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MS-GF+ specifications


Unique identifier OMICS_02525
Name MS-GF+
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
Computer skills Advanced
Stability Stable
Maintained Yes


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  • person_outline Pavel Pevzner

Publication for MS-GF+

MS-GF+ citations


Flexible and Accessible Workflows for Improved Proteogenomic Analysis Using the Galaxy Framework

J Proteome Res
PMCID: 4261978
PMID: 25301683
DOI: 10.1021/pr500812t

[…] to these sequences.,, a number of different programs have been used for matching of ms/ms data to these databases, including both publicly available programs such as x! tandem,,, myrimatch,,, and ms-gf+3 and commercial programs such as mascot, sequest, and proteinpilot. after identification of possible novel peptide sequences, a number of steps for filtering and assessing confidence […]


DeMix Workflow for Efficient Identification of Cofragmented Peptides in High Resolution Data dependent Tandem Mass Spectrometry*

PMCID: 4223503
PMID: 25100859
DOI: 10.1074/mcp.O114.038877

[…] peptides during dda. they can probably be targeted and identified in experiments with a longer lc gradient, enhanced digestion, or with prefractionation. interestingly, replacing morpheus-as with ms-gf+percolator yielded 8% more unique peptides without increasing the number of psms. but our investigation showed that these extra peptides had a lower rate (66%) of mapping to confetti database. […]

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MS-GF+ institution(s)
Department of Computer Science and Engineering, University of California San Diego, La Jolla, CA, USA; Biomolecular Mass Spectrometry and Proteomics Group, Bijvoet Centre for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Utrecht, Netherlands; Netherlands Proteomics Centre, Utrecht, Netherlands; Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA; Department of Biochemistry and Molecular Biology, University of Southern Denmark, Odense, Denmark
MS-GF+ funding source(s)
This work was supported by National Institutes of Health Grant 1-P41-RR024851 from the National Center for Research Resources.

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