Connecting MetaProteomeAnalyzer and PeptideShaker to Unipept for Seamless End-to-End Metaproteomics Data Analysis | Zendy

Tim Van Den Bossche | Zendy; Pieter Verschaffelt | Zendy; Kay Schallert | Zendy; Harald Barsnes | Zendy; Peter Dawyndt | Zendy; Dirk Benndorf | Zendy; Bernhard Y. Renard | Zendy; Bart Mesuere | Zendy; Lennart Martens | Zendy; Thilo Muth | Zendy

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Connecting MetaProteomeAnalyzer and PeptideShaker to Unipept for Seamless End-to-End Metaproteomics Data Analysis

Author(s) -

Tim Van Den Bossche,

Pieter Verschaffelt,

Kay Schallert,

Harald Barsnes,

Peter Dawyndt,

Dirk Benndorf,

Bernhard Y. Renard,

Bart Mesuere,

Lennart Martens,

Thilo Muth

Publication year - 2020

Publication title -

journal of proteome research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 1.644

H-Index - 161

eISSN - 1535-3907

pISSN - 1535-3893

DOI - 10.1021/acs.jproteome.0c00136

Subject(s) - metaproteomics , end to end principle , computer science , field (mathematics) , pigging , end user , pipeline transport , database , data mining , data science , pipeline (software) , metagenomics , engineering , world wide web , biology , artificial intelligence , biochemistry , gene , mathematics , environmental engineering , pure mathematics , programming language

Although metaproteomics, the study of the collective proteome of microbial communities, has become increasingly powerful and popular over the past few years, the field has lagged behind on the availability of user-friendly, end-to-end pipelines for data analysis. We therefore describe the connection from two commonly used metaproteomics data processing tools in the field, MetaProteomeAnalyzer and PeptideShaker, to Unipept for downstream analysis. Through these connections, direct end-to-end pipelines are built from database searching to taxonomic and functional annotation.

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