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MultiProtIdent: identifying proteins using database search and protein-protein interactions.

Hsien-Da Huang·Tzong-Yi Lee·Li-Cheng Wu·Feng-Mao Lin·Hsueh-Fen Juan·Jorng-Tzong Horng·Ann-Ping Tsou
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Abstract

Protein identification is important in proteomics. Proteomic analyses based on mass spectra (MS) constitute innovative ways to identify the components of protein complexes. Instruments can obtain the mass spectrum to an accuracy of 0.01 Da or better, but identification errors are inevitable. This study shows a novel tool, MultiProtIdent, which can identify proteins using additional information about protein-protein interactions and protein functional associations. Both single and multiple Peptide Mass Fingerprints (PMFs) are input to MultiProtIdent, which matches the PMFs to a theoretical peptide mass database. The relationships or interactions among proteins are considered to reduce false positives in PMF matching. Experiments to identify protein complexes reveal that MultiProtIdent is highly promising. The website associated with this study is http://dbms104.csie.ncu.edu.tw/.

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AlgorithmsDatabases, FactualMass SpectrometryMultiprotein ComplexesPeptide FragmentsProtein Interaction MappingProteinsProteomicsJournal Article

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Hsien-Da Huang, Tzong-Yi Lee, Li-Cheng Wu, Feng-Mao Lin, Hsueh-Fen Juan, Jorng-Tzong Horng, Ann-Ping Tsou. MultiProtIdent: identifying proteins using database search and protein-protein interactions.. https://doi.org/10.1021/pr0498335

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