{"id":"https://openalex.org/W2251680347","doi":"https://doi.org/10.18653/v1/w15-3805","title":"Extracting Biological Pathway Models From NLP Event Representations","display_name":"Extracting Biological Pathway Models From NLP Event Representations","publication_year":2015,"publication_date":"2015-01-01","ids":{"openalex":"https://openalex.org/W2251680347","doi":"https://doi.org/10.18653/v1/w15-3805","mag":"2251680347"},"language":"en","primary_location":{"id":"doi:10.18653/v1/w15-3805","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/w15-3805","pdf_url":"https://www.aclweb.org/anthology/W15-3805.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of BioNLP 15","raw_type":"proceedings-article"},"type":"preprint","indexed_in":["arxiv","crossref","datacite"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.aclweb.org/anthology/W15-3805.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5054853643","display_name":"Michael Spranger","orcid":"https://orcid.org/0000-0002-6780-0841"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Michael Spranger","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070784871","display_name":"Sucheendra K. Palaniappan","orcid":"https://orcid.org/0000-0002-2829-2311"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Sucheendra Palaniappan","raw_affiliation_strings":["French Institute for Research in Computer Science and Automation"],"affiliations":[{"raw_affiliation_string":"French Institute for Research in Computer Science and Automation","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101748369","display_name":"Samik Ghosh","orcid":"https://orcid.org/0000-0002-0239-5400"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Samik Ghosh","raw_affiliation_strings":[],"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5054853643"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.14442643,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.59059138,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"42","last_page":"51"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9958000183105469,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9958000183105469,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9943000078201294,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9936000108718872,"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/sbml","display_name":"SBML","score":0.914681613445282},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7087282538414001},{"id":"https://openalex.org/keywords/event","display_name":"Event (particle physics)","score":0.6392035484313965},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.613937258720398},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.5819734930992126},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5626325011253357},{"id":"https://openalex.org/keywords/open-source","display_name":"Open source","score":0.5504704713821411},{"id":"https://openalex.org/keywords/open-source-software","display_name":"Open source software","score":0.42444276809692383},{"id":"https://openalex.org/keywords/markup-language","display_name":"Markup language","score":0.35377609729766846},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.27768775820732117},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.1308305561542511},{"id":"https://openalex.org/keywords/xml","display_name":"XML","score":0.06750562787055969}],"concepts":[{"id":"https://openalex.org/C87186988","wikidata":"https://www.wikidata.org/wiki/Q452197","display_name":"SBML","level":4,"score":0.914681613445282},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7087282538414001},{"id":"https://openalex.org/C2779662365","wikidata":"https://www.wikidata.org/wiki/Q5416694","display_name":"Event (particle physics)","level":2,"score":0.6392035484313965},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.613937258720398},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.5819734930992126},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5626325011253357},{"id":"https://openalex.org/C3018397939","wikidata":"https://www.wikidata.org/wiki/Q3644502","display_name":"Open source","level":3,"score":0.5504704713821411},{"id":"https://openalex.org/C2988343187","wikidata":"https://www.wikidata.org/wiki/Q1130645","display_name":"Open source software","level":3,"score":0.42444276809692383},{"id":"https://openalex.org/C45874996","wikidata":"https://www.wikidata.org/wiki/Q37045","display_name":"Markup language","level":3,"score":0.35377609729766846},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.27768775820732117},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.1308305561542511},{"id":"https://openalex.org/C8797682","wikidata":"https://www.wikidata.org/wiki/Q2115","display_name":"XML","level":2,"score":0.06750562787055969},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.18653/v1/w15-3805","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/w15-3805","pdf_url":"https://www.aclweb.org/anthology/W15-3805.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of BioNLP 15","raw_type":"proceedings-article"},{"id":"pmh:oai:arXiv.org:1608.03764","is_oa":true,"landing_page_url":"http://arxiv.org/abs/1608.03764","pdf_url":"https://arxiv.org/pdf/1608.03764","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"text"},{"id":"mag:2251680347","is_oa":true,"landing_page_url":"https://arxiv.org/pdf/1608.03764.pdf","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"arXiv (Cornell University)","raw_type":null},{"id":"doi:10.48550/arxiv.1608.03764","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.1608.03764","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.18653/v1/w15-3805","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/w15-3805","pdf_url":"https://www.aclweb.org/anthology/W15-3805.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of BioNLP 15","raw_type":"proceedings-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/17","score":0.46000000834465027,"display_name":"Partnerships for the goals"}],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2251680347.pdf","grobid_xml":"https://content.openalex.org/works/W2251680347.grobid-xml"},"referenced_works_count":13,"referenced_works":["https://openalex.org/W76749362","https://openalex.org/W1634950984","https://openalex.org/W1946371345","https://openalex.org/W1969709265","https://openalex.org/W2020561965","https://openalex.org/W2038264484","https://openalex.org/W2069157810","https://openalex.org/W2129592938","https://openalex.org/W2150908245","https://openalex.org/W2165372747","https://openalex.org/W2171283231","https://openalex.org/W2179494026","https://openalex.org/W2916355958"],"related_works":["https://openalex.org/W2963225424","https://openalex.org/W1966387099","https://openalex.org/W2066575420","https://openalex.org/W2044509304","https://openalex.org/W2187198735","https://openalex.org/W2144087930","https://openalex.org/W1597403892","https://openalex.org/W2150928200","https://openalex.org/W2114904907","https://openalex.org/W2518799045","https://openalex.org/W2095724153","https://openalex.org/W3013878148","https://openalex.org/W2777210255","https://openalex.org/W3080133182","https://openalex.org/W2152827261","https://openalex.org/W2465447782","https://openalex.org/W2026725606","https://openalex.org/W1547448010","https://openalex.org/W2161441225","https://openalex.org/W2777751619"],"abstract_inverted_index":{"This":[0],"paper":[1],"describes":[2],"an":[3,4],"open-source":[5],"software":[6],"system":[7,17,44],"for":[8,43],"the":[9,39],"automatic":[10],"conversion":[11],"of":[12,31,38],"NLP":[13,40],"event":[14],"representations":[15],"to":[16,35],"biology":[18,45],"structured":[19],"data":[20],"interchange":[21],"formats":[22],"such":[23],"as":[24],"SBML":[25],"and":[26],"BioPAX.":[27],"It":[28],"is":[29],"part":[30],"a":[32],"larger":[33],"effort":[34],"make":[36],"results":[37],"community":[41],"available":[42],"pathway":[46],"modelers.":[47]},"counts_by_year":[{"year":2015,"cited_by_count":1}],"updated_date":"2026-02-09T09:26:11.010843","created_date":"2025-10-10T00:00:00"}
