PepSearch statistics

Tool stats & trends

Looking to identify usage trends or leading experts?

PepSearch specifications


Unique identifier OMICS_15787
Name PepSearch
Restrictions to use None
Community driven No
Data access Browse
User data submission Not allowed
Maintained No


This tool is not available anymore.

Publication for PepSearch

PepSearch citations


Dynamic remodeling of lipids coincides with dengue virus replication in the midgut of Aedes aegypti mosquitoes

PLoS Pathog
PMCID: 5814098
PMID: 29447265
DOI: 10.1371/journal.ppat.1006853

[…] urther classified into metabolic classes. Features with MS/MS data were further validated by searching against the NIST MS/MS (2014) (Agilent Technologies) and LipidBlast (2012) [] libraries using MS PepSearch (2013) [] and manually inspected using NIST MS Search (v2.0) []. […]


Comprehensive comparison of in silico MS/MS fragmentation tools of the CASMI contest: database boosting is needed to achieve 93% accuracy

J Cheminform
PMCID: 5445034
DOI: 10.1186/s13321-017-0219-x

[…] tal spectrum and library spectra might be due to differences in MS/MS parameters. Hence, candidate structures were boosted by mass spectral similarity matching against MS/MS libraries []. The NIST MS PepSearch program is a batch command-line version of the NIST MS search GUI program. Originally aimed at peptide scoring, this software can also be used for small molecule MS/MS similarity. Using.msp […]


An in silico MS/MS library for automatic annotation of novel FAHFA lipids

J Cheminform
PMCID: 4646931
PMID: 26579213
DOI: 10.1186/s13321-015-0104-4

[…] omatically annotate FAHFAs in LC–MS/MS lipidomics profiling and can be therefore applied to further studies of this novel lipid class. The batch annotation process is very easy and fast using NIST MS PepSearch. We also provided the Excel template for users to adapt this library to their own instrument features and parameters and export customized libraries. The developed library and templates are […]


Calibrating E values for MS2 database search methods

Biol Direct
PMCID: 2206012
PMID: 17983478
DOI: 10.1186/1745-6150-2-26

[…] another []. Other methods – using correlation, posterior probabilities, score, or Z-score – include, but are not limited to, SEQUEST [], MS-Tag [], Scope [], CIDentify [], Popitam [], ProbID [], and PepSearch []. It is even harder to translate the statistical significance from any of these methods into other methods.Although evaluations of various search engines have been documented in terms of t […]


Looking to check out a full list of citations?

PepSearch funding source(s)
This work was supported by the grants from the National High Technology Research and Development Program of China (863 Program) (No. 2002AA234021), Knowledge Innovation Program of the Chinese Academy of Sciences (No. KJCX1-08), Shanghai Science and Technology Commission (No. 00JC14018), and the Major Program of the National Natural Science Foundation of China (No. 39990600-03).

PepSearch reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review PepSearch