Pepitome statistics

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Pepitome specifications

Information


Unique identifier OMICS_05382
Name Pepitome
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Windows
License Apache License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

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Publication for Pepitome

Pepitome in publications

 (4)
PMCID: 5947747
PMID: 29349874
DOI: 10.1002/prca.201700047

[…] et al. concluded that if long‐term storage is necessary, samples should be stored at −78 °c and must be thawed quickly. however, in our hands thawing conditions did not significantly influence serum pepitome patterns (supporting information, figure 1). samples stored at −80 °c have almost no liquid water, thereby preventing hydrolysis. in this study, serum stored at −20 °c for 3 months showed […]

PMCID: 4968634
PMID: 27493588
DOI: 10.1038/nmeth.3902

[…] to assess the similarity between two spectra: instead of the commonly used normalized dot product we employed a probabilistic scoring approach similar to that of the spectrum library search engine pepitome (). to evaluate the accuracy of the algorithm we first reanalysed 209 human datasets from pride archive () resulting in 10 million reliably identified spectra using spectrast at a 1% peptide […]

PMCID: 4678536
PMID: 26666224
DOI: 10.1186/s13062-015-0098-x

[…] were compared against patterns of in silico fragmented peptides from the refseq human protein sequence database (v.54) [] using myrimatch v2.1.87 []. spectral-library matching was performed using pepitome [] and referenced against the nist database where the m/z and rt profiles of actual peptides were captured and stored []. peptide-identification stringency was set at fdr of 2 % for higher […]

PMCID: 3982976
PMID: 24494671
DOI: 10.1021/ac4034455

[…] could be extended to include more factors such as instrument types and the sample types., tandem mass spectra from each study 1 mass spectrometer were identified using spectral library search. the pepitome algorithm compared spectra to the nist human ion trap library, using a 1.5 m/z precursor tolerance for average masses and a 1.25 m/z precursor tolerance for monoisotopic masses. each peptide […]


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Pepitome institution(s)
Department of Biomedical Informatics, Vanderbilt University Medical Center, Nashville, TN, USA

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