BMC Bioinformatics

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This article is part of the supplement: First International Workshop on Text Mining in Bioinformatics (TMBio) 2006

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Framework for a Protein Ontology

Darren A Natale*, Cecilia N Arighi, Winona C Barker, Judith Blake, Ti-Cheng Chang, Zhangzhi Hu, Hongfang Liu, Barry Smith and Cathy H Wu

BMC Bioinformatics 2007, 8(Suppl 9):S1 doi:10.1186/1471-2105-8-S9-S1

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An open annotation ontology for science on web 3.0

Paolo Ciccarese, Marco Ocana, Leyla Garcia Castro, Sudeshna Das, Tim Clark Journal of Biomedical Semantics 2011, 2(Suppl 2):S4 (17 May 2011)

Technical Note   Open Access

OntoFox: web-based support for ontology reuse

Zuoshuang Xiang, Mélanie Courtot, Ryan R Brinkman, Alan Ruttenberg, Yongqun He BMC Research Notes 2010, 3:175 (22 June 2010)

OntoFox facilitates knowledge sharing by supporting extraction and reuse of user-defined subsets of terms from existing ontologies, enabling interoperability between projects through standardization of concepts and definitions.

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Saliva Ontology: An ontology-based framework for a Salivaomics Knowledge Base

Jiye Ai, Barry Smith, David T Wong BMC Bioinformatics 2010, 11:302 (3 June 2010)

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Integrating phenotype ontologies across multiple species

Christopher J Mungall, Georgios V Gkoutos, Cynthia L Smith, Melissa A Haendel, Suzanna E Lewis, Michael Ashburner Genome Biology 2010, 11:R2 (8 January 2010)

A phenotypic ontology that can be used for the analysis of phenotype-genotype data across multiple species, paving the way for truly cross species translational research.

Proceedings   Open Access

TGF-beta signaling proteins and the Protein Ontology

Cecilia N Arighi, Hongfang Liu, Darren A Natale, Winona C Barker, Harold Drabkin, Judith A Blake, Barry Smith, Cathy H Wu BMC Bioinformatics 2009, 10(Suppl 5):S3 (6 May 2009)

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An improved ontological representation of dendritic cells as a paradigm for all cell types

Anna Masci, Cecilia N Arighi, Alexander D Diehl, Anne E Lieberman, Chris Mungall, Richard H Scheuermann, Barry Smith, Lindsay G Cowell BMC Bioinformatics 2009, 10:70 (25 February 2009)