protein annotations. Protein annotations are incorporated in the ProteomeScout database from external resources and include terms such as Gene Ontology annotations, domains, secondary structure and nonsynonymous polymorphisms. These annotations are available in the database download, in the analysis tools and in the protein viewer. The protein viewer allows for the simultaneous visualization of annotations in an interactive web graphic, which can be exported in Scalable Vector Graphics (SVG) format. Finally, quantitative data measurements associated with public experiments are also easily viewable within protein records, allowing researchers to see how PTMs change across different contexts. ProteomeScout should prove useful for protein researchers and should benefit the proteomics community by providing a stable repository for PTM experiments.

Original languageEnglish
Pages (from-to)D521-D530
JournalNucleic acids research
Volume43
Issue numberD1
DOIs
StatePublished - Jan 28 2015

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