Reactome: a knowledge base of biologic pathways and processes
Open Access
- 16 March 2007
- journal article
- software
- Published by Springer Nature in Genome Biology
- Vol. 8 (3), R39-13
- https://doi.org/10.1186/gb-2007-8-3-r39
Abstract
Reactome http://www.reactome.org , an online curated resource for human pathway data, provides infrastructure for computation across the biologic reaction network. We use Reactome to infer equivalent reactions in multiple nonhuman species, and present data on the reliability of these inferred reactions for the distantly related eukaryote Saccharomyces cerevisiae. Finally, we describe the use of Reactome both as a learning resource and as a computational tool to aid in the interpretation of microarrays and similar large-scale datasets.Keywords
This publication has 32 references indexed in Scilit:
- Reconstruction of a Functional Human Gene Network, with an Application for Prioritizing Positional Candidate GenesAmerican Journal of Human Genetics, 2006
- The PANTHER database of protein families, subfamilies, functions and pathwaysNucleic Acids Research, 2004
- IntAct: an open source molecular interaction databaseNucleic Acids Research, 2004
- Development of Human Protein Reference Database as an Initial Platform for Approaching Systems Biology in HumansGenome Research, 2003
- OrthoMCL: Identification of Ortholog Groups for Eukaryotic GenomesGenome Research, 2003
- PGC-1α-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetesNature Genetics, 2003
- The systems biology markup language (SBML): a medium for representation and exchange of biochemical network modelsBioinformatics, 2003
- BIND: the Biomolecular Interaction Network DatabaseNucleic Acids Research, 2003
- The Pathway Tools softwareBioinformatics, 2002
- GenMAPP, a new tool for viewing and analyzing microarray data on biological pathwaysNature Genetics, 2002