Heidelberg University, Faculty of Medicine and Heidelberg University Hospital, Institute for Computational Biomedicine, Heidelberg, Germany
Sebastian Lobentanzer, Aurelien Dugourd, Valeriia Dragan, Nils Krehl & Julio Saez-Rodriguez
Open Targets, European Molecular Biology Laboratory-European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, UK
Sebastian Lobentanzer & Ellen M. McDonagh
Department of Biomedical Informatics, The Ohio State University, Columbus, OH, USA
Shaohong Feng, Megan McNutt, Cankun Wang & Qin Ma
Michael Sars Centre, University of Bergen, Bergen, Norway
Noah Bruderer & Lionel Christiaen
Institute for Computational Systems Biology, University of Hamburg, Hamburg, Germany
Andreas Maier, Fernando M. Delgado-Chaves & Jan Baumbach
Computational Biomedicine Lab, Department of Mathematics and Computer Science, University of Southern Denmark, Odense, Denmark
Jan Baumbach
EMBO, Heidelberg, Germany
Hannah Sonntag, Jorge Abreu-Vicente & Thomas Lemberger
European Molecular Biology Laboratory-European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, UK
Melissa Harrison, Yuyao Song & Julio Saez-Rodriguez
Interuniversity Institute of Bioinformatics in Brussels, Brussels, Belgium
Adrián G. Díaz
Structural Biology Brussels, Vrije Universiteit Brussels, Brussels, Belgium
Adrián G. Díaz
The Francis Crick Institute, London, UK
Amy Strange
Laboratory of Multi-Omic Integrative Bioinformatics, Center for Human Genetics, Faculty of Medicine, Katholieke Universiteit Leuven, Leuven, Belgium
Anis Ismail
Institute for Biostatistics and Informatics in Medicine and Ageing Research, University of Rostock, Rostock, Germany
Anton Kulaga
Chemical Biology Services, European Molecular Biology Laboratory-European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, UK
Barbara Zdrazil
Laboratory of Probability, Statistics, and Modelling, Sorbonne University, Paris, France
Bastien Chassagnol
Université Paris-Saclay, INRAE, BioinfOmics, Plant Bioinformatics Facility, Versailles, France
Cyril Pommier
Université Paris-Saclay, INRAE, URGI, Versailles, France
Cyril Pommier
Institute of Translational Cancer Research and Experimental Cancer Therapy, Technical University of Munich, Munich, Germany
Daniele Lucarelli
Department of Computational Health, Institute of Computational Biology, Helmholtz, Munich, Germany
Daniele Lucarelli
Interuniversity Institute of Bioinformatics in Brussels, Université Libre de Bruxelles-Vrije Universiteit Brussel, Brussels, Belgium
Emma Verkinderen
Institute for Biostatistics and Informatics in Medicine and Ageing Research (IBIMA), Rostock University Medical Center, Rostock, Germany
Georg Fuellen
Institute of Medical Biometry and Statistics, Faculty of Medicine and Medical Center – University of Freiburg, Freiburg, Germany
Jonatan Menger
Core for Computational Biomedicine, Department of Biomedical Informatics, Harvard Medical School, Boston, MA, USA
Ludwig Geistlinger
Heilbronn University of Applied Sciences, Heilbronn, Germany
Luna Zacharias Zetsche, Marlis Engelke & Patrick Baracho
GECKO Institute, Heilbronn University of Applied Sciences, Heilbronn, Germany
Melissa Hizli & Yasmin Nielsen-Tehranchian
HEAlthy Life Extension Society (HEALES), Brussels, Belgium
Nikolai Usanov
Institute of Bio- and Geosciences (IBG-4: Bioinformatics), Bioeconomy Science Center (BioSC), CEPLAS, Forschungszentrum Jülich, Jülich, Germany
Sebastian Beier & Xiao-Ran Zhou
Bioinformatics and Biostatistics Science Technology Platform and Software Engineering and AI Science Technology Platform, The Francis Crick Institute, London, UK
Stefan Boeing
Research Program in Systems Oncology, Research Programs Unit, Faculty of Medicine, University of Helsinki, Helsinki, Finland
Taru A. Muranen
Bristol Myers Squibb, Cambridge, MA, USA
Trang T. Le
Authors between consortium and last author are ordered alphabetically by first name. S.L. conceptualized and developed the platform, coordinated the consortium, and wrote the manuscript. S.F. implemented BioChatter functionality and developed both frontend and backend components for the BioChatter Next server. N.B. developed the API calling module with S.F. and S.L. A.M. implemented the local deployment functionality. The BioChatter consortium members contributed to the development of the platform and provided feedback on the manuscript. C.W. architected the BioChatter Next server infrastructure. J.B. provided guidance and supervision as well as hardware resources for local LLM use and contributed to performance benchmarking. J.A.-V. developed text extraction benchmarking procedures. N.K. implemented benchmarking procedures. Q.M. oversaw the development and deployment of the BioChatter Next server environment. T.L. oversaw the text extraction work and acquired funding. J.S.-R. supervised the project, revised the manuscript, and acquired funding. All authors read and approved the final manuscript.
