{"doi":"10.1038/npre.2009.3517.2","title":"Practical experiences in concurrent, collaborative ontology building using Collaborative Protégé","abstract":"<jats:title>Abstract</jats:title><jats:p>Creation of an ontology according to some common plan is best accomplished collaboratively. This is sometimes contradicted by the distribution of the ontology’s developers. An obvious solution therefore is to build collaboration into ontology development tools. Such support necessarily includes both the technical means to perform editing operations upon an ontology, but also support for the communication that makes collaboration such a vital part of much ontology development. To investigate the distributed, collaborative ontology engineering process and the corresponding capabilities of the Collaborative Protege 3 (CP) tool, members of the OntoGenesis network came together and enriched the Ontology of Biomedical Investigations (OBI) with new content. The communications and interactions of the participants with each other, directly or through the tool, were tracked and analyzed. Our initial analysis of the degree to which this new tool fulfills the practical requirements of collaborative ontology engineering suggests the approach is promising. We present some observations and recommendations for CP based upon this experience.</jats:p>","journal":"Nature Precedings","year":2009,"id":590438,"datarank":0.3712724569601169,"base_score":1.6094379124341003,"endowment":1.6094379124341003,"self_citation_contribution":0.24141568686511508,"citation_network_contribution":0.1298567700950018,"self_endowment_contribution":0.24141568686511508,"citer_contribution":0.1298567700950018,"corpus_percentile":null,"corpus_rank":null,"citation_count":4,"citer_count":4,"citers_with_citation_signal":4,"citers_with_endowment":4,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":null,"is_data_producer":false,"deposit_databanks":null,"is_oa":false,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":null,"fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":19113,"name":"James Malone","orcid":"0000-0002-1615-2899","position":1,"is_corresponding":false},{"id":49287,"name":"Robert Stevens","orcid":"0000-0002-6038-9025","position":2,"is_corresponding":false},{"id":6390,"name":"Daniel Schober","orcid":"0000-0001-8014-6648","position":0,"is_corresponding":false}],"reference_count":0,"raw_metadata":{"has_enrichment":true,"resolved":true,"title":"Practical experiences in concurrent, collaborative ontology building using Collaborative Protégé","abstract":"<jats:title>Abstract</jats:title><jats:p>Creation of an ontology according to some common plan is best accomplished collaboratively. This is sometimes contradicted by the distribution of the ontology’s developers. An obvious solution therefore is to build collaboration into ontology development tools. Such support necessarily includes both the technical means to perform editing operations upon an ontology, but also support for the communication that makes collaboration such a vital part of much ontology development. To investigate the distributed, collaborative ontology engineering process and the corresponding capabilities of the Collaborative Protege 3 (CP) tool, members of the OntoGenesis network came together and enriched the Ontology of Biomedical Investigations (OBI) with new content. The communications and interactions of the participants with each other, directly or through the tool, were tracked and analyzed. Our initial analysis of the degree to which this new tool fulfills the practical requirements of collaborative ontology engineering suggests the approach is promising. We present some observations and recommendations for CP based upon this experience.</jats:p>","is_dataset_classified":null,"base_score":1.6094379124341003,"endowment":1.6094379124341003,"datacite_reuse_total":0,"file_count":0,"downloads":0,"views":0,"has_version_chain":false,"is_dataset":false,"is_oa":false,"pmid":"26657633","pmcid":null,"openalex_id":"https://openalex.org/W1885336500","authors":[],"funders":[{"funder_name":"European Commission","grant_id":"217139","title":"Detecting and Eliminating Bacteria UsinG Information Technologies"},{"funder_name":"UK Research and Innovation","grant_id":"EP/E021352/1","title":"THE ONTOGENESIS NETWORK - A network of excellence to foster the creation, ontogeny and evolution of biological, bioinformatics and medical ontologies"}],"total_grants":2,"fwci":null,"citation_percentile":null,"influential_citations":0,"citation_trend":[{"year":2013,"count":2},{"year":2018,"count":1}],"oa_status":"gold","license":"cc-by","oa_locations":[{"url":"https://doi.org/10.1038/npre.2009.3517.2","host_type":"journal"},{"url":"https://doi.org/10.1038/npre.2009.3517.2","host_type":"publisher"},{"url":"https://www.nature.com/articles/npre.2009.3517.2.pdf","host_type":"publisher"},{"url":"https://www.nature.com/articles/npre.2009.3517.2","host_type":"publisher"},{"url":"https://research.manchester.ac.uk/en/publications/ee28822b-35d5-4ea8-a4c0-8cd88ed574fc","host_type":"repository"},{"url":"https://doi.org/10.1038/npre.2009.3517.1","host_type":""},{"url":"https://dx.doi.org/10.1038/npre.2009.3517.2","host_type":""},{"url":"http://icbo.buffalo.edu/Proceedings.pdf","host_type":""}],"fields_of_study":["Semantic Web and Ontologies","Biomedical Text Mining and Ontologies","Wikis in Education and Collaboration","0202 electrical engineering, electronic engineering, information engineering","02 engineering and technology"],"mesh_terms":[],"keywords":["Protégé","Ontology","Computer science","Process ontology","Ontology engineering","Ontology-based data integration","Upper ontology","Suggested Upper Merged Ontology","Process (computing)","World Wide Web","Software engineering","Semantic Web"],"sdg_mappings":[{"sdg_number":0,"sdg_label":"Partnerships for the goals"}],"linked_datasets":[],"clinical_trials":[],"software_tools":[],"database_accessions":[],"source":"live","citation_network_status":"fetched"},"created_at":"2026-07-24T21:18:31.390698Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}