The reactome pathway knowledgebase 2022

TLDR

Reactome Knowledgebase provides manually curated molecular details across a broad range of human physiological and pathological processes, including hereditary and acquired diseases. Reactome annotates processes as an ordered network of molecular transformations within a single consistent data model and offers new tools for simultaneous analysis of high‑throughput data from multiple sources, enabling placement of understudied proteins in curated pathways. Reactome serves as a digital archive of curated human biological processes and a tool for uncovering functional relationships in datasets such as gene expression or somatic mutation catalogs, with recent curation expanding normal and disease‑associated signaling and drug annotations, notably for SARS‑CoV‑1 and SARS‑CoV‑2 infections and host responses.

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.