Bio-ontologies: current trends and future directions, Briefing in Bioinformatics, vol.7, issue.3, pp.256-274, 2006. ,
Finding disease-related genomic experiments within an international repository: first steps in translational bioinformatics, American Medical Informatics Association Annual Symposium, AMIA'06, pp.106-110, 2006. ,
State of the nation in data integration for bioinformatics, Biomedical Informatics, vol.41, issue.5, pp.687-693, 2008. ,
A comparative evaluation of full-text, concept-based, and context-sensitive search, American Medical Informatics Association, vol.14, issue.2, pp.164-174, 2007. ,
Text mining and ontologies in biomedicine: making sense of raw text, Briefing in Bioinformatics, vol.6, issue.3, pp.239-251, 2005. ,
Knowledge-based methods to help clinicians find answers in medline, American Medical Informatics Association, vol.14, issue.6, pp.772-780, 2007. ,
Use and misuse of the gene ontology annotations, Nature Reviews Genetics, vol.9, pp.509-515, 2008. ,
Comparison of concept recognizers for building the Open Biomedical Annotator, BMC Bioinformatics, vol.10, issue.9, p.14 ,
URL : https://hal.archives-ouvertes.fr/hal-00492026
BioPortal: ontologies and integrated data resources at the click of a mouse, Nucleic Acids Research, vol.37, pp.170-173, 2009. ,
URL : https://hal.archives-ouvertes.fr/hal-00492020
, Artificial Intelligence and Applications, vol.96, 2003.
Semantic annotation for knowledge management: requirements and a survey of the state of the art, Web Semantics: Science, Services and Agents on the World Wide Web, vol.4, issue.1, pp.14-28, 2006. ,
, Ontologydriven Indexing of Public Datasets for Translational Bioinformatics, vol.10, p.1
URL : https://hal.archives-ouvertes.fr/hal-00492025
The OBO foundry: coordinated evolution of ontologies to support biomedical data integration, Nature Biotechnology, vol.25, issue.11, pp.1251-1255, 2007. ,
The unified medical language system (UMLS): integrating biomedical terminology, Nucleic Acids Research, vol.32, pp.267-270, 2004. ,
Interactive medline search engine utilizing biomedical concepts and data integration, BioLINK: Linking Literature, Information and Knowledge for Biology, SIG, ISMB'08, pp.55-58, 2007. ,
An efficient solution for mapping free text to ontology terms, American Medical Informatics Association Symposium on Translational BioInformatics, 2008. ,
Collecting community-based mappings in an ontology repository, 7th International Semantic Web Conference, vol.5318, pp.371-368, 2008. ,
Optimize first, buy later: analyzing metrics to ramp-up very large knowledge bases, Ninth International Semantic Web Conference, vol.6496, pp.486-501, 2010. ,
URL : https://hal.archives-ouvertes.fr/hal-00558036
A review of ontology based query expansion, Information Processing and Management, vol.43, pp.866-886, 2007. ,
Semantic annotation of image collections, Knowledge Markup and Semantic Annotation Workshop, 2003. ,
IndexFinder: a method of extracting key concepts from clinical texts for indexing, American Medical Informatics Association Annual Symposium, AMIA'03, pp.763-767, 2003. ,
SAPHIRE -an information retrieval system featuring concept matching, automatic indexing, probabilistic retrieval, and hierarchical relationships, Computers and Biomedical Research, vol.23, issue.5, pp.410-425, 1990. ,
CONANN: an online biomedical concept annotator, 4th International Workshop Data Integration in the Life Sciences, vol.4544, pp.264-279, 2007. ,
, Effective mapping of biomedical text to the UMLS Metathesaurus: the MetaMap program, pp.17-21, 2001.
Terminizer -assisting mark-up of text using ontological terms, Third International Biocuration Conference, 2009. ,
Text processing through Web services: calling Whatizit, Bioinformatics, vol.24, issue.2, pp.296-298, 2008. ,
Reflect: augmented browsing for the life scientist, Nature Biotechnology, vol.27, pp.508-510, 2009. ,
Using the NCBO Web services for concept recognition and ontology annotation of expression datasets, Workshop on Semantic Web Applications and Tools for Life Sciences, SWAT4LS'09, vol.559, 2009. ,
Leveraging biomedical ontologies and annotation services to organize microbiome data from mammalian hosts, American Medical Informatics Association Annual Symposium, AMIA'10, pp.717-721, 2010. ,
MedicoPort: a medical search engine for all, Computer Methods and Programs in Biomedicine, vol.86, issue.1, pp.73-86, 2007. ,
A first look at HealthCyberMap medical semantic subject search engine, Technology and Health Care, vol.12, pp.33-41, 2004. ,
a concept-based search engine for structured biomedical text, American Medical Informatics Association, vol.14, issue.3, pp.253-263, 2007. ,
An ontology-based approach to support text mining and information retrieval in the biological domain, Special Issue on Ontologies and their Applications, vol.13, issue.12, pp.1881-1907, 2007. ,