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

PGx: Putting Peptides to BED.

Author information

1
Biomedical Hosting LLC, 33 Lewis Avenue, Arlington, Massachusetts 02474, United States.
2
NYU Langone Medical Center , 227 East 30th Street, New York, New York 10016, United States.

Abstract

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

PMID:
26638927
PMCID:
PMC4782174
DOI:
10.1021/acs.jproteome.5b00870
[Indexed for MEDLINE]
Free PMC Article

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