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Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows.
Van Den Bossche T, Kunath BJ, Schallert K, Schäpe SS, Abraham PE, Armengaud J, Arntzen MØ, Bassignani A, Benndorf D, Fuchs S, Giannone RJ, Griffin TJ, Hagen LH, Halder R, Henry C, Hettich RL, Heyer R, Jagtap P, Jehmlich N, Jensen M, Juste C, Kleiner M, Langella O, Lehmann T, Leith E, May P, Mesuere B, Miotello G, Peters SL, Pible O, Queiros PT, Reichl U, Renard BY, Schiebenhoefer H, Sczyrba A, Tanca A, Trappe K, Trezzi JP, Uzzau S, Verschaffelt P, von Bergen M, Wilmes P, Wolf M, Martens L, Muth T. Van Den Bossche T, et al. Among authors: mesuere b. Nat Commun. 2021 Dec 15;12(1):7305. doi: 10.1038/s41467-021-27542-8. Nat Commun. 2021. PMID: 34911965 Free PMC article.
Unipept 4.0: Functional Analysis of Metaproteome Data.
Gurdeep Singh R, Tanca A, Palomba A, Van der Jeugt F, Verschaffelt P, Uzzau S, Martens L, Dawyndt P, Mesuere B. Gurdeep Singh R, et al. Among authors: mesuere b. J Proteome Res. 2019 Feb 1;18(2):606-615. doi: 10.1021/acs.jproteome.8b00716. Epub 2018 Dec 4. J Proteome Res. 2019. PMID: 30465426
metaQuantome: An Integrated, Quantitative Metaproteomics Approach Reveals Connections Between Taxonomy and Protein Function in Complex Microbiomes.
Easterly CW, Sajulga R, Mehta S, Johnson J, Kumar P, Hubler S, Mesuere B, Rudney J, Griffin TJ, Jagtap PD. Easterly CW, et al. Among authors: mesuere b. Mol Cell Proteomics. 2019 Aug 9;18(8 suppl 1):S82-S91. doi: 10.1074/mcp.RA118.001240. Epub 2019 Jun 24. Mol Cell Proteomics. 2019. PMID: 31235611 Free PMC article.
Unipept CLI 2.0: adding support for visualizations and functional annotations.
Verschaffelt P, Van Thienen P, Van Den Bossche T, Van der Jeugt F, De Tender C, Martens L, Dawyndt P, Mesuere B. Verschaffelt P, et al. Among authors: mesuere b. Bioinformatics. 2020 Aug 15;36(14):4220-4221. doi: 10.1093/bioinformatics/btaa553. Bioinformatics. 2020. PMID: 32492134
Survey of metaproteomics software tools for functional microbiome analysis.
Sajulga R, Easterly C, Riffle M, Mesuere B, Muth T, Mehta S, Kumar P, Johnson J, Gruening BA, Schiebenhoefer H, Kolmeder CA, Fuchs S, Nunn BL, Rudney J, Griffin TJ, Jagtap PD. Sajulga R, et al. Among authors: mesuere b. PLoS One. 2020 Nov 10;15(11):e0241503. doi: 10.1371/journal.pone.0241503. eCollection 2020. PLoS One. 2020. PMID: 33170893 Free PMC article.
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