{"id":"https://openalex.org/W2100352075","doi":"https://doi.org/10.1093/bioinformatics/btq169","title":"Computing biological functions using Bio\u03a8, a formal description of biological processes based on elementary bricks of actions","display_name":"Computing biological functions using Bio\u03a8, a formal description of biological processes based on elementary bricks of actions","publication_year":2010,"publication_date":"2010-05-06","ids":{"openalex":"https://openalex.org/W2100352075","doi":"https://doi.org/10.1093/bioinformatics/btq169","mag":"2100352075","pmid":"https://pubmed.ncbi.nlm.nih.gov/20448138"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btq169","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq169","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/12/1542/16893184/btq169.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/26/12/1542/16893184/btq169.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5059417503","display_name":"Sabine P\u00e9r\u00e8s","orcid":"https://orcid.org/0000-0002-4467-9989"},"institutions":[{"id":"https://openalex.org/I4210152316","display_name":"Mod\u00e9lisation et Ing\u00e9nierie des Syst\u00e8mes Complexes Biologiques pour le Diagnostic","ror":"https://ror.org/056mmjd70","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I4210096427","https://openalex.org/I4210152316","https://openalex.org/I4210166450"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Sabine P\u00e9r\u00e8s","raw_affiliation_strings":["Sysdiag CNRS Bio-Rad UMR 3145, Cap delta/Parc eurom\u00e9decine, 1682 rue de la Valsi\u00e8re CS 61003, 34184 Montpellier Cedex 4, France"],"affiliations":[{"raw_affiliation_string":"Sysdiag CNRS Bio-Rad UMR 3145, Cap delta/Parc eurom\u00e9decine, 1682 rue de la Valsi\u00e8re CS 61003, 34184 Montpellier Cedex 4, France","institution_ids":["https://openalex.org/I4210152316","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055089076","display_name":"Liza Felicori","orcid":"https://orcid.org/0000-0002-3240-9658"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210152316","display_name":"Mod\u00e9lisation et Ing\u00e9nierie des Syst\u00e8mes Complexes Biologiques pour le Diagnostic","ror":"https://ror.org/056mmjd70","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I4210096427","https://openalex.org/I4210152316","https://openalex.org/I4210166450"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Liza Felicori","raw_affiliation_strings":["Sysdiag CNRS Bio-Rad UMR 3145, Cap delta/Parc eurom\u00e9decine, 1682 rue de la Valsi\u00e8re CS 61003, 34184 Montpellier Cedex 4, France"],"affiliations":[{"raw_affiliation_string":"Sysdiag CNRS Bio-Rad UMR 3145, Cap delta/Parc eurom\u00e9decine, 1682 rue de la Valsi\u00e8re CS 61003, 34184 Montpellier Cedex 4, France","institution_ids":["https://openalex.org/I4210152316","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108145729","display_name":"St\u00e9phanie Rialle","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210152316","display_name":"Mod\u00e9lisation et Ing\u00e9nierie des Syst\u00e8mes Complexes Biologiques pour le Diagnostic","ror":"https://ror.org/056mmjd70","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I4210096427","https://openalex.org/I4210152316","https://openalex.org/I4210166450"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"St\u00e9phanie Rialle","raw_affiliation_strings":["Sysdiag CNRS Bio-Rad UMR 3145, Cap delta/Parc eurom\u00e9decine, 1682 rue de la Valsi\u00e8re CS 61003, 34184 Montpellier Cedex 4, France"],"affiliations":[{"raw_affiliation_string":"Sysdiag CNRS Bio-Rad UMR 3145, Cap delta/Parc eurom\u00e9decine, 1682 rue de la Valsi\u00e8re CS 61003, 34184 Montpellier Cedex 4, France","institution_ids":["https://openalex.org/I4210152316","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074939683","display_name":"\u00c9lodie Jobard","orcid":null},"institutions":[{"id":"https://openalex.org/I4210152316","display_name":"Mod\u00e9lisation et Ing\u00e9nierie des Syst\u00e8mes Complexes Biologiques pour le Diagnostic","ror":"https://ror.org/056mmjd70","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I4210096427","https://openalex.org/I4210152316","https://openalex.org/I4210166450"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Elodie Jobard","raw_affiliation_strings":["Sysdiag CNRS Bio-Rad UMR 3145, Cap delta/Parc eurom\u00e9decine, 1682 rue de la Valsi\u00e8re CS 61003, 34184 Montpellier Cedex 4, France"],"affiliations":[{"raw_affiliation_string":"Sysdiag CNRS Bio-Rad UMR 3145, Cap delta/Parc eurom\u00e9decine, 1682 rue de la Valsi\u00e8re CS 61003, 34184 Montpellier Cedex 4, France","institution_ids":["https://openalex.org/I4210152316","https://openalex.org/I1294671590"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5070559991","display_name":"Franck Molina","orcid":"https://orcid.org/0000-0003-4181-0854"},"institutions":[{"id":"https://openalex.org/I4210152316","display_name":"Mod\u00e9lisation et Ing\u00e9nierie des Syst\u00e8mes Complexes Biologiques pour le Diagnostic","ror":"https://ror.org/056mmjd70","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I4210096427","https://openalex.org/I4210152316","https://openalex.org/I4210166450"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Franck Molina","raw_affiliation_strings":["Sysdiag CNRS Bio-Rad UMR 3145, Cap delta/Parc eurom\u00e9decine, 1682 rue de la Valsi\u00e8re CS 61003, 34184 Montpellier Cedex 4, France"],"affiliations":[{"raw_affiliation_string":"Sysdiag CNRS Bio-Rad UMR 3145, Cap delta/Parc eurom\u00e9decine, 1682 rue de la Valsi\u00e8re CS 61003, 34184 Montpellier Cedex 4, France","institution_ids":["https://openalex.org/I4210152316","https://openalex.org/I1294671590"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5059417503"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I4210152316"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.4066,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.63551044,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"26","issue":"12","first_page":"1542","last_page":"1547"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9966999888420105,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9966999888420105,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11445","display_name":"Origins and Evolution of Life","score":0.9667999744415283,"subfield":{"id":"https://openalex.org/subfields/3103","display_name":"Astronomy and Astrophysics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.963100016117096,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6318283677101135},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.3534129559993744}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6318283677101135},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.3534129559993744}],"mesh":[{"descriptor_ui":"D001686","descriptor_name":"Biological Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001686","descriptor_name":"Biological Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001686","descriptor_name":"Biological Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006019","descriptor_name":"Glycolysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006019","descriptor_name":"Glycolysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006019","descriptor_name":"Glycolysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010447","descriptor_name":"Peptide Hydrolases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010447","descriptor_name":"Peptide Hydrolases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010447","descriptor_name":"Peptide Hydrolases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010447","descriptor_name":"Peptide Hydrolases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010447","descriptor_name":"Peptide Hydrolases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010447","descriptor_name":"Peptide Hydrolases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btq169","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq169","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/12/1542/16893184/btq169.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:20448138","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20448138","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:HAL:hal-04814816v1","is_oa":false,"landing_page_url":"https://hal.science/hal-04814816","pdf_url":null,"source":{"id":"https://openalex.org/S4406922466","display_name":"SPIRE - Sciences Po Institutional REpository","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 2010, 26 (12), pp.1542-1547. &#x27E8;10.1093/bioinformatics/btq169&#x27E9;","raw_type":"Journal articles"},{"id":"pmh:oai:pubmedcentral.nih.gov:2881354","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2881354","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btq169","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq169","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/12/1542/16893184/btq169.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2100352075.pdf","grobid_xml":"https://content.openalex.org/works/W2100352075.grobid-xml"},"referenced_works_count":27,"referenced_works":["https://openalex.org/W291482096","https://openalex.org/W326800184","https://openalex.org/W1516795945","https://openalex.org/W1518298189","https://openalex.org/W1523525039","https://openalex.org/W1527927437","https://openalex.org/W1975954590","https://openalex.org/W1990056477","https://openalex.org/W2001481445","https://openalex.org/W2001964005","https://openalex.org/W2007006124","https://openalex.org/W2018045523","https://openalex.org/W2019619327","https://openalex.org/W2038264484","https://openalex.org/W2059991714","https://openalex.org/W2066468520","https://openalex.org/W2068180443","https://openalex.org/W2099039198","https://openalex.org/W2105941683","https://openalex.org/W2119510512","https://openalex.org/W2121149194","https://openalex.org/W2136134567","https://openalex.org/W2141885858","https://openalex.org/W2162853466","https://openalex.org/W4210323379","https://openalex.org/W4240605432","https://openalex.org/W6644400803"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2478288626","https://openalex.org/W2350741829","https://openalex.org/W2530322880","https://openalex.org/W1596801655"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2018,"cited_by_count":1},{"year":2013,"cited_by_count":2}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
