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Gillespie M, Jassal B, Stephan R, et al. The reactome pathway knowledgebase 2022. Nucleic Acids Res. 2022;50:D687-D692doi: 10.1093/nar/gkab1028.
Gillespie, M., Jassal, B., Stephan, R., Milacic, M., Rothfels, K., Senff-Ribeiro, A., Griss, J., Sevilla, C., Matthews, L., Gong, C., Deng, C., Varusai, T., Ragueneau, E., Haider, Y., May, B., Shamovsky, V., Weiser, J., Brunson, T., Sanati, N., Beckman, L., Shao, X., Fabregat, A., Sidiropoulos, K., Murillo, J., Viteri, G., Cook, J., Shorser, S., Bader, G., Demir, E., Sander, C., Haw, R., Wu, G., Stein, L., Hermjakob, H., & D'Eustachio, P. (2022). The reactome pathway knowledgebase 2022. Nucleic acids research, 50D687-D692. https://doi.org/10.1093/nar/gkab1028
Gillespie, Marc, et al. "The reactome pathway knowledgebase 2022." Nucleic acids research vol. 50 (2022): D687-D692. doi: https://doi.org/10.1093/nar/gkab1028
Gillespie M, Jassal B, Stephan R, Milacic M, Rothfels K, Senff-Ribeiro A, Griss J, Sevilla C, Matthews L, Gong C, Deng C, Varusai T, Ragueneau E, Haider Y, May B, Shamovsky V, Weiser J, Brunson T, Sanati N, Beckman L, Shao X, Fabregat A, Sidiropoulos K, Murillo J, Viteri G, Cook J, Shorser S, Bader G, Demir E, Sander C, Haw R, Wu G, Stein L, Hermjakob H, D'Eustachio P. The reactome pathway knowledgebase 2022. Nucleic Acids Res. 2022 Jan 07;50:D687-D692. doi: 10.1093/nar/gkab1028. PMID: 34788843; PMCID: PMC8689983.
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Nucleic Acids Res. 2022 Jan 07;50:D687-D692. doi: 10.1093/nar/gkab1028.

The reactome pathway knowledgebase 2022.

Nucleic acids research

Marc Gillespie, Bijay Jassal, Ralf Stephan, Marija Milacic, Karen Rothfels, Andrea Senff-Ribeiro, Johannes Griss, Cristoffer Sevilla, Lisa Matthews, Chuqiao Gong, Chuan Deng, Thawfeek Varusai, Eliot Ragueneau, Yusra Haider, Bruce May, Veronica Shamovsky, Joel Weiser, Timothy Brunson, Nasim Sanati, Liam Beckman, Xiang Shao, Antonio Fabregat, Konstantinos Sidiropoulos, Julieth Murillo, Guilherme Viteri, Justin Cook, Solomon Shorser, Gary Bader, Emek Demir, Chris Sander, Robin Haw, Guanming Wu, Lincoln Stein, Henning Hermjakob, Peter D'Eustachio

Affiliations

  1. Ontario Institute for Cancer Research, Toronto, ON M5G0A3, Canada.
  2. College of Pharmacy and Health Sciences, St. John's University, Queens, NY11439, USA.
  3. Universidade Federal do Paraná, Curitiba, 80060-000, Brazil.
  4. European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, CB10 1SD, UK.
  5. Department of Dermatology, Medical University of Vienna, 1090 Vienna, Austria.
  6. NYU Grossman School of Medicine, New York, NY10016, USA.
  7. National Center for Protein Sciences Beijing, Beijing Institute of Life Omics, Beijing102206, China.
  8. Chongqing Key Laboratory on Big Data for Bio Intelligence, Chongqing University of Posts and Telecommunications, Chongqing 400065, China.
  9. Open Targets, Wellcome Genome Campus, Hinxton, Cambridgeshire, CB10 1SD, UK.
  10. Oregon Health and Science University, Portland, OR 97239, USA.
  11. Centro Internacional de Entrenamiento e Investigaciones Médicas, Cali 18 # 122-135, Colombia.
  12. The Donnelly Centre, University of Toronto, Toronto, ON M5S 3E1, Canada.
  13. cBio Center at Dana-Farber Cancer Institute, Boston, MA02115, USA.
  14. Department of Molecular Genetics, University of Toronto, Toronto, ON M5S 1A1, Canada.

PMID: 34788843 PMCID: PMC8689983 DOI: 10.1093/nar/gkab1028

Abstract

The Reactome Knowledgebase (https://reactome.org), an Elixir core resource, provides manually curated molecular details across a broad range of physiological and pathological biological processes in humans, including both hereditary and acquired disease processes. The processes are annotated as an ordered network of molecular transformations in a single consistent data model. Reactome thus functions both as a digital archive of manually curated human biological processes and as a tool for discovering functional relationships in data such as gene expression profiles or somatic mutation catalogs from tumor cells. Recent curation work has expanded our annotations of normal and disease-associated signaling processes and of the drugs that target them, in particular infections caused by the SARS-CoV-1 and SARS-CoV-2 coronaviruses and the host response to infection. New tools support better simultaneous analysis of high-throughput data from multiple sources and the placement of understudied ('dark') proteins from analyzed datasets in the context of Reactome's manually curated pathways.

© The Author(s) 2021. Published by Oxford University Press on behalf of Nucleic Acids Research.

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