Proceedings of the EuBIC-MS developers meeting 2023

Pedro Beltrao; Tim Van Den Bossche; Ralf Gabriels; Tanja Holstein; Tobias Kockmann; Alireza Nameni; Christian Panse; Ralph Schlapbach; Ludwig Lautenbacher; Matthias Mattanovich; Alexey Nesvizhskii; Bart Van Puyvelde; Jonas Scheid; Veit Schwämmle; Maximilian Strauss; Anna Klimovskaia Susmelj; Matthew The; Henry Webel; Mathias Wilhelm; Dirk Winkelhardt; Witold E. Wolski; Muyao Xi

doi:10.1016/j.jprot.2024.105246

Proceedings of the EuBIC-MS developers meeting 2023

Pedro Beltrao
, Tim Van Den Bossche
, Ralf Gabriels
, Tanja Holstein
, Tobias Kockmann
, Alireza Nameni
, Christian Panse
, Ralph Schlapbach
, Ludwig Lautenbacher
, Matthias Mattanovich
, Alexey Nesvizhskii
, Bart Van Puyvelde
, Jonas Scheid
, Veit Schwämmle
, Maximilian Strauss
, Anna Klimovskaia Susmelj
, Matthew The
, Henry Webel
, Mathias Wilhelm
, Dirk Winkelhardt

Witold E. Wolski, Muyao Xi

Associate Professorship of Computational Mass Spectrometry

ETH Zürich
Ghent University
University of Zurich
Swiss Institute of Bioinformatics
Technical University of Munich
Novo Nordisk Foundation Center for Basic Metabolic Research
University of Michigan, Ann Arbor
Universitätsklinikum Tübingen
University of Tübingen
University of Southern Denmark
Novo Nordisk Foundation Center for Protein Research
Schlieren
Now AI Center ETH
Max-Planck-lnstitut für Kohlenforschung

Research output: Contribution to journal › Article › peer-review

2 Scopus citations

Abstract

The 2023 European Bioinformatics Community for Mass Spectrometry (EuBIC-MS) Developers Meeting was held from January 15th to January 20th, 2023, in Congressi Stefano Franscin at Monte Verità in Ticino, Switzerland. The participants were scientists and developers working in computational mass spectrometry (MS), metabolomics, and proteomics. The 5-day program was split between introductory keynote lectures and parallel hackathon sessions focusing on “Artificial Intelligence in proteomics” to stimulate future directions in the MS-driven omics areas. During the latter, the participants developed bioinformatics tools and resources addressing outstanding needs in the community. The hackathons allowed less experienced participants to learn from more advanced computational MS experts and actively contribute to highly relevant research projects. We successfully produced several new tools applicable to the proteomics community by improving data analysis and facilitating future research.

Original language	English
Article number	105246
Journal	Journal of Proteomics
Volume	305
DOIs	https://doi.org/10.1016/j.jprot.2024.105246
State	Published - 15 Aug 2024

Keywords

Artificial intelligence
Benchmark development
Bioinformatics
Computational mass spectrometry
Deep learning
Mass spectrometry
Metabolomics
Metaproteomics
Predicted spectra
Proteomics
Spectrum clustering
Visualization

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10.1016/j.jprot.2024.105246

Cite this

Beltrao, P., Van Den Bossche, T., Gabriels, R., Holstein, T., Kockmann, T., Nameni, A., Panse, C., Schlapbach, R., Lautenbacher, L., Mattanovich, M., Nesvizhskii, A., Van Puyvelde, B., Scheid, J., Schwämmle, V., Strauss, M., Susmelj, A. K., The, M., Webel, H., Wilhelm, M., ... Xi, M. (2024). Proceedings of the EuBIC-MS developers meeting 2023. Journal of Proteomics, 305, Article 105246. https://doi.org/10.1016/j.jprot.2024.105246

@article{dbff0dcd635e4299848f103ea4b3af9b,

title = "Proceedings of the EuBIC-MS developers meeting 2023",

abstract = "The 2023 European Bioinformatics Community for Mass Spectrometry (EuBIC-MS) Developers Meeting was held from January 15th to January 20th, 2023, in Congressi Stefano Franscin at Monte Verit{\`a} in Ticino, Switzerland. The participants were scientists and developers working in computational mass spectrometry (MS), metabolomics, and proteomics. The 5-day program was split between introductory keynote lectures and parallel hackathon sessions focusing on “Artificial Intelligence in proteomics” to stimulate future directions in the MS-driven omics areas. During the latter, the participants developed bioinformatics tools and resources addressing outstanding needs in the community. The hackathons allowed less experienced participants to learn from more advanced computational MS experts and actively contribute to highly relevant research projects. We successfully produced several new tools applicable to the proteomics community by improving data analysis and facilitating future research.",

keywords = "Artificial intelligence, Benchmark development, Bioinformatics, Computational mass spectrometry, Deep learning, Mass spectrometry, Metabolomics, Metaproteomics, Predicted spectra, Proteomics, Spectrum clustering, Visualization",

author = "Pedro Beltrao and \{Van Den Bossche\}, Tim and Ralf Gabriels and Tanja Holstein and Tobias Kockmann and Alireza Nameni and Christian Panse and Ralph Schlapbach and Ludwig Lautenbacher and Matthias Mattanovich and Alexey Nesvizhskii and \{Van Puyvelde\}, Bart and Jonas Scheid and Veit Schw{\"a}mmle and Maximilian Strauss and Susmelj, \{Anna Klimovskaia\} and Matthew The and Henry Webel and Mathias Wilhelm and Dirk Winkelhardt and Wolski, \{Witold E.\} and Muyao Xi",

note = "Publisher Copyright: {\textcopyright} 2024 The Authors",

year = "2024",

month = aug,

day = "15",

doi = "10.1016/j.jprot.2024.105246",

language = "English",

volume = "305",

journal = "Journal of Proteomics",

issn = "1874-3919",

publisher = "Elsevier B.V.",

}

Beltrao, P, Van Den Bossche, T, Gabriels, R, Holstein, T, Kockmann, T, Nameni, A, Panse, C, Schlapbach, R, Lautenbacher, L, Mattanovich, M, Nesvizhskii, A, Van Puyvelde, B, Scheid, J, Schwämmle, V, Strauss, M, Susmelj, AK, The, M, Webel, H, Wilhelm, M, Winkelhardt, D, Wolski, WE & Xi, M 2024, 'Proceedings of the EuBIC-MS developers meeting 2023', Journal of Proteomics, vol. 305, 105246. https://doi.org/10.1016/j.jprot.2024.105246

TY - JOUR

T1 - Proceedings of the EuBIC-MS developers meeting 2023

AU - Beltrao, Pedro

AU - Van Den Bossche, Tim

AU - Gabriels, Ralf

AU - Holstein, Tanja

AU - Kockmann, Tobias

AU - Nameni, Alireza

AU - Panse, Christian

AU - Schlapbach, Ralph

AU - Lautenbacher, Ludwig

AU - Mattanovich, Matthias

AU - Nesvizhskii, Alexey

AU - Van Puyvelde, Bart

AU - Scheid, Jonas

AU - Schwämmle, Veit

AU - Strauss, Maximilian

AU - Susmelj, Anna Klimovskaia

AU - The, Matthew

AU - Webel, Henry

AU - Wilhelm, Mathias

AU - Winkelhardt, Dirk

AU - Wolski, Witold E.

AU - Xi, Muyao

PY - 2024/8/15

Y1 - 2024/8/15

N2 - The 2023 European Bioinformatics Community for Mass Spectrometry (EuBIC-MS) Developers Meeting was held from January 15th to January 20th, 2023, in Congressi Stefano Franscin at Monte Verità in Ticino, Switzerland. The participants were scientists and developers working in computational mass spectrometry (MS), metabolomics, and proteomics. The 5-day program was split between introductory keynote lectures and parallel hackathon sessions focusing on “Artificial Intelligence in proteomics” to stimulate future directions in the MS-driven omics areas. During the latter, the participants developed bioinformatics tools and resources addressing outstanding needs in the community. The hackathons allowed less experienced participants to learn from more advanced computational MS experts and actively contribute to highly relevant research projects. We successfully produced several new tools applicable to the proteomics community by improving data analysis and facilitating future research.

AB - The 2023 European Bioinformatics Community for Mass Spectrometry (EuBIC-MS) Developers Meeting was held from January 15th to January 20th, 2023, in Congressi Stefano Franscin at Monte Verità in Ticino, Switzerland. The participants were scientists and developers working in computational mass spectrometry (MS), metabolomics, and proteomics. The 5-day program was split between introductory keynote lectures and parallel hackathon sessions focusing on “Artificial Intelligence in proteomics” to stimulate future directions in the MS-driven omics areas. During the latter, the participants developed bioinformatics tools and resources addressing outstanding needs in the community. The hackathons allowed less experienced participants to learn from more advanced computational MS experts and actively contribute to highly relevant research projects. We successfully produced several new tools applicable to the proteomics community by improving data analysis and facilitating future research.

KW - Artificial intelligence

KW - Benchmark development

KW - Bioinformatics

KW - Computational mass spectrometry

KW - Deep learning

KW - Mass spectrometry

KW - Metabolomics

KW - Metaproteomics

KW - Predicted spectra

KW - Proteomics

KW - Spectrum clustering

KW - Visualization

UR - https://www.scopus.com/pages/publications/85197217573

U2 - 10.1016/j.jprot.2024.105246

DO - 10.1016/j.jprot.2024.105246

M3 - Article

AN - SCOPUS:85197217573

SN - 1874-3919

VL - 305

JO - Journal of Proteomics

JF - Journal of Proteomics

M1 - 105246

ER -

Proceedings of the EuBIC-MS developers meeting 2023

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Keywords

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