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Protocols

Reactome specifications

Information


Unique identifier OMICS_02771
Name Reactome
Restrictions to use None
Community driven No
Data access File download, Browse, Application programming interface
User data submission Not allowed
Version 63
Maintained Yes
Wikipedia https://en.wikipedia.org/wiki/Reactome

Taxon


  • Primates
    • Homo sapiens

Documentation


Maintainers


  • person_outline Peter D'Eustachio
  • person_outline Henning Hermjakob
  • person_outline Reactome Team
  • person_outline Antonio Fabregat

Publications for Reactome

library_books

The Reactome BioMart.

2011 Database
PMCID: 3197281
PMID: 22012987
DOI: 10.1093/database/bar031

Reactome citations

 (701)
library_books

Molecular, Pathological, Radiological, and Immune Profiling of Non brainstem Pediatric High Grade Glioma from the HERBY Phase II Randomized Trial

2018
Cancer Cell
PMCID: 5956280
PMID: 29763623
DOI: 10.1016/j.ccell.2018.04.004

[…] KEGG_T_CELL_RECEPTOR_SIGNALING_PATHWAY, enrichment score = 0.532, nominal p = 0.0297) and inflammatory-related MAPK signaling (e.g., ST_JNK_MAPK_PATHWAY, enrichment score = 0.466, nominal p = 0.0332; REACTOME_GRB2_SOS_PROVIDES_ LINKAGE_TO_MAPK_SIGNALING_FOR_INTERGRINS, enrichment score = 0.581, nominal p = 0.0239) (), with mean T effector/T cell signature significantly higher than in cases without […]

library_books

SolCyc: a database hub at the Sol Genomics Network (SGN) for the manual curation of metabolic networks in Solanum and Nicotiana specific databases

2018
PMCID: 5946812
PMID: 29762652
DOI: 10.1093/database/bay035

[…] ad range of organisms (, ).Concomitant with the increasing ease of access to new genomes and the need for functional interpretation of Omics data, the number of metabolic databases has also expanded. Reactome () and Ingenuity Pathway analysis (www.ingenuity.com), e.g. integrate mostly animal and human pathways, while the Kyoto Encyclopedia of Genes and Genomes (KEGG) () aims to be a universal meta […]

library_books

VAReporter: variant reporter for cancer research of massive parallel sequencing

2018
BMC Genomics
PMCID: 5954270
PMID: 29764369
DOI: 10.1186/s12864-018-4468-5

[…] Pathway component genes are defined as gene sets collected in the Molecular Signatures Database v5.0 (MSigDB) [] that are curated from KEGG [], BioCarta [], Pathway Interaction Database [], Reactome and Signaling Gateway []. VAReporter can assess the mutational events of pathway component genes and display subsets of patients as pie charts and heat maps to identify the most frequently al […]

library_books

Time resolved transcriptome and proteome landscape of human regulatory T cell (Treg) differentiation reveals novel regulators of FOXP3

2018
BMC Biol
PMCID: 5937035
PMID: 29730990
DOI: 10.1186/s12915-018-0518-3

[…] ompleteness of the binding motif database. The selected iTreg subnetwork (Fig. ) was enriched for genes of the TGF-β pathway, as indicated by functional enrichment analysis using Gene Ontology, KEGG, Reactome, and MSigDB Immunological Signatures databases (Additional file : Table S5) and as expected by the involvement of TGF-β signaling in iTreg differentiation []. We next explored whether the iTr […]

library_books

Validation of systems biology derived molecular markers of renal donor organ status associated with long term allograft function

2018
Sci Rep
PMCID: 5934379
PMID: 29725116
DOI: 10.1038/s41598-018-25163-8

[…] Next, all molecular features of donor organ status affecting outcome identified above were mapped on a hybrid interaction network including protein-protein interaction data from IntAct, BioGrid, and Reactome together with computationally inferred relations. The organ status-transplant outcome specific molecular interaction subgraph was extracted from the network discarding molecular features not […]

library_books

A side effect free method for identifying cancer drug targets

2018
Sci Rep
PMCID: 5923273
PMID: 29703908
DOI: 10.1038/s41598-018-25042-2

[…] two steps. Initial ones were obtained by disintegrating the component proteins of the established pathways of cancer from four separate databases namely, BIOCARTA, Pathway Interaction Database (PID), REACTOME and Kyoto Encyclopedia of Genes and Genomes (KEGG)–. To address the pleiotropic effect of the gene products, the aforementioned proteins were then used to search for their involvement in othe […]


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Reactome institution(s)
European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, UK; Open Targets, Wellcome Genome Campus, Hinxton, UK; Fundacion Investigacion INCLIVA, Universitat de Valencia, Valencia, Spain; Insituto de Medicina Genomica, Valencia, Spain; NIH BD2K Center of Excellence and Department of Physiology, Medicine, and Bioinformatics, University of California, Los Angeles, CA, USA; Oregon Health and Science University, Portland, OR, USA; Ontario Institute for Cancer Research, Toronto, ON, Canada; NYU Langone Medical Center, New York, NY, USA; State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, National Center for Protein Sciences, Beijing, China
Reactome funding source(s)
Supported by grants from the National Institutes of Health (P41HG003751 and U54GM114833), the European Bioinformatics Institute, Open Targets (The Target Validation Platform) and Medicine by Design (University of Toronto).

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