Modeling biomedical experimental processes with OBI

被引：158

作者：

Brinkman R.R. ^{[1
]}

Courtot M. ^{[1
]}

Derom D. ^{[2
]}

Fostel J.M. ^{[3
]}

He Y. ^{[4
]}

Lord P. ^{[5
]}

Malone J. ^{[6
]}

Parkinson H. ^{[6
]}

Peters B. ^{[7
]}

Rocca-Serra P. ^{[6
]}

Ruttenberg A. ^{[8
]}

Sansone S.-A. ^{[6
]}

Soldatova L.N. ^{[9
]}

Stoeckert C.J., Jr. ^{[10
]}

Turner J.A. ^{[11
]}

Zheng J. ^{[10
]}

Grethe J.

Rubin D.

Bug B.

Wiemann S.

Hernandez-Boussard T.

Scheuermann R.

Bruskiewich R.

Gibson F.

Morrison N.

Field D.

Gray T.

Deutsch E.

Schober D.

Montecchi L.

Taylor C.

Whetzel T.

Westbrook J.

Fragoso G.

White J.

Heiskanen M.

Fan L.

Causton H.

Lister A.

Clancy K.

Cocos C.

Greenbaum J.

Grenon P.

Mungall C.

Pocock M.

Stenzhorn H.

Hunter L.

Mc Gee M.

Smith B.

Stevens R.

机构：

[1] British Columbia Cancer Agency, Vancouver

[2] Global Health Sector, SRA International, Inc, Durham, NC

[3] University of Michigan Medical School, Ann Arbor

[4] School of Computing Science, Newcastle University

[5] The European Bioinformatics Institute, Cambridge

[6] La Jolla Institute for Allergy and Immunology, La Jolla, CA

[7] Science Commons, Cambridge, MA

[8] Aberystwyth University, Wales

[9] Center for Bioinformatics, Department of Genetics, University of Pennsylvania School of Medicine, Philadelphia, PA

[10] Department of Psychiatry and Human Behavior, University of California, Irvine, CA

来源：

Journal of Biomedical Semantics | / 1卷 / Suppl 1期

基金：

英国生物技术与生命科学研究理事会; 英国工程与自然科学研究理事会;

关键词：

Caudate Nucleus; Material Entity; Pathogen Challenge; Logical Definition; Basic Formal Ontology;

D O I：

10.1186/2041-1480-1-S1-S7

中图分类号：

学科分类号：

摘要：

Background: Experimental descriptions are typically stored as free text without using standardized terminology, creating challenges in comparison, reproduction and analysis. These difficulties impose limitations on data exchange and information retrieval. Results: The Ontology for Biomedical Investigations (OBI), developed as a global, cross-community effort, provides a resource that represents biomedical investigations in an explicit and integrative framework. Here we detail three real-world applications of OBI, provide detailed modeling information and explain how to use OBI. Conclusion: We demonstrate how OBI can be applied to different biomedical investigations to both facilitate interpretation of the experimental process and increase the computational processing and integration within the Semantic Web. The logical definitions of the entities involved allow computers to unambiguously understand and integrate different biological experimental processes and their relevant components. Availability: OBI is available at http://purl.obolibrary.org/obo/obi/2009-11-02/obi.owl © 2010 Soldatova et al; licensee BioMed Central Ltd.

引用

共 21 条

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