{"id":"https://openalex.org/W2913332478","doi":"https://doi.org/10.1109/bibm.2018.8621446","title":"A Hybrid Deep Learning Framework for Bacterial Named Entity Recognition","display_name":"A Hybrid Deep Learning Framework for Bacterial Named Entity Recognition","publication_year":2018,"publication_date":"2018-12-01","ids":{"openalex":"https://openalex.org/W2913332478","doi":"https://doi.org/10.1109/bibm.2018.8621446","mag":"2913332478"},"language":"en","primary_location":{"id":"doi:10.1109/bibm.2018.8621446","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2018.8621446","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2018 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100709608","display_name":"Xusheng Li","orcid":"https://orcid.org/0000-0003-3339-685X"},"institutions":[{"id":"https://openalex.org/I40963666","display_name":"Central China Normal University","ror":"https://ror.org/03x1jna21","country_code":"CN","type":"education","lineage":["https://openalex.org/I40963666"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xusheng Li","raw_affiliation_strings":["School of Computer, Central China Normal University, Wuhan, Hubei, China"],"affiliations":[{"raw_affiliation_string":"School of Computer, Central China Normal University, Wuhan, Hubei, China","institution_ids":["https://openalex.org/I40963666"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100381791","display_name":"Xiaoyan Wang","orcid":"https://orcid.org/0000-0002-7281-1078"},"institutions":[{"id":"https://openalex.org/I40963666","display_name":"Central China Normal University","ror":"https://ror.org/03x1jna21","country_code":"CN","type":"education","lineage":["https://openalex.org/I40963666"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaoyan Wang","raw_affiliation_strings":["School of Computer, Central China Normal University, Wuhan, Hubei, China"],"affiliations":[{"raw_affiliation_string":"School of Computer, Central China Normal University, Wuhan, Hubei, China","institution_ids":["https://openalex.org/I40963666"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102350445","display_name":"Ran Zhong","orcid":null},"institutions":[{"id":"https://openalex.org/I40963666","display_name":"Central China Normal University","ror":"https://ror.org/03x1jna21","country_code":"CN","type":"education","lineage":["https://openalex.org/I40963666"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ran Zhong","raw_affiliation_strings":["Collaborative &Innovation Center, Central China Normal University, Wuhan, Hubei, China"],"affiliations":[{"raw_affiliation_string":"Collaborative &Innovation Center, Central China Normal University, Wuhan, Hubei, China","institution_ids":["https://openalex.org/I40963666"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088986252","display_name":"Duo Zhong","orcid":null},"institutions":[{"id":"https://openalex.org/I40963666","display_name":"Central China Normal University","ror":"https://ror.org/03x1jna21","country_code":"CN","type":"education","lineage":["https://openalex.org/I40963666"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Duo Zhong","raw_affiliation_strings":["School of Computer, Central China Normal University, Wuhan, Hubei, China"],"affiliations":[{"raw_affiliation_string":"School of Computer, Central China Normal University, Wuhan, Hubei, China","institution_ids":["https://openalex.org/I40963666"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102010131","display_name":"Tingting He","orcid":"https://orcid.org/0000-0001-7523-6550"},"institutions":[{"id":"https://openalex.org/I40963666","display_name":"Central China Normal University","ror":"https://ror.org/03x1jna21","country_code":"CN","type":"education","lineage":["https://openalex.org/I40963666"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tingting He","raw_affiliation_strings":["School of Computer, Central China Normal University, Wuhan, Hubei, China"],"affiliations":[{"raw_affiliation_string":"School of Computer, Central China Normal University, Wuhan, Hubei, China","institution_ids":["https://openalex.org/I40963666"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101569679","display_name":"Xiaohua Hu","orcid":"https://orcid.org/0000-0002-4777-3022"},"institutions":[{"id":"https://openalex.org/I40963666","display_name":"Central China Normal University","ror":"https://ror.org/03x1jna21","country_code":"CN","type":"education","lineage":["https://openalex.org/I40963666"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaohua Hu","raw_affiliation_strings":["School of Computer, Central China Normal University, Wuhan, Hubei, China"],"affiliations":[{"raw_affiliation_string":"School of Computer, Central China Normal University, Wuhan, Hubei, China","institution_ids":["https://openalex.org/I40963666"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5003550654","display_name":"Xingpeng Jiang","orcid":"https://orcid.org/0000-0002-8848-9300"},"institutions":[{"id":"https://openalex.org/I40963666","display_name":"Central China Normal University","ror":"https://ror.org/03x1jna21","country_code":"CN","type":"education","lineage":["https://openalex.org/I40963666"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xingpeng Jiang","raw_affiliation_strings":["School of Computer, Central China Normal University, Wuhan, Hubei, China"],"affiliations":[{"raw_affiliation_string":"School of Computer, Central China Normal University, Wuhan, Hubei, China","institution_ids":["https://openalex.org/I40963666"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5100709608"],"corresponding_institution_ids":["https://openalex.org/I40963666"],"apc_list":null,"apc_paid":null,"fwci":0.3677,"has_fulltext":false,"cited_by_count":4,"citation_normalized_percentile":{"value":0.61206196,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"29","issue":null,"first_page":"428","last_page":"433"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9986000061035156,"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":0.9986000061035156,"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":0.9983000159263611,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9970999956130981,"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":0.808498740196228},{"id":"https://openalex.org/keywords/named-entity-recognition","display_name":"Named-entity recognition","score":0.7302838563919067},{"id":"https://openalex.org/keywords/conditional-random-field","display_name":"Conditional random field","score":0.703498363494873},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.6860835552215576},{"id":"https://openalex.org/keywords/convolutional-neural-network","display_name":"Convolutional neural network","score":0.6501018404960632},{"id":"https://openalex.org/keywords/premise","display_name":"Premise","score":0.5848063826560974},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.551793098449707},{"id":"https://openalex.org/keywords/key","display_name":"Key (lock)","score":0.4968772232532501},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.48635655641555786},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4506174325942993}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.808498740196228},{"id":"https://openalex.org/C2779135771","wikidata":"https://www.wikidata.org/wiki/Q403574","display_name":"Named-entity recognition","level":3,"score":0.7302838563919067},{"id":"https://openalex.org/C152565575","wikidata":"https://www.wikidata.org/wiki/Q1124538","display_name":"Conditional random field","level":2,"score":0.703498363494873},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6860835552215576},{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.6501018404960632},{"id":"https://openalex.org/C2778023277","wikidata":"https://www.wikidata.org/wiki/Q321703","display_name":"Premise","level":2,"score":0.5848063826560974},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.551793098449707},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.4968772232532501},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.48635655641555786},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4506174325942993},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"score":0.0},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm.2018.8621446","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2018.8621446","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2018 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.49000000953674316,"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":50,"referenced_works":["https://openalex.org/W6908809","https://openalex.org/W114517082","https://openalex.org/W168564468","https://openalex.org/W1522301498","https://openalex.org/W1541820241","https://openalex.org/W1815076433","https://openalex.org/W1899794420","https://openalex.org/W1904365287","https://openalex.org/W1979328481","https://openalex.org/W2008056655","https://openalex.org/W2013470122","https://openalex.org/W2018102758","https://openalex.org/W2040210770","https://openalex.org/W2064675550","https://openalex.org/W2104518905","https://openalex.org/W2107878631","https://openalex.org/W2134036914","https://openalex.org/W2142384583","https://openalex.org/W2147880316","https://openalex.org/W2153579005","https://openalex.org/W2158899491","https://openalex.org/W2168905447","https://openalex.org/W2250539671","https://openalex.org/W2334002433","https://openalex.org/W2431459199","https://openalex.org/W2515248967","https://openalex.org/W2626176522","https://openalex.org/W2771888422","https://openalex.org/W2807800730","https://openalex.org/W2897680924","https://openalex.org/W2900678973","https://openalex.org/W2912225506","https://openalex.org/W2949952998","https://openalex.org/W2952230511","https://openalex.org/W2964121744","https://openalex.org/W4244862164","https://openalex.org/W4294170691","https://openalex.org/W6600284362","https://openalex.org/W6631190155","https://openalex.org/W6638545294","https://openalex.org/W6639820532","https://openalex.org/W6640036494","https://openalex.org/W6675573446","https://openalex.org/W6679893334","https://openalex.org/W6682082992","https://openalex.org/W6682691769","https://openalex.org/W6683738474","https://openalex.org/W6746656333","https://openalex.org/W6755977157","https://openalex.org/W6758710848"],"related_works":["https://openalex.org/W4250494529","https://openalex.org/W1964783010","https://openalex.org/W2399696375","https://openalex.org/W45206245","https://openalex.org/W2211396092","https://openalex.org/W4305041692","https://openalex.org/W2078793151","https://openalex.org/W2061834489","https://openalex.org/W2751906762","https://openalex.org/W3088215229"],"abstract_inverted_index":{"Microorganisms":[0],"have":[1,34],"been":[2,35],"confirmed":[3],"to":[4,66,82],"be":[5],"essential":[6],"for":[7,132],"the":[8,19,62,83,113,120,127,135],"fundamental":[9],"function":[10],"of":[11,28,85],"various":[12],"ecosystems.":[13],"The":[14],"interactions":[15,30,44],"among":[16],"microorganisms":[17],"affect":[18],"human":[20],"health":[21],"and":[22,41,64,119],"environmental":[23],"ecosystem.":[24],"A":[25],"large":[26],"number":[27],"microbial":[29],"with":[31,45],"experimental":[32,46],"confidence":[33,47],"reported":[36],"in":[37,146],"biomedical":[38],"literature.":[39],"Extracting":[40],"collating":[42],"these":[43],"into":[48],"a":[49,53,78,93,101],"database":[50],"will":[51],"create":[52],"valuable":[54],"data":[55],"resource.":[56],"Named":[57],"Entity":[58],"Recognition":[59],"(NER)":[60],"is":[61,76],"premise":[63],"key":[65],"interaction":[67],"extraction":[68],"from":[69],"literatures.":[70],"Especially,":[71],"bacterial":[72,86,94],"named":[73,95],"entity":[74,96],"recognition":[75,97],"still":[77],"challenging":[79],"task":[80],"due":[81],"specialty":[84],"names.":[87],"In":[88],"this":[89,141],"paper,":[90],"we":[91,138],"propose":[92],"system":[98],"based":[99],"on":[100],"hybrid":[102],"deep":[103,110],"learning":[104,111],"framework":[105],"(HDL-CRF),":[106],"which":[107],"integrates":[108],"two":[109],"models:":[112],"bidirectional":[114],"long":[115],"short-term":[116],"memory":[117],"network":[118],"convolutional":[121],"neural":[122],"network,":[123],"as":[124,126],"well":[125],"conditional":[128],"random":[129],"field":[130],"approach,":[131],"automatically":[133],"extracting":[134],"features.":[136],"Finally,":[137],"prove":[139],"that":[140],"model":[142],"outperforms":[143],"previous":[144],"methods":[145],"performance.":[147]},"counts_by_year":[{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":3}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
