Literature DB >> 17094236

Event ontology: a pathway-centric ontology for biological processes.

Tatsuya Kushida1, Toshihisa Takagi, Ken Ichiro Fukuda.   

Abstract

Event ontology is a new biomedical ontology developed to annotate pathway components in a pathway database. It organizes the concepts and terms of sub-pathways, pathways, biological phenomena, experimental conditions, medications, and external stimuli appearing in biological pathways (e.g. signal transduction, disease-, metabolic-, molecular interaction-, genetic interaction pathways, etc.). Concepts in the Event ontology are extracted manually from scientific literature. Each term has links to external databases such as Gene Ontology, Reactome, KEGG, BioCyc, and PubMed.

Mesh：

Year:  2006        PMID： 17094236

Source DB:  PubMed          Journal:  Pac Symp Biocomput        ISSN： 2335-6928


  7 in total

1.  Patterns of somatic mutation in human cancer genomes.

Authors:  Christopher Greenman; Philip Stephens; Raffaella Smith; Gillian L Dalgliesh; Christopher Hunter; Graham Bignell; Helen Davies; Jon Teague; Adam Butler; Claire Stevens; Sarah Edkins; Sarah O'Meara; Imre Vastrik; Esther E Schmidt; Tim Avis; Syd Barthorpe; Gurpreet Bhamra; Gemma Buck; Bhudipa Choudhury; Jody Clements; Jennifer Cole; Ed Dicks; Simon Forbes; Kris Gray; Kelly Halliday; Rachel Harrison; Katy Hills; Jon Hinton; Andy Jenkinson; David Jones; Andy Menzies; Tatiana Mironenko; Janet Perry; Keiran Raine; Dave Richardson; Rebecca Shepherd; Alexandra Small; Calli Tofts; Jennifer Varian; Tony Webb; Sofie West; Sara Widaa; Andy Yates; Daniel P Cahill; David N Louis; Peter Goldstraw; Andrew G Nicholson; Francis Brasseur; Leendert Looijenga; Barbara L Weber; Yoke-Eng Chiew; Anna DeFazio; Mel F Greaves; Anthony R Green; Peter Campbell; Ewan Birney; Douglas F Easton; Georgia Chenevix-Trench; Min-Han Tan; Sok Kean Khoo; Bin Tean Teh; Siu Tsan Yuen; Suet Yi Leung; Richard Wooster; P Andrew Futreal; Michael R Stratton
Journal:  Nature       Date:  2007-03-08       Impact factor: 49.962

2.  On the ontology based representation of cell lines.

Authors:  Matthias Ganzinger; Shan He; Kai Breuhahn; Petra Knaup
Journal:  PLoS One       Date:  2012-11-07       Impact factor: 3.240

3.  GeneSetDB: A comprehensive meta-database, statistical and visualisation framework for gene set analysis.

Authors:  Hiromitsu Araki; Christoph Knapp; Peter Tsai; Cristin Print
Journal:  FEBS Open Bio       Date:  2012-04-17       Impact factor: 2.693

4.  Current trends and new challenges of databases and web applications for systems driven biological research.

Authors:  Pradeep Kumar Sreenivasaiah; Do Han Kim
Journal:  Front Physiol       Date:  2010-12-03       Impact factor: 4.566

5.  INOH: ontology-based highly structured database of signal transduction pathways.

Authors:  Satoko Yamamoto; Noriko Sakai; Hiromi Nakamura; Hiroshi Fukagawa; Ken Fukuda; Toshihisa Takagi
Journal:  Database (Oxford)       Date:  2011-11-26       Impact factor: 3.451

6.  TGF-beta signaling proteins and the Protein Ontology.

Authors:  Cecilia N Arighi; Hongfang Liu; Darren A Natale; Winona C Barker; Harold Drabkin; Judith A Blake; Barry Smith; Cathy H Wu
Journal:  BMC Bioinformatics       Date:  2009-05-06       Impact factor: 3.169

7.  Framework for a protein ontology.

Authors:  Darren A Natale; Cecilia N Arighi; Winona C Barker; Judith Blake; Ti-Cheng Chang; Zhangzhi Hu; Hongfang Liu; Barry Smith; Cathy H Wu
Journal:  BMC Bioinformatics       Date:  2007-11-27       Impact factor: 3.169
  7 in total

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