The Ontology Lookup Service: bigger and better

被引：85

作者：

Cote, Richard ^{[1
]}

Reisinger, Florian ^{[1
]}

Martens, Lennart ^{[2
,3
]}

Barsnes, Harald ^{[4
]}

Vizcaino, Juan Antonio ^{[1
]}

Hermjakob, Henning ^{[1
]}

机构：

[1] European Bioinformat Inst, Cambridge CB10 1SD, England

[2] VIB, Dept Med Prot Res, Ghent, Belgium

[3] Univ Ghent, Dept Biochem, B-9000 Ghent, Belgium

[4] Univ Bergen, Dept Informat, N-5020 Bergen, Norway

来源：

NUCLEIC ACIDS RESEARCH | 2010年 / 38卷

基金：

英国生物技术与生命科学研究理事会;

关键词：

D O I：

10.1093/nar/gkq331

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

The Ontology Lookup Service (OLS; http://www.ebi.ac.uk/ols) has been providing several means to query, browse and navigate biomedical ontologies and controlled vocabularies since it first went into production 4 years ago, and usage statistics indicate that it has become a heavily accessed service with millions of hits monthly. The volume of data available for querying has increased 7-fold since its inception. OLS functionality has been integrated into several high-usage databases and data entry tools. Improvements in the data model and loaders, as well as interface enhancements have made the OLS easier to use and capture more annotations from the source data. In addition, newly released software packages now provide easy means to fully integrate OLS functionality in external applications.

引用

收藏

页码：W155 / W160

页数：6

相关论文

共 14 条

[1] OLS Dialog: An open-source front end to the Ontology Lookup Service [J].

Barsnes, Harald ;

Cote, Richard G. ;

Eidhammer, Ingvar ;

Martens, Lennart .

BMC BIOINFORMATICS, 2010, 11

[2] PRIDE Converter: making proteomics data-sharing easy [J].

Barsnes, Harald ;

Vizcaino, Juan Antonio ;

Eidhammer, Ingvar ;

Martens, Lennart .

NATURE BIOTECHNOLOGY, 2009, 27 (07) :598-599

[3] The Ontology Lookup Service, a lightweight cross-platform tool for controlled vocabulary queries [J].

Côté, RG ;

Jones, P ;

Apweiler, R ;

Hermjakob, H .

BMC BIOINFORMATICS, 2006, 7 (1)

[4] The Ontology Lookup Service:: more data and better tools for controlled vocabulary queries [J].

Cote, Richard G. ;

Jones, Philip ;

Martens, Lennart ;

Apweiler, Rolf ;

Hermjakob, Henning .

NUCLEIC ACIDS RESEARCH, 2008, 36 :W372-W376

[5] Chemical Entities of Biological Interest: an update [J].

de Matos, Paula ;

Alcantara, Rafael ;

Dekker, Adriano ;

Ennis, Marcus ;

Hastings, Janna ;

Haug, Kenneth ;

Spiteri, Inmaculada ;

Turner, Steve ;

Steinbeck, Christoph .

NUCLEIC ACIDS RESEARCH, 2010, 38 :D249-D254

[6] An anatomy ontology to represent biological knowledge in Dictyostelium discoideum [J].

Gaudet, Pascale ;

Williams, Jeffery G. ;

Fey, Petra ;

Chisholm, Rex L. .

BMC GENOMICS, 2008, 9 (1)

[7] The HUPO proteomics standards initiative - Overcoming the fragmentation of proteomics data [J].

Hermjakob, Henning .

PROTEOMICS, 2006, :34-38

[8] IntAct - open source resource for molecular interaction data [J].

Kerrien, S. ;

Alam-Faruque, Y. ;

Aranda, B. ;

Bancarz, I. ;

Bridge, A. ;

Derow, C. ;

Dimmer, E. ;

Feuermann, M. ;

Friedrichsen, A. ;

Huntley, R. ;

Kohler, C. ;

Khadake, J. ;

Leroy, C. ;

Liban, A. ;

Lieftink, C. ;

Montecchi-Palazzi, L. ;

Orchard, S. ;

Risse, J. ;

Robbe, K. ;

Roechert, B. ;

Thorneycroft, D. ;

Zhang, Y. ;

Apweiler, R. ;

Hermjakob, H. .

NUCLEIC ACIDS RESEARCH, 2007, 35 :D561-D565

[9] The PSI-MOD community standard for representation of protein modification data [J].

Montecchi-Palazzi, Luisa ;

Beavis, Ron ;

Binz, Pierre-Alain ;

Chalkley, Robert J. ;

Cottrell, John ;

Creasy, David ;

Shofstahl, Jim ;

Seymour, Sean L. ;

Garavelli, John S. .

NATURE BIOTECHNOLOGY, 2008, 26 (08) :864-866

[10] BioPortal: ontologies and integrated data resources at the click of a mouse [J].

Noy, Natalya F. ;

Shah, Nigam H. ;

Whetzel, Patricia L. ;

Dai, Benjamin ;

Dorf, Michael ;

Griffith, Nicholas ;

Jonquet, Clement ;

Rubin, Daniel L. ;

Storey, Margaret-Anne ;

Chute, Christopher G. ;

Musen, Mark A. .

NUCLEIC ACIDS RESEARCH, 2009, 37 :W170-W173