The Reactome Pathway Knowledgebase

Overview

Journal Nucleic Acids Res

Publisher Oxford University Press

Specialty Biochemistry

Date 2017 Nov 18

PMID 29145629

Citations 1424

Authors

Antonio Fabregat

Steven Jupe

Lisa Matthews

Konstantinos Sidiropoulos

Marc Gillespie

Phani Garapati

Robin Haw

Bijay Jassal

Florian Korninger

Bruce May

Marija Milacic

Corina Duenas Roca

Karen Rothfels

Cristoffer Sevilla

Veronica Shamovsky

Solomon Shorser

Thawfeek Varusai

Guilherme Viteri

Joel Weiser

Guanming Wu

Lincoln Stein

Henning Hermjakob

Peter DEustachio

Affiliations

Soon will be listed here.

Abstract

The Reactome Knowledgebase (https://reactome.org) provides molecular details of signal transduction, transport, DNA replication, metabolism, and other cellular processes as an ordered network of molecular transformations-an extended version of a classic metabolic map, in a single consistent data model. Reactome functions both as an archive of biological processes and as a tool for discovering unexpected functional relationships in data such as gene expression profiles or somatic mutation catalogues from tumor cells. To support the continued brisk growth in the size and complexity of Reactome, we have implemented a graph database, improved performance of data analysis tools, and designed new data structures and strategies to boost diagram viewer performance. To make our website more accessible to human users, we have improved pathway display and navigation by implementing interactive Enhanced High Level Diagrams (EHLDs) with an associated icon library, and subpathway highlighting and zooming, in a simplified and reorganized web site with adaptive design. To encourage re-use of our content, we have enabled export of pathway diagrams as 'PowerPoint' files.

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