PGx: Putting Peptides to BED

J Proteome Res. 2016 Mar 4;15(3):795-9. doi: 10.1021/acs.jproteome.5b00870. Epub 2015 Dec 18.


Every molecular player in the cast of biology's central dogma is being sequenced and quantified with increasing ease and coverage. To bring the resulting genomic, transcriptomic, and proteomic data sets into coherence, tools must be developed that do not constrain data acquisition and analytics in any way but rather provide simple links across previously acquired data sets with minimal preprocessing and hassle. Here we present such a tool: PGx, which supports proteogenomic integration of mass spectrometry proteomics data with next-generation sequencing by mapping identified peptides onto their putative genomic coordinates.

Keywords: proteogenomic mapping; proteogenomics; proteomics.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Databases, Protein
  • Gene Expression Profiling
  • Genomics / methods*
  • Humans
  • Mass Spectrometry
  • Neoplasm Proteins / genetics
  • Peptide Mapping
  • Proteomics / methods*
  • Sequence Analysis, Protein / methods*


  • Neoplasm Proteins