Developmental Lineages of Integumentary System
New and Updated Topics and Pathways. Topics with new or revised pathways in this release include Cell-Cell Communication (Regulation of CDH1 Expression and Function), Circadian clock (BMAL1:CLOCK,NPAS2 activates circadian expression), Developmental Biology (Developmental Lineage of Mammary Gland Myoepithelial Cells, Developmental Lineage of Mammary Stem Cells, Developmental Lineages of the Mammary Gland), Disease (Infection with Enterobacteria, Loss of Function of KMT2D in Kabuki Syndrome), Metabolism (Cholesterol biosynthesis, Cytochrome P450 - arranged by substrate type, Cytosolic iron-sulfur cluster assembly, Glycogen breakdown (glycogenolysis), Glycosaminoglycan metabolism, Integration of energy metabolism, Lactose synthesis, Lipid particle organization, Melanin biosynthesis, Nicotinate metabolism, Oleoyl-phe metabolism, Regulation of glycolysis by fructose 2,6-bisphosphate metabolism, Synthesis of PIPs at the Golgi membrane), Metabolism of Proteins (DAG1 glycosylations, Matriglycan biosynthesis on DAG1, Metabolism of Angiotensinogen to Angiotensins, Mitochondrial ribosome-associated quality control, Mitochondrial translation termination, O-linked glycosylation), Metabolism of RNA (Mitochondrial mRNA modification, rRNA modification in the mitochondrion, tRNA modification in the mitochondrion, tRNA modification in the nucleus and cytosol) and Signal Transduction (Peptide ligand-binding receptors).
New and Updated Illustrations. New or revised Illustrations with embedded navigation features have been created for Bacterial Infection Pathways, Defects of platelet adhesion to exposed collagen, Developmental Cell Lineages, Developmental Lineages of Integumentary System, Developmental Lineages of the Mammary Gland, Disorders of Developmental Biology, Extracellular matrix organization, Metabolism of RNA, and Mucopolysaccharidosis.
Thanks to our Contributors. Tessa Kolar and Jingping Qiao are our external authors and Urs Albrecht, Michael Bader, Aleksandra Filipovska, Aleksandra Filipovska, David P Hill, Alexis A Jourdain, Kenneth C Keiler, Vamsi K Mootha, Robson Augusto Souza Santos, Divyasorubini Seerpatham, Eric A Shoubridge, Manal A Swairjo, Rhian M Touyz, and Rossana Zaru are our external reviewers.
Annotation Statistics. Reactome comprises 15,890 human reactions organized into 2,799 pathways involving 31,906 proteins and modified forms of proteins encoded by 11,396 different human genes, 15,621 complexes, 2,172 small molecules, and 1,068 drugs. These annotations are supported by 41,048 literature references. We have projected these reactions onto 80,576 orthologous proteins, creating 20,102 orthologous pathways in 14 non-human species. Version 93 has annotations for 5,511 protein variants (mutated proteins) and their post-translationally modified forms, derived from 394 proteins, which have contributed to the annotation of 1,881 disease-specific reactions and 764 pathways.
Other news:
As of Reactome V93, our Docker images are no longer available on DockerHub and have been migrated to AWS Elastic Container Registry (ECR). Users should pull images from AWS ECR moving forward. Updated access instructions are available in our documentation.
As of Reactome V94, the following files will no longer be available: “Protégé 2.0 ontology files”, and “Events in the BioPAX level 2 format”. If you require these files for your work, please let our team know via This email address is being protected from spambots. You need JavaScript enabled to view it..
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 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 EMBL - European Bioinformatics Institute. Reactome is both an ELIXIR Core Data Resource and 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) License 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.
Follow us on Twitter: @reactome to get frequent updates about new and updated pathways, feature updates, and more!
For more information: If you have a question, want to provide feedback, or are interested in collaborating with us to annotate a topic, please contact us at This email address is being protected from spambots. You need JavaScript enabled to view it..
