Poster Presentation HUPO 2019 - 18th Human Proteome Organization World Congress

Avoiding abundance bias in the functional annotation of PTM proteins (#706)

David B Lyon 1 , Lars J Jensen 2 , Christian von Mering 1
  1. Systems Biology / Metagenomics, University of Zurich / Swiss Institute for Bioinformatics, Zurich, Switzerland
  2. Cellular Network Biology, University of Copenhagen, Novo Nordisk Center for Protein Research, Copenhagen, Denmark

Mass Spectrometry based shotgun-proteomics is inherently biased towards abundant proteins. This bias can influence GO-term enrichment analysis by showing enriched terms for abundant rather than e.g. post-translationally-modified (PTM) proteins. We have developed a method to correct for this bias and a freely accessible web-tool ( to facilitate the use for the scientific community. We’re expanding our protein-centric enrichment tool to additionally perform analysis for the following categories Reactome, Interpro and Pfam domains, as well as Disease Ontology, Brenda Tissue Ontology, and PubMed identifiers. Apart from regular automated updates, we provide protein-group support, redundancy reduction, as well as an API for programmatic access.