{"id":"https://openalex.org/W3013678667","doi":"https://doi.org/10.1186/s12859-020-3375-3","title":"Knowledge-enhanced biomedical named entity recognition and normalization: application to proteins and genes","display_name":"Knowledge-enhanced biomedical named entity recognition and normalization: application to proteins and genes","publication_year":2020,"publication_date":"2020-01-30","ids":{"openalex":"https://openalex.org/W3013678667","doi":"https://doi.org/10.1186/s12859-020-3375-3","mag":"3013678667","pmid":"https://pubmed.ncbi.nlm.nih.gov/32000677"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-020-3375-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-3375-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-3375-3.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-3375-3.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5047668953","display_name":"Huiwei Zhou","orcid":"https://orcid.org/0000-0002-7766-4177"},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]},{"id":"https://openalex.org/I4210092944","display_name":"Dalian University","ror":"https://ror.org/00g2ypp58","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210092944"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Huiwei Zhou","raw_affiliation_strings":["School of Computer Science and Technology, Dalian University of Technology, Chuangxinyuan Building, No.2 Linggong Road, Ganjingzi District, Dalian, 116024, Liaoning, China. zhouhuiwei@dlut.edu.cn","School of Computer Science and Technology, Dalian University of Technology, Chuangxinyuan Building, No.2 Linggong Road, Ganjingzi District, Dalian, 116024, Liaoning, China"],"raw_orcid":"https://orcid.org/0000-0002-7766-4177","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Dalian University of Technology, Chuangxinyuan Building, No.2 Linggong Road, Ganjingzi District, Dalian, 116024, Liaoning, China. zhouhuiwei@dlut.edu.cn","institution_ids":["https://openalex.org/I27357992","https://openalex.org/I4210092944"]},{"raw_affiliation_string":"School of Computer Science and Technology, Dalian University of Technology, Chuangxinyuan Building, No.2 Linggong Road, Ganjingzi District, Dalian, 116024, Liaoning, China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046375939","display_name":"Shixian Ning","orcid":null},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shixian Ning","raw_affiliation_strings":["School of Computer Science and Technology, Dalian University of Technology, Chuangxinyuan Building, No.2 Linggong Road, Ganjingzi District, Dalian, 116024, Liaoning, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Dalian University of Technology, Chuangxinyuan Building, No.2 Linggong Road, Ganjingzi District, Dalian, 116024, Liaoning, China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100462338","display_name":"Zhe Liu","orcid":"https://orcid.org/0000-0001-6753-0303"},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhe Liu","raw_affiliation_strings":["School of Computer Science and Technology, Dalian University of Technology, Chuangxinyuan Building, No.2 Linggong Road, Ganjingzi District, Dalian, 116024, Liaoning, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Dalian University of Technology, Chuangxinyuan Building, No.2 Linggong Road, Ganjingzi District, Dalian, 116024, Liaoning, China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049170419","display_name":"Chengkun Lang","orcid":null},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chengkun Lang","raw_affiliation_strings":["School of Computer Science and Technology, Dalian University of Technology, Chuangxinyuan Building, No.2 Linggong Road, Ganjingzi District, Dalian, 116024, Liaoning, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Dalian University of Technology, Chuangxinyuan Building, No.2 Linggong Road, Ganjingzi District, Dalian, 116024, Liaoning, China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100452103","display_name":"Zhuang Liu","orcid":"https://orcid.org/0000-0003-1052-7626"},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhuang Liu","raw_affiliation_strings":["School of Computer Science and Technology, Dalian University of Technology, Chuangxinyuan Building, No.2 Linggong Road, Ganjingzi District, Dalian, 116024, Liaoning, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Dalian University of Technology, Chuangxinyuan Building, No.2 Linggong Road, Ganjingzi District, Dalian, 116024, Liaoning, China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5054608759","display_name":"Bizun Lei","orcid":null},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Bizun Lei","raw_affiliation_strings":["School of Computer Science and Technology, Dalian University of Technology, Chuangxinyuan Building, No.2 Linggong Road, Ganjingzi District, Dalian, 116024, Liaoning, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Dalian University of Technology, Chuangxinyuan Building, No.2 Linggong Road, Ganjingzi District, Dalian, 116024, Liaoning, China","institution_ids":["https://openalex.org/I27357992"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5047668953"],"corresponding_institution_ids":["https://openalex.org/I27357992","https://openalex.org/I4210092944"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":1.4911,"has_fulltext":true,"cited_by_count":27,"citation_normalized_percentile":{"value":0.8198104,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":98},"biblio":{"volume":"21","issue":"1","first_page":"35","last_page":"35"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.8291000127792358,"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":0.8291000127792358,"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/T10028","display_name":"Topic Modeling","score":0.12470000237226486,"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/T11642","display_name":"Genomics and Rare Diseases","score":0.01850000023841858,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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":0.806066632270813},{"id":"https://openalex.org/keywords/named-entity-recognition","display_name":"Named-entity recognition","score":0.7757770419120789},{"id":"https://openalex.org/keywords/identifier","display_name":"Identifier","score":0.70871901512146},{"id":"https://openalex.org/keywords/normalization","display_name":"Normalization (sociology)","score":0.6828883290290833},{"id":"https://openalex.org/keywords/entity-linking","display_name":"Entity linking","score":0.6569463014602661},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.6249779462814331},{"id":"https://openalex.org/keywords/ambiguity","display_name":"Ambiguity","score":0.6082268953323364},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5770519971847534},{"id":"https://openalex.org/keywords/named-entity","display_name":"Named entity","score":0.5731465220451355},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3939768970012665},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.3654874563217163},{"id":"https://openalex.org/keywords/knowledge-base","display_name":"Knowledge base","score":0.3524746894836426}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.806066632270813},{"id":"https://openalex.org/C2779135771","wikidata":"https://www.wikidata.org/wiki/Q403574","display_name":"Named-entity recognition","level":3,"score":0.7757770419120789},{"id":"https://openalex.org/C154504017","wikidata":"https://www.wikidata.org/wiki/Q853614","display_name":"Identifier","level":2,"score":0.70871901512146},{"id":"https://openalex.org/C136886441","wikidata":"https://www.wikidata.org/wiki/Q926129","display_name":"Normalization (sociology)","level":2,"score":0.6828883290290833},{"id":"https://openalex.org/C96711827","wikidata":"https://www.wikidata.org/wiki/Q17012245","display_name":"Entity linking","level":3,"score":0.6569463014602661},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.6249779462814331},{"id":"https://openalex.org/C2780522230","wikidata":"https://www.wikidata.org/wiki/Q1140419","display_name":"Ambiguity","level":2,"score":0.6082268953323364},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5770519971847534},{"id":"https://openalex.org/C2777889803","wikidata":"https://www.wikidata.org/wiki/Q25047676","display_name":"Named entity","level":2,"score":0.5731465220451355},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3939768970012665},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.3654874563217163},{"id":"https://openalex.org/C4554734","wikidata":"https://www.wikidata.org/wiki/Q593744","display_name":"Knowledge base","level":2,"score":0.3524746894836426},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C19165224","wikidata":"https://www.wikidata.org/wiki/Q23404","display_name":"Anthropology","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","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}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-020-3375-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-3375-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-3375-3.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:32000677","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32000677","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:447b356433714aef9b96fcbb8b48d403","is_oa":false,"landing_page_url":"https://doaj.org/article/447b356433714aef9b96fcbb8b48d403","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":"BMC Bioinformatics, Vol 21, Iss 1, Pp 1-15 (2020)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:6990512","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6990512","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-020-3375-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-3375-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-3375-3.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/4","display_name":"Quality Education","score":0.44999998807907104}],"awards":[{"id":"https://openalex.org/G1686953038","display_name":"\u57fa\u4e8e\u77e5\u8bc6\u5e93\u548c\u6df1\u5ea6\u5b66\u4e60\u7684\u751f\u7269\u533b\u5b66\u5b9e\u4f53\u5173\u7cfb\u62bd\u53d6\u7814\u7a76","funder_award_id":"61772109","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7333014327","display_name":null,"funder_award_id":"17YJA740076","funder_id":"https://openalex.org/F4320321106","funder_display_name":"Ministry of Education of the People's Republic of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320321106","display_name":"Ministry of Education of the People's Republic of China","ror":"https://ror.org/01mv9t934"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3013678667.pdf","grobid_xml":"https://content.openalex.org/works/W3013678667.grobid-xml"},"referenced_works_count":32,"referenced_works":["https://openalex.org/W192665053","https://openalex.org/W1532940542","https://openalex.org/W1610821757","https://openalex.org/W1964189668","https://openalex.org/W1991133427","https://openalex.org/W2020541351","https://openalex.org/W2095691234","https://openalex.org/W2130545421","https://openalex.org/W2146502635","https://openalex.org/W2154139219","https://openalex.org/W2156235098","https://openalex.org/W2160022416","https://openalex.org/W2169491861","https://openalex.org/W2252051187","https://openalex.org/W2296283641","https://openalex.org/W2414378847","https://openalex.org/W2527896214","https://openalex.org/W2537623931","https://openalex.org/W2542020674","https://openalex.org/W2606932501","https://openalex.org/W2740887992","https://openalex.org/W2763990719","https://openalex.org/W2769387903","https://openalex.org/W2857028992","https://openalex.org/W2880875857","https://openalex.org/W2890531203","https://openalex.org/W2950910987","https://openalex.org/W2952465807","https://openalex.org/W2962902328","https://openalex.org/W2963863453","https://openalex.org/W4229756444","https://openalex.org/W4244006029"],"related_works":["https://openalex.org/W2186562580","https://openalex.org/W2032007337","https://openalex.org/W2155874911","https://openalex.org/W2593907245","https://openalex.org/W4255258373","https://openalex.org/W1884363728","https://openalex.org/W3000685722","https://openalex.org/W4253099099","https://openalex.org/W4386977977","https://openalex.org/W4313162113"],"abstract_inverted_index":{"BACKGROUND:":[0],"Automated":[1],"biomedical":[2,32,80],"named":[3,61],"entity":[4,29,33,45,62,75,88,112,177,188],"recognition":[5,63],"and":[6,28,38,65,100,156,179,195,198],"normalization":[7,66],"serves":[8],"as":[9,102],"the":[10,50,91,140,193],"basis":[11],"for":[12,59,110,131,154,159,209],"many":[13],"downstream":[14],"applications":[15],"in":[16,206],"information":[17,134,205],"management.":[18],"However,":[19],"this":[20],"task":[21,197],"is":[22,83,98,190],"challenging":[23],"due":[24],"to":[25,85,163,192],"name":[26,76],"variations":[27],"ambiguity.":[30],"A":[31],"may":[34],"have":[35],"multiple":[36],"variants":[37],"a":[39,55,71,164,171],"variant":[40],"could":[41],"denote":[42],"several":[43],"different":[44],"identifiers.":[46],"RESULTS:":[47],"To":[48],"remedy":[49],"above":[51],"issues,":[52],"we":[53],"present":[54],"novel":[56],"knowledge-enhanced":[57,129,149,172],"system":[58,130,150,173,208],"protein/gene":[60],"(PNER)":[64],"(PNEN).":[67],"On":[68,90],"one":[69],"hand,":[70,93],"large":[72],"amount":[73],"of":[74,96,135],"knowledge":[77,81,95,178,189],"extracted":[78,99],"from":[79],"bases":[82],"used":[84,109],"recognize":[86],"more":[87],"variants.":[89],"other":[92],"structural":[94],"entities":[97],"encoded":[101],"identifier":[103],"(ID)":[104],"embeddings,":[105],"which":[106],"are":[107,124],"then":[108],"better":[111],"normalization.":[113],"Moreover,":[114],"deep":[115,180],"contextualized":[116,181,204],"word":[117,182],"representations":[118],"generated":[119],"by":[120],"pre-trained":[121],"language":[122],"models":[123],"also":[125],"incorporated":[126],"into":[127],"our":[128,147,207],"modeling":[132],"multi-sense":[133],"entities.":[136],"Experimental":[137],"results":[138,185],"on":[139],"BioCreative":[141],"VI":[142],"Bio-ID":[143],"corpus":[144],"show":[145,186],"that":[146,174,187],"proposed":[148],"achieves":[151],"0.871":[152],"F1-score":[153,158],"PNER":[155,194],"0.445":[157],"PNEN,":[160],"respectively,":[161],"leading":[162],"new":[165],"state-of-the-art":[166],"performance.":[167],"CONCLUSIONS:":[168],"We":[169],"propose":[170],"combines":[175],"both":[176],"representations.":[183],"Comparison":[184],"beneficial":[191],"PNEN":[196],"can":[199],"be":[200],"well":[201],"combined":[202],"with":[203],"further":[210],"improvement.":[211]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":6},{"year":2021,"cited_by_count":6},{"year":2020,"cited_by_count":2}],"updated_date":"2026-07-29T09:40:50.615796","created_date":"2025-10-10T00:00:00"}
