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Heumos, L. ; Schaar, A. ; Lance, C. ; Litinetskaya, A. ; Drost, F. ; Zappia, L. ; Luecken, M. ; Strobl, D.C. ; Henao, J. ; Curion, F. ; Schiller, H. ; Theis, F.J.

Best practices for single-cell analysis across modalities.

Nat. Rev. Genet. 24, 550-572 (2023)
Verlagsversion DOI PMC
Open Access Green möglich sobald Postprint bei der ZB eingereicht worden ist.
Recent advances in single-cell technologies have enabled high-throughput molecular profiling of cells across modalities and locations. Single-cell transcriptomics data can now be complemented by chromatin accessibility, surface protein expression, adaptive immune receptor repertoire profiling and spatial information. The increasing availability of single-cell data across modalities has motivated the development of novel computational methods to help analysts derive biological insights. As the field grows, it becomes increasingly difficult to navigate the vast landscape of tools and analysis steps. Here, we summarize independent benchmarking studies of unimodal and multimodal single-cell analysis across modalities to suggest comprehensive best-practice workflows for the most common analysis steps. Where independent benchmarks are not available, we review and contrast popular methods. Our article serves as an entry point for novices in the field of single-cell (multi-)omic analysis and guides advanced users to the most recent best practices.
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Publikationstyp Artikel: Journalartikel
Dokumenttyp Wissenschaftlicher Artikel
Korrespondenzautor
Schlagwörter Genome-wide Expression; Chromatin Accessibility; Transcriptomic Data; Receptor Sequences; Gene-expression; Seq; Reconstruction; Database; Epitope; Tissue
ISSN (print) / ISBN 1471-0056
e-ISSN 1471-0064
Zeitschrift Nature Reviews - Genetics
Quellenangaben Band: 24, Heft: 8, Seiten: 550-572 Artikelnummer: , Supplement: ,
Verlag Nature Publishing Group
Verlagsort Heidelberger Platz 3, Berlin, 14197, Germany
Nichtpatentliteratur Publikationen
Begutachtungsstatus Peer reviewed
Institut(e) Institute of Computational Biology (ICB)
Lung Health and Immunity (LHI)
Förderungen Wellcome Trust