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PeptideProphet

A software package for the statistical validation of peptide identifications made by tandem mass spectrometry (MS/MS) and database searching.
National Institutes of Health

Papers overview

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2017
2017
PIQED: automated identification and quantification of protein modifications from DIA-MS data 
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Highly Cited
2012
Highly Cited
2012
PeptideProphet is a post-processing algorithm designed to evaluate the confidence in identifications of MS/MS spectra returned by… Expand
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Highly Cited
2011
Highly Cited
2011
The combination of tandem mass spectrometry and sequence database searching is the method of choice for the identification of… Expand
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Highly Cited
2010
Highly Cited
2010
The challenge of estimating false discovery rates (FDR) in peptide identification from MS/MS spectra has received increased… Expand
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Highly Cited
2008
Highly Cited
2008
Development of statistical methods for assessing the significance of peptide assignments to tandem mass spectra obtained using… Expand
Highly Cited
2008
Highly Cited
2008
Development of robust statistical methods for validation of peptide assignments to tandem mass (MS/MS) spectra obtained using… Expand
Highly Cited
2008
Highly Cited
2008
Tandem mass spectrometry (MS/MS) is frequently used in the identification of peptides and proteins. Typical proteomic experiments… Expand
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Review
2007
Review
2007
The shotgun proteomics strategy, based on digesting proteins into peptides and sequencing them using tandem mass spectrometry (MS… Expand
Highly Cited
2006
Highly Cited
2006
MOTIVATION Tandem mass spectrometry (MS/MS) identifies protein sequences using database search engines, at the core of which is a… Expand
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Highly Cited
2005
Highly Cited
2005
MS/MS and associated database search algorithms are essential proteomic tools for identifying peptides. Due to their widespread… Expand