New and Updated Topics and Pathways. Topics with new or revised pathways in V78 include Disease (Defective HDR through homologous recombination (HRR) due to BRCA1 loss of function and Defective HDR through homologous recombination (HRR) due to PALB2 loss of function), DNA repair (Alkylating DNA damage induced by chemotherapeutic drugs, Drug-induced formation of DNA interstrand crosslinks, and Reversible DNA damage induced by alkylating chemotherapeutic drugs), DNA Replication (Assembly of the ORC complex at the origin of replication), Sensory Perception (Olfactory signaling and Sensory perception of taste), and Signal transduction (CDC42 GTPase Cycle, Drug-mediated inhibition of MET activation, Met Receptor Activation, RHO GTPases regulate CFTR trafficking, RHOJ GTPase cycle, RHOQ GTPase cycle, and TGF-beta receptor signaling activates SMADs).
New and Updated Illustrations. Illustrations with embedded navigation features have been added or revised for Defective intrinsic pathway to apoptosis, Defects in biotin (Btn) metabolism, Defects in cobalamin (B12) metabolism, Defects of contact activation system (CAS) and kallikrein/kinin system (KKS), Diseases associated with O-glycosylation of proteins, Diseases associated with N-glycosylation of proteins, Diseases associated with the TLR signaling cascade, Diseases of base excision repair, Diseases of programmed cell death, DNA replication, Loss of function of SMAD2/3 in cancer, Mucopolysaccharidoses, Pentose phosphate pathway disease, Sensory perception, Signaling by NOTCH1 in cancer, and Signaling by Rho GTPases, Miro GTPases and RHOBTB3.
Thanks to our Contributors. Our external authors are Jelena Kusic-Tisma, Sisira Kadambat Nair. Our external reviewers are Kaja Blagotinšek Cokan, Maitreyi E Das, Peihua Jiang, Jean-Yves Masson, Larissa Milano, Gemma Montalban, Sisira Kadambat Nair, and Francesco Raimondi.
Annotation Statistics. Reactome comprises 13,890 human reactions organized into 2,546 pathways involving 10,918 proteins and modified forms of proteins encoded by 10,720 different human genes, 13,804 complexes, 1,940 small molecules, and 507 drugs. These annotations are supported by 34,025 literature references. We have projected these reactions onto 77,335 orthologous proteins, creating 18,698 orthologous pathways in 15 non-human species. Version 78 has annotations for 4,603 protein variants (mutated proteins) and their post-translationally modified forms, derived from 352 proteins, which have been used to annotate disease-specific 1,544 reactions and 673 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 ReactomeGSA package provides tools for multi-omics data analysis. The idg.reactome.org 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 European Bioinformatics Institute. 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 will apply 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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