Identification of proteins from proteomic analysis

    Research output: Chapter in Book/Report/Conference proceedingEntry for encyclopedia/dictionary/reference book

    1 Citation (Scopus)


    Mass spectrometry based identification of proteins is one of the foundations of proteomics. In recent decades, this post-genomic discipline has been widely used in all fields in biology from biomarker discovery in human diseases to markers of freshness in fruit. In this chapter, we present the basic mechanism of data acquisition through a mass spectrometer, and extraction and analysis of protein identities using readily available, web based bioinformatics and computational tools. A sample yeast dataset is used to illustrate the process of protein identification based on the Trans-Proteomic pipeline, as well as other web tools. To increase the confidence in protein identity, communally accepted metrics are also suggested.
    Original languageEnglish
    Title of host publicationEncyclopedia of bioinformatics and computational biology
    Subtitle of host publicationABC of Bioinformatics
    EditorsMario Cannataro, Bruno Gaeta, Mohammad Asif Khan
    Place of PublicationAmsterdam; Oxford; Cambridge
    Number of pages16
    ISBN (Electronic)9780128114322
    ISBN (Print)9780128114148
    Publication statusPublished - 2019

    Bibliographical note

    Editors-in-chief: Shoba Ranganathan, Kenta Nakai, Christian Schönbach, Michael Gribskov.


    • Bioinformatics
    • Proteomics data analysis
    • Protein identification
    • Tandem mass spectrometry
    • Databases
    • Trans-Proteomic pipeline
    • Data processing
    • Shotgun proteomics
    • Protein annotation
    • Web resources


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