Abstract

Accurate and complete human pathway information is crucial for the successful exploitation of the human genome in a variety of experimental contexts. The Reactome project has enjoyed a successful pilot phase to develop appropriate data models and tools for storing pathway information. In the pilot we have used these tools to curate to the highest level of accuracy pathways involving 1,200 non redundant proteins, which compares favourably to other pathway databases. In this proposal we aim to populate Reactome with pathways which comprise 5,000 non redundant human proteins and extend Reactome to incorporate an additional 10,000 proteins. Consistent with the pilot, all of Reactome's data and software will be made freely available.

  Funding Agency

Agency
National Institute of Health (NIH)
Institute
National Human Genome Research Institute (NHGRI)
Type
Biotechnology Resource Grants (P41)
Project #
3P41HG003751-04S1
Application #
8306462
Study Section
Ethical, Legal, Social Implications Review Committee (GNOM)
Program Officer
Good, Peter J
Project Start
2007-04-01
Project End
2012-05-31
Budget Start
2011-03-01
Budget End
2012-05-31
Support Year
4
Fiscal Year
2011
Total Cost
$858,478
Indirect Cost

  Institution

Name
Ontario Institute for Cancer Research
Department
Type
DUNS #
205540219
City
Toronto
State
ON
Country
Canada
Zip Code
M5 0-A3

  Publications

Bohler, Anwesha; Wu, Guanming; Kutmon, Martina et al. (2016) Reactome from a WikiPathways Perspective. PLoS Comput Biol 12:e1004941
Wang, Qinghua; S Abdul, Shabbir; Almeida, Lara et al. (2016) Overview of the interactive task in BioCreative V. Database (Oxford) 2016:
Huntley, Rachael P; Sitnikov, Dmitry; Orlic-Milacic, Marija et al. (2016) Guidelines for the functional annotation of microRNAs using the Gene Ontology. RNA 22:667-76
Fabregat, Antonio; Sidiropoulos, Konstantinos; Garapati, Phani et al. (2016) The Reactome pathway Knowledgebase. Nucleic Acids Res 44:D481-7
Gupta, Parul; Naithani, Sushma; Tello-Ruiz, Marcela Karey et al. (2016) Gramene Database: Navigating Plant Comparative Genomics Resources. Curr Plant Biol 7-8:10-15
Dai, Hong-Jie; Su, Chu-Hsien; Lai, Po-Ting et al. (2016) MET network in PubMed: a text-mined network visualization and curation system. Database (Oxford) 2016:
Tello-Ruiz, Marcela K; Stein, Joshua; Wei, Sharon et al. (2016) Gramene 2016: comparative plant genomics and pathway resources. Nucleic Acids Res 44:D1133-40
Creixell, Pau; Reimand, Jüri; Haider, Syed et al. (2015) Pathway and network analysis of cancer genomes. Nat Methods 12:615-621
McKay, Sheldon J; Weiser, Joel (2015) Installing a Local Copy of the Reactome Web Site and Knowledgebase. Curr Protoc Bioinformatics 50:9.10.1-10
Jupe, Steve; Fabregat, Antonio; Hermjakob, Henning (2015) Expression data analysis with Reactome. Curr Protoc Bioinformatics 49:8.20.1-9

Showing the most recent 10 out of 30 publications