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Tim Van Den Bossche - Publications

Affiliations: 
Ghent University, Ghent, Vlaanderen, Belgium 
Area:
metaproteomics
Website:
https://telefoonboek.ugent.be/en/people/802000971551
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19 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Sakarika M, Kerckhof FM, Van Peteghem L, Pereira A, Van Den Bossche T, Bouwmeester R, Gabriels R, Van Haver D, Ulčar B, Martens L, Impens F, Boon N, Ganigué R, Rabaey K. The nutritional composition and cell size of microbial biomass for food applications are defined by the growth conditions. Microbial Cell Factories. 22: 254. PMID 38072930 DOI: 10.1186/s12934-023-02265-1  0.696
2023 Claeys T, Van Den Bossche T, Perez-Riverol Y, Gevaert K, Vizcaíno JA, Martens L. lesSDRF is more: maximizing the value of proteomics data through streamlined metadata annotation. Nature Communications. 14: 6743. PMID 37875519 DOI: 10.1038/s41467-023-42543-5  0.552
2023 Verschaffelt P, Tanca A, Abbondio M, Van Den Bossche T, Moortele TV, Dawyndt P, Martens L, Mesuere B. Unipept Desktop 2.0: Construction of Targeted Reference Protein Databases for Metaproteogenomics Analyses. Journal of Proteome Research. PMID 37459443 DOI: 10.1021/acs.jproteome.3c00091  0.594
2022 Shiferaw GA, Gabriels R, Bouwmeester R, Van Den Bossche T, Vandermarliere E, Martens L, Volders PJ. Sensitive and Specific Spectral Library Searching with CompOmics Spectral Library Searching Tool and Percolator. Journal of Proteome Research. 21: 1365-1370. PMID 35446579 DOI: 10.1021/acs.jproteome.2c00075  0.591
2022 LeDuc RD, Deutsch EW, Binz PA, Fellers RT, Cesnik AJ, Klein JA, Van Den Bossche T, Gabriels R, Yalavarthi A, Perez-Riverol Y, Carver J, Bittremieux W, Kawano S, Pullman B, Bandeira N, et al. Proteomics Standards Initiative's ProForma 2.0: Unifying the Encoding of Proteoforms and Peptidoforms. Journal of Proteome Research. PMID 35290070 DOI: 10.1021/acs.jproteome.1c00771  0.342
2022 Schallert K, Verschaffelt P, Mesuere B, Benndorf D, Martens L, Van Den Bossche T. : An Efficient Tool to Create Protein (Sub)groups from Percolator Output Files. Journal of Proteome Research. 21: 1175-1180. PMID 35143215 DOI: 10.1021/acs.jproteome.1c00685  0.536
2021 Van Den Bossche T, Arntzen MØ, Becher D, Benndorf D, Eijsink VGH, Henry C, Jagtap PD, Jehmlich N, Juste C, Kunath BJ, Mesuere B, Muth T, Pope PB, Seifert J, Tanca A, et al. The Metaproteomics Initiative: a coordinated approach for propelling the functional characterization of microbiomes. Microbiome. 9: 243. PMID 34930457 DOI: 10.1186/s40168-021-01176-w  0.662
2021 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, et al. Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows. Nature Communications. 12: 7305. PMID 34911965 DOI: 10.1038/s41467-021-27542-8  0.729
2021 Dai C, Füllgrabe A, Pfeuffer J, Solovyeva EM, Deng J, Moreno P, Kamatchinathan S, Kundu DJ, George N, Fexova S, Grüning B, Föll MC, Griss J, Vaudel M, Audain E, ... ... Van Den Bossche T, et al. A proteomics sample metadata representation for multiomics integration and big data analysis. Nature Communications. 12: 5854. PMID 34615866 DOI: 10.1038/s41467-021-26111-3  0.644
2021 Van Puyvelde B, Van Uytfanghe K, Tytgat O, Van Oudenhove L, Gabriels R, Bouwmeester R, Daled S, Van Den Bossche T, Ramasamy P, Verhelst S, De Clerck L, Corveleyn L, Willems S, Debunne N, Wynendaele E, et al. Cov-MS: A Community-Based Template Assay for Mass-Spectrometry-Based Protein Detection in SARS-CoV-2 Patients. Jacs Au. 1: 750-765. PMID 34254058 DOI: 10.1021/jacsau.1c00048  0.641
2021 Bittremieux W, Bouyssié D, Dorfer V, Locard-Paulet M, Perez-Riverol Y, Schwämmle V, Uszkoreit J, Van Den Bossche T. The European Bioinformatics Community for Mass Spectrometry (EuBIC-MS): an open community for bioinformatics training and research. Rapid Communications in Mass Spectrometry : Rcm. e9087. PMID 33861485 DOI: 10.1002/rcm.9087  0.309
2021 Verschaffelt P, Van Den Bossche T, Gabriel W, Burdukiewicz M, Soggiu A, Martens L, Renard BY, Schiebenhoefer H, Mesuere B. MegaGO: A Fast Yet Powerful Approach to Assess Functional Gene Ontology Similarity across Meta-Omics Data Sets. Journal of Proteome Research. PMID 33661648 DOI: 10.1021/acs.jproteome.0c00926  0.564
2021 Verschaffelt P, Van Den Bossche T, Martens L, Dawyndt P, Mesuere B. Unipept Desktop: A Faster, More Powerful Metaproteomics Results Analysis Tool. Journal of Proteome Research. PMID 33401902 DOI: 10.1021/acs.jproteome.0c00855  0.588
2020 Muñoz-Benavent M, Hartkopf F, Van Den Bossche T, Piro VC, García-Ferris C, Latorre A, Renard BY, Muth T. Erratum: gNOMO: a multi-omics pipeline for integrated host and microbiome analysis of non-model organisms. Nar Genomics and Bioinformatics. 2: lqaa083. PMID 33577626 DOI: 10.1093/nargab/lqaa083  0.633
2020 Muñoz-Benavent M, Hartkopf F, Van Den Bossche T, Piro VC, García-Ferris C, Latorre A, Renard BY, Muth T. gNOMO: a multi-omics pipeline for integrated host and microbiome analysis of non-model organisms. Nar Genomics and Bioinformatics. 2: lqaa058. PMID 33575609 DOI: 10.1093/nargab/lqaa058  0.691
2020 Verschaffelt P, Van Thienen P, Van Den Bossche T, Van der Jeugt F, De Tender C, Martens L, Dawyndt P, Mesuere B. Unipept CLI 2.0: adding support for visualisations and functional annotations. Bioinformatics (Oxford, England). PMID 32492134 DOI: 10.1093/Bioinformatics/Btaa553  0.587
2020 Van Den Bossche T, Verschaffelt P, Schallert K, Barsnes H, Dawyndt P, Benndorf D, Renard BY, Mesuere B, Martens L, Muth T. Connecting MetaProteomeAnalyzer and PeptideShaker to Unipept for seamless end-to-end metaproteomics data analysis. Journal of Proteome Research. PMID 32431147 DOI: 10.1021/Acs.Jproteome.0C00136  0.761
2019 Binz PA, Shofstahl J, Vizcaíno JA, Barsnes H, Chalkley RJ, Menschaert G, Alpi E, Clauser K, Eng JK, Lane L, Seymour SL, Sánchez LFH, Mayer G, Eisenacher M, Perez-Riverol Y, ... ... Van Den Bossche T, et al. Proteomics Standards Initiative Extended FASTA Format (PEFF). Journal of Proteome Research. PMID 31081335 DOI: 10.1021/Acs.Jproteome.9B00064  0.686
2019 Schiebenhoefer H, Van Den Bossche T, Fuchs S, Renard BY, Muth T, Martens L. Challenges and promise at the interface of metaproteomics and genomics: an overview of recent progress in metaproteogenomic data analysis. Expert Review of Proteomics. PMID 31002542 DOI: 10.1080/14789450.2019.1609944  0.762
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