PhoPepMass Edit

Citations: 0

z-index: 0

Basic information
Short name PhoPepMass
Full name
Description A database and search tool assisting human phosphorylation peptide identification from mass spectrometry data.
Year founded
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Accessibility Accessible
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The contact information is provided to facilitate update of database information, and it is curated based on the contact details in the database or the related publications. To ensure effective contact with database constructors, we give priority to the contact details in the database.

University/Institution Shanghai Center for Bioinformation Technology
Country/Region China
Contact name (PI/Team) Lu Xie
Contact email (PI/Helpdesk)
Data information
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  • PhoPepMass: A database and search tool assisting human phosphorylation peptide identification from mass spectrometry data. [PMID: 30055873]
    Menghuan Zhang, Hui Cui, Lanming Chen, Ying Yu, Michael O Glocker, Lu Xie

    Protein phosphorylation, one of the most important protein post-translational modifications, is involved in various biological processes, and the identification of phosphorylation peptides (phosphopeptides) and their corresponding phosphorylation sites (phosphosites) will facilitate the understanding of the molecular mechanism and function of phosphorylation. Mass spectrometry (MS) provides a high-throughput technology that enables the identification of large numbers of phosphosites. PhoPepMass is designed to assist human phosphopeptide identification from MS data based on a specific database of phophopeptide masses and a multivariate hypergeometric matching algorithm. It contains 244,915 phosphosites from several public sources. Moreover, the accurate masses of peptides and fragments with phosphosites were calculated. It is the first database that provides a systematic resource for the query of phosphosites on peptides and their corresponding masses. This allows researchers to search certain proteins of which phosphosites have been reported, to browse detailed phosphopeptide and fragment information, to match masses from MS analyses with defined threshold to the corresponding phosphopeptide, and to compare proprietary phosphopeptide discovery results with results from previous studies. Additionally, a database search software is created and a "two-stage search strategy" is suggested to identify phosphopeptides from tandem mass spectra of proteomics data. We expect PhoPepMass to be a useful tool and a source of reference for proteomics researchers. PhoPepMass is available at

    J Genet Genomics 2018:45(7)

    0 Citations (from Europe PMC, 2019-07-27)


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Record metadata

  • Created on: 2019-01-04
    • ***ina@*** [2019-01-23]
    • ***d@*** [2019-01-12]
    • ***d@*** [2019-01-12]
    • ***d@*** [2019-01-04]

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