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Best practices for single-cell analysis across modalities

Autor: Heumos, Lukas, Schaar, Anna C., Lance, Christopher, Litinetskaya, Anastasia, Drost, Felix, Zappia, Luke, Lücken, Malte D., Strobl, Daniel C., Henao, Juan, Curion, Fabiola, Schiller, Herbert B., Theis, Fabian J.

Publikováno v: Nature Reviews Genetics; August 2023, Vol. 24 Issue: 8 p550-572, 23p

Defining and benchmarking open problems in single-cell analysis.

Autor: Luecken MD; Institute of computational Biology, Helmholtz Munich, Neuherberg, Germany.; Institute of Lung Health & Immunity, Helmholtz Munich; Member of the German Center for Lung Research (DZL), Munich, Germany., Gigante S; Immunai, New York, USA., Burkhardt DB; Cellarity, Inc. Somerville, USA., Cannoodt R; Data Intuitive, Lebbeke, Belgium.; Data Mining and Modelling for Biomedicine group, VIB Center for Inflammation Research, Ghent, Belgium.; Department of Applied Mathematics, Computer Science, and Statistics, Ghent University, Ghent, Belgium., Strobl DC; Institute of computational Biology, Helmholtz Munich, Neuherberg, Germany.; Institute of Clinical Chemistry and Pathobiochemistry, School of Medicine, Technical University of Munich, Munich, Germany.; TUM School of Life Sciences Weihenstephan, Technical University of Munich, Germany., Markov NS; Division of Pulmonary and Critical Care Medicine, Feinberg School of Medicine, Northwestern University., Zappia L; Institute of computational Biology, Helmholtz Munich, Neuherberg, Germany.; Department of Mathematics, School of Computing, Information and Technology, Technical University of Munich, Munich, Germany., Palla G; Institute of computational Biology, Helmholtz Munich, Neuherberg, Germany.; TUM School of Life Sciences Weihenstephan, Technical University of Munich, Germany., Lewis W; Interdepartmental Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT 06511, USA., Dimitrov D; Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine, Heidelberg, Germany., Vinyard ME; Department of Chemistry and Chemical Biology, Harvard University, Cambridge, MA, USA.; Broad Institute of Harvard and MIT, Cambridge, MA, USA.; Molecular Pathology Unit, Center for Cancer Research, Massachusetts General Hospital, Boston, MA, USA., Magruder DS; Department of Computer Science, Yale University, New Haven CT, USA., Andersson A; Genentech Inc.; Royal Institute of Technology (KTH), Gene Technology.; Science for Life Laboratory (SciLifeLab)., Dann E; Wellcome Sanger Institute, Wellcome Genome Campus, Cambridge, UK., Qin Q; Broad Institute of Harvard and MIT, Cambridge, MA, USA., Otto DJ; Basic Sciences Division, Fred Hutchinson Cancer Center, Seattle WA.; Computational Biology Program, Public Health Sciences Division, Seattle WA.; Translational Data Science IRC, Fred Hutchinson Cancer Center, Seattle WA., Klein M; Apple., Botvinnik OB; Data Sciences Platform, Chan Zuckerberg Biohub, 499 Illinois St, San Francisco, CA 94158.; Bridge Bio Pharma, 3160 Porter Drive, Suite 250, Palo Alto, CA, 94304., Deconinck L; Data Mining and Modelling for Biomedicine group, VIB Center for Inflammation Research, Ghent, Belgium.; Department of Applied Mathematics, Computer Science, and Statistics, Ghent University, Ghent, Belgium., Waldrant K; Data Intuitive, Lebbeke, Belgium., Bloom JM; Massachusetts Institute of Technology., Pisco AO; Data Sciences Platform, Chan Zuckerberg Biohub, 499 Illinois St, San Francisco, CA 94158.; Insitro, South San Francisco., Saez-Rodriguez J; Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine, Heidelberg, Germany., Wulsin D; Immunai, New York, USA., Pinello L; Molecular Pathology Unit, Center for Cancer Research, Massachusetts General Hospital, Boston, MA, USA., Saeys Y; Data Mining and Modelling for Biomedicine group, VIB Center for Inflammation Research, Ghent, Belgium.; Department of Applied Mathematics, Computer Science, and Statistics, Ghent University, Ghent, Belgium.; VIB Center for AI & Computational Biology (VIB.AI), Gent, Belgium., Theis FJ; Institute of computational Biology, Helmholtz Munich, Neuherberg, Germany.; Department of Mathematics, School of Computing, Information and Technology, Technical University of Munich, Munich, Germany.; Cellular Genetics Programme, Wellcome Sanger Institute, Hinxton, UK (associated faculty)., Krishnaswamy S; Interdepartmental Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT 06511, USA.; Department of Computer Science, Yale University, New Haven CT, USA.; Department of Genetics, Yale University, New Haven CT, USA.

Publikováno v: Research square [Res Sq] 2024 Apr 04. Date of Electronic Publication: 2024 Apr 04.