{"id":"https://openalex.org/W2296361761","doi":"https://doi.org/10.2390/biecoll-jib-2014-247","title":"Identifying interactions between chemical entities in biomedical text","display_name":"Identifying interactions between chemical entities in biomedical text","publication_year":2014,"publication_date":"2014-01-01","ids":{"openalex":"https://openalex.org/W2296361761","doi":"https://doi.org/10.2390/biecoll-jib-2014-247","mag":"2296361761","pmid":"https://pubmed.ncbi.nlm.nih.gov/25339081"},"language":"en","primary_location":{"id":"pmid:25339081","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25339081","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":"Journal of integrative bioinformatics","raw_type":null},"type":"article","indexed_in":["datacite","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.2390/biecoll-jib-2014-247","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5024583659","display_name":"Andr\u00e9 Lam\u00farias","orcid":null},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]}],"countries":["PT"],"is_corresponding":true,"raw_author_name":"Lamurias, Andre","raw_affiliation_strings":["LaSIGE, Departamento de Inform\u00e1tica, Faculdade de Ci\u00eancias, Universidade de Lisboa, 1749-016 Lisboa, Portugal"],"affiliations":[{"raw_affiliation_string":"LaSIGE, Departamento de Inform\u00e1tica, Faculdade de Ci\u00eancias, Universidade de Lisboa, 1749-016 Lisboa, Portugal","institution_ids":["https://openalex.org/I141596103"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014333753","display_name":"Francisco M. Couto","orcid":"https://orcid.org/0000-0003-0627-1496"},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Couto, Francisco M.","raw_affiliation_strings":["LaSIGE, Departamento de Inform\u00e1tica, Faculdade de Ci\u00eancias, Universidade de Lisboa, 1749-016 Lisboa, Portugal"],"affiliations":[{"raw_affiliation_string":"LaSIGE, Departamento de Inform\u00e1tica, Faculdade de Ci\u00eancias, Universidade de Lisboa, 1749-016 Lisboa, Portugal","institution_ids":["https://openalex.org/I141596103"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5114374455","display_name":"Jo\u00e3o D. Ferreira","orcid":null},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Ferreira, Joao D.","raw_affiliation_strings":["LaSIGE, Departamento de Inform\u00e1tica, Faculdade de Ci\u00eancias, Universidade de Lisboa, 1749-016 Lisboa, Portugal"],"affiliations":[{"raw_affiliation_string":"LaSIGE, Departamento de Inform\u00e1tica, Faculdade de Ci\u00eancias, Universidade de Lisboa, 1749-016 Lisboa, Portugal","institution_ids":["https://openalex.org/I141596103"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5024583659"],"corresponding_institution_ids":["https://openalex.org/I141596103"],"apc_list":null,"apc_paid":null,"fwci":0.713,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":{"value":0.71206347,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"11","issue":"3","first_page":"247","last_page":"247"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9994999766349792,"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":0.9994999766349792,"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/T13083","display_name":"Advanced Text Analysis Techniques","score":0.9902999997138977,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9897000193595886,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8121370077133179},{"id":"https://openalex.org/keywords/classifier","display_name":"Classifier (UML)","score":0.5875611305236816},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.5628655552864075},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.5547380447387695},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4933387339115143},{"id":"https://openalex.org/keywords/relationship-extraction","display_name":"Relationship extraction","score":0.44925859570503235},{"id":"https://openalex.org/keywords/support-vector-machine","display_name":"Support vector machine","score":0.4438101649284363},{"id":"https://openalex.org/keywords/chemical-database","display_name":"Chemical database","score":0.4193716049194336},{"id":"https://openalex.org/keywords/information-extraction","display_name":"Information extraction","score":0.4113008975982666},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.4013885259628296},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.14554178714752197}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8121370077133179},{"id":"https://openalex.org/C95623464","wikidata":"https://www.wikidata.org/wiki/Q1096149","display_name":"Classifier (UML)","level":2,"score":0.5875611305236816},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.5628655552864075},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.5547380447387695},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4933387339115143},{"id":"https://openalex.org/C153604712","wikidata":"https://www.wikidata.org/wiki/Q7310755","display_name":"Relationship extraction","level":3,"score":0.44925859570503235},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.4438101649284363},{"id":"https://openalex.org/C203394866","wikidata":"https://www.wikidata.org/wiki/Q2881060","display_name":"Chemical database","level":2,"score":0.4193716049194336},{"id":"https://openalex.org/C195807954","wikidata":"https://www.wikidata.org/wiki/Q1662562","display_name":"Information extraction","level":2,"score":0.4113008975982666},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.4013885259628296},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.14554178714752197},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"score":0.0},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055598","descriptor_name":"Chemical Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055598","descriptor_name":"Chemical Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055598","descriptor_name":"Chemical Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062126","descriptor_name":"Databases, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062126","descriptor_name":"Databases, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062126","descriptor_name":"Databases, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"pmid:25339081","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25339081","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":"Journal of integrative bioinformatics","raw_type":null},{"id":"pmh:oai:biecoll.ub.uni-bielefeld.de:5338","is_oa":false,"landing_page_url":"http://biecoll.ub.uni-bielefeld.de/volltexte/2014/5338/","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://journal.imbio.de/article.php?aid=247","raw_type":"Journal Article"},{"id":"doi:10.2390/biecoll-jib-2014-247","is_oa":true,"landing_page_url":"https://doi.org/10.2390/biecoll-jib-2014-247","pdf_url":null,"source":{"id":"https://openalex.org/S4306401670","display_name":"PUB \u2013 Publications at Bielefeld University (Bielefeld University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I20121455","host_organization_name":"Bielefeld University","host_organization_lineage":["https://openalex.org/I20121455"],"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:10.2390/biecoll-jib-2014-247","is_oa":true,"landing_page_url":"https://doi.org/10.2390/biecoll-jib-2014-247","pdf_url":null,"source":{"id":"https://openalex.org/S4306401670","display_name":"PUB \u2013 Publications at Bielefeld University (Bielefeld University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I20121455","host_organization_name":"Bielefeld University","host_organization_lineage":["https://openalex.org/I20121455"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article-journal"},"sustainable_development_goals":[{"score":0.6600000262260437,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":35,"referenced_works":["https://openalex.org/W122290181","https://openalex.org/W128719466","https://openalex.org/W224064951","https://openalex.org/W310446404","https://openalex.org/W1493270114","https://openalex.org/W1574862351","https://openalex.org/W1576520375","https://openalex.org/W1980948656","https://openalex.org/W1981082061","https://openalex.org/W2002474413","https://openalex.org/W2003458432","https://openalex.org/W2006636719","https://openalex.org/W2015999313","https://openalex.org/W2038956475","https://openalex.org/W2046747418","https://openalex.org/W2049240985","https://openalex.org/W2087035995","https://openalex.org/W2096765155","https://openalex.org/W2097606805","https://openalex.org/W2099100406","https://openalex.org/W2101234009","https://openalex.org/W2128438887","https://openalex.org/W2133208308","https://openalex.org/W2135192531","https://openalex.org/W2140611297","https://openalex.org/W2147218300","https://openalex.org/W2147880316","https://openalex.org/W2148488766","https://openalex.org/W2153635508","https://openalex.org/W2170189740","https://openalex.org/W2213189003","https://openalex.org/W2250713895","https://openalex.org/W2251104810","https://openalex.org/W2251756410","https://openalex.org/W2429914308"],"related_works":["https://openalex.org/W3107474891","https://openalex.org/W2081647779","https://openalex.org/W2368651715","https://openalex.org/W1828821159","https://openalex.org/W2467683310","https://openalex.org/W2293477903","https://openalex.org/W2187500075","https://openalex.org/W2041636156","https://openalex.org/W2165943689","https://openalex.org/W2160451891"],"abstract_inverted_index":{"Interactions":[0,28],"between":[1,29],"chemical":[2,35,96],"compounds":[3],"described":[4,37],"in":[5,38],"biomedical":[6],"text":[7],"can":[8],"be":[9],"of":[10,58,76,88],"great":[11],"importance":[12],"to":[13,33,82],"drug":[14],"discovery":[15],"and":[16,48,54,101],"design,":[17],"as":[18,20,107],"well":[19],"pharmacovigilance.":[21],"We":[22,90],"developed":[23],"a":[24,108],"novel":[25],"system,":[26],"\\&quot;Identifying":[27],"Chemical":[30],"Entities\\&quot;":[31],"(IICE),":[32],"identify":[34,45],"interactions":[36,47],"text.":[39],"Kernel-based":[40],"Support":[41],"Vector":[42],"Machines":[43],"first":[44],"the":[46,56,68,72,103],"then":[49],"an":[50],"ensemble":[51],"classifier":[52],"validates":[53],"classifies":[55],"type":[57,87],"each":[59],"interaction.":[60],"This":[61],"relation":[62],"extraction":[63],"module":[64,93,100],"was":[65],"evaluated":[66],"with":[67,94],"corpus":[69],"released":[70],"for":[71,85],"DDI":[73],"Extraction":[74],"task":[75],"SemEval":[77],"2013,":[78],"obtaining":[79],"results":[80],"comparable":[81],"state-of-the-art":[83],"methods":[84],"this":[86,92],"task.":[89],"integrated":[91],"our":[95],"named":[97],"entity":[98],"recognition":[99],"made":[102],"whole":[104],"system":[105],"available":[106],"web":[109],"tool":[110],"at":[111],"www.lasige.di.fc.ul.pt/webtools/iice.":[112]},"counts_by_year":[{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":2}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
