Infectious Disease

New and Updated Topics and Pathways. In V84, Topics with new or revised pathways include Developmental Biology (Formation of definitive endoderm), Gene Expression (Formation of WDR5-containing histone-modifying complexes), and Signal Transduction (Regulation of TNFR1 signaling, TNFR1-induced NF-kappa-B signaling pathway, and TNFR1-induced proapoptotic signaling). The Infectious disease pathway has been reorganized with grouping pathways for Bacterial Infection Pathways, Viral Infection Pathways, and Parasitic Infection Pathways

New and Updated Illustrations.   In parallel with the restructuring of the infectious disease pathway in V84, new or revised Illustrations with embedded navigation features have been created for Infectious disease, Bacterial Infection Pathways, Viral Infection Pathways, and Parasitic Infection Pathways. Additional disease pathways with new or updated Illustrations include Aberrant regulation of mitotic cell cycle due to RB1 defects, Defective factor IX causes hemophilia B, Defective factor VIII causes hemophilia A, Diseases of Cellular Senescence, and Diseases of Mitotic Cell Cycle. Normal pathways with new or revised illustrations include Epigenetic regulation of gene expression and Gastrulation.

Thanks to our Contributors.   Toni Franjkić, Kai Ge, David P Hill, Ivana Munitic, Nazmus Salehin, Patrick Tam, and Hieu Van are our external reviewers.

Annotation Statistics. Reactome comprises 14516 human reactions organized into 2615 pathways involving 30095 proteins and modified forms of proteins encoded by 11371 different human genes, 14194 complexes, 2002 small molecules, and  1113 drugs. These annotations are supported by 36444 literature references. We have projected these reactions onto 84090 orthologous proteins, creating 19435 orthologous pathways in 14 non-human species. Version 84 has annotations for 4983 protein variants (mutated proteins) and their post-translationally modified forms, derived from 353 proteins, which have contributed to the annotation of  1,659 disease-specific reactions and  704 pathways. 

Tools and Data. Our services and software tools are designed for biologists, bioinformaticians, and software developers. Pathway data is available to view in our Pathway Browser, to analyze your own dataset, to download, and access programmatically through our Content and Analysis Services. The ReactomeFIViz app and ReactomeGSA package provide tools for multi-omics data analysis. The Web Portal provides a collection of web-based tools to help researchers place understudied proteins in a pathway context. 

Documentation and Training. Visit our online User Guide to access documentation supporting pathway analysis of experimental data. The Developer's Zone provides detailed documentation regarding our software, tools, and web services. Training and learning materials can be found here.

About the Reactome Project. Reactome is a collaboration between groups at the Ontario Institute for Cancer Research, Oregon Health and Science University, New York University Langone Medical Center, and The EMBL - European Bioinformatics Institute. Reactome is an ELIXIR Core Data Resource as well as a Global Core Biodata Resource. Reactome annotation files and interaction data derived from Reactome are distributed under a Creative Commons Public Domain (CC0 1.0 Universal) Licence. A Creative Commons Attribution 4.0 International (CC BY 4.0) Licence applies to all software and code, database data dumps, and Pathway Illustrations (Enhanced High-Level Diagrams), Icon Library, Art and Branding Materials. A full description of the new and updated content is available on the Reactome website.

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