{"id":"https://openalex.org/W2771888422","doi":"https://doi.org/10.1109/bibm.2017.8217688","title":"Bacterial named entity recognition based on dictionary and conditional random field","display_name":"Bacterial named entity recognition based on dictionary and conditional random field","publication_year":2017,"publication_date":"2017-11-01","ids":{"openalex":"https://openalex.org/W2771888422","doi":"https://doi.org/10.1109/bibm.2017.8217688","mag":"2771888422"},"language":"en","primary_location":{"id":"doi:10.1109/bibm.2017.8217688","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2017.8217688","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2017 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"conference-paper","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/A5100381800","display_name":"Xiaoyan Wang","orcid":"https://orcid.org/0000-0002-8763-289X"},"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, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer, Central China Normal University, Wuhan, China","institution_ids":["https://openalex.org/I40963666"]}]},{"author_position":"middle","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, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer, Central China Normal University, Wuhan, China","institution_ids":["https://openalex.org/I40963666"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023578096","display_name":"Mengwen Liu","orcid":"https://orcid.org/0000-0001-8006-5995"},"institutions":[{"id":"https://openalex.org/I72816309","display_name":"Drexel University","ror":"https://ror.org/04bdffz58","country_code":"US","type":"education","lineage":["https://openalex.org/I72816309"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mengwen Liu","raw_affiliation_strings":["College of Computing & Informatics, Drexel University, Philadelphia, PA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computing & Informatics, Drexel University, Philadelphia, PA, USA","institution_ids":["https://openalex.org/I72816309"]}]},{"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, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer, Central China Normal University, Wuhan, China","institution_ids":["https://openalex.org/I40963666"]}]},{"author_position":"last","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"]},{"id":"https://openalex.org/I72816309","display_name":"Drexel University","ror":"https://ror.org/04bdffz58","country_code":"US","type":"education","lineage":["https://openalex.org/I72816309"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"Xiaohua Hu","raw_affiliation_strings":["College of Computing & Informatics, Drexel University, Philadelphia, PA, USA","School of Computer, Central China Normal University, Wuhan, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computing & Informatics, Drexel University, Philadelphia, PA, USA","institution_ids":["https://openalex.org/I72816309"]},{"raw_affiliation_string":"School of Computer, Central China Normal University, Wuhan, China","institution_ids":["https://openalex.org/I40963666"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":12.6008,"has_fulltext":false,"cited_by_count":17,"citation_normalized_percentile":{"value":0.99011704,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":null,"issue":null,"first_page":"439","last_page":"444"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9997000098228455,"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":0.9997000098228455,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9951000213623047,"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":0.9937000274658203,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/conditional-random-field","display_name":"Conditional random field","score":0.9043620824813843},{"id":"https://openalex.org/keywords/named-entity-recognition","display_name":"Named-entity recognition","score":0.8309568166732788},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8015251755714417},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.6763481497764587},{"id":"https://openalex.org/keywords/metagenomics","display_name":"Metagenomics","score":0.5886178016662598},{"id":"https://openalex.org/keywords/field","display_name":"Field (mathematics)","score":0.5829550623893738},{"id":"https://openalex.org/keywords/biomedical-text-mining","display_name":"Biomedical text mining","score":0.5771641731262207},{"id":"https://openalex.org/keywords/complement","display_name":"Complement (music)","score":0.571093738079071},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.5277969241142273},{"id":"https://openalex.org/keywords/key","display_name":"Key (lock)","score":0.4831237494945526},{"id":"https://openalex.org/keywords/relationship-extraction","display_name":"Relationship extraction","score":0.4633392095565796},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.46025216579437256},{"id":"https://openalex.org/keywords/precision-and-recall","display_name":"Precision and recall","score":0.4513052701950073},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.40302109718322754},{"id":"https://openalex.org/keywords/text-mining","display_name":"Text mining","score":0.36805427074432373},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3404504954814911},{"id":"https://openalex.org/keywords/information-extraction","display_name":"Information extraction","score":0.32313621044158936},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.0720582902431488}],"concepts":[{"id":"https://openalex.org/C152565575","wikidata":"https://www.wikidata.org/wiki/Q1124538","display_name":"Conditional random field","level":2,"score":0.9043620824813843},{"id":"https://openalex.org/C2779135771","wikidata":"https://www.wikidata.org/wiki/Q403574","display_name":"Named-entity recognition","level":3,"score":0.8309568166732788},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8015251755714417},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6763481497764587},{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.5886178016662598},{"id":"https://openalex.org/C9652623","wikidata":"https://www.wikidata.org/wiki/Q190109","display_name":"Field (mathematics)","level":2,"score":0.5829550623893738},{"id":"https://openalex.org/C165141518","wikidata":"https://www.wikidata.org/wiki/Q4915126","display_name":"Biomedical text mining","level":3,"score":0.5771641731262207},{"id":"https://openalex.org/C112313634","wikidata":"https://www.wikidata.org/wiki/Q7886648","display_name":"Complement (music)","level":5,"score":0.571093738079071},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.5277969241142273},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.4831237494945526},{"id":"https://openalex.org/C153604712","wikidata":"https://www.wikidata.org/wiki/Q7310755","display_name":"Relationship extraction","level":3,"score":0.4633392095565796},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.46025216579437256},{"id":"https://openalex.org/C81669768","wikidata":"https://www.wikidata.org/wiki/Q2359161","display_name":"Precision and recall","level":2,"score":0.4513052701950073},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.40302109718322754},{"id":"https://openalex.org/C71472368","wikidata":"https://www.wikidata.org/wiki/Q676880","display_name":"Text mining","level":2,"score":0.36805427074432373},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3404504954814911},{"id":"https://openalex.org/C195807954","wikidata":"https://www.wikidata.org/wiki/Q1662562","display_name":"Information extraction","level":2,"score":0.32313621044158936},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0720582902431488},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"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/C202444582","wikidata":"https://www.wikidata.org/wiki/Q837863","display_name":"Pure mathematics","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/C188082640","wikidata":"https://www.wikidata.org/wiki/Q1780899","display_name":"Complementation","level":4,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm.2017.8217688","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2017.8217688","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2017 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4","score":0.6100000143051147}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":23,"referenced_works":["https://openalex.org/W165283731","https://openalex.org/W192665053","https://openalex.org/W1482328859","https://openalex.org/W1561467090","https://openalex.org/W1979328481","https://openalex.org/W1996430422","https://openalex.org/W2011312755","https://openalex.org/W2034137005","https://openalex.org/W2116159459","https://openalex.org/W2127241285","https://openalex.org/W2134429551","https://openalex.org/W2141099517","https://openalex.org/W2147880316","https://openalex.org/W2153635508","https://openalex.org/W2159583324","https://openalex.org/W2254642444","https://openalex.org/W2280650020","https://openalex.org/W2334002433","https://openalex.org/W2431459199","https://openalex.org/W2558664061","https://openalex.org/W2793828080","https://openalex.org/W4239510810","https://openalex.org/W6606787761"],"related_works":["https://openalex.org/W1964783010","https://openalex.org/W2399696375","https://openalex.org/W189110383","https://openalex.org/W4250494529","https://openalex.org/W2027233318","https://openalex.org/W1834104634","https://openalex.org/W2905273891","https://openalex.org/W4379379356","https://openalex.org/W2771888422","https://openalex.org/W2134429551"],"abstract_inverted_index":{"There":[0,29],"are":[1,30,163],"intensive":[2],"computational":[3],"efforts":[4],"to":[5,19,50,64,119],"discover":[6],"large-scale":[7],"microbial":[8,36,53,102],"interactions":[9,23,37,54],"from":[10,55,90,101],"metagenomic":[11],"abundance":[12],"data,":[13],"however,":[14],"it":[15,146],"is":[16],"often":[17],"difficult":[18],"validate":[20],"such":[21,52],"inferred":[22],"without":[24],"a":[25,32,61,96,129,148],"manually":[26,94],"curated":[27],"dataset.":[28],"also":[31],"number":[33],"of":[34,70,86,107,123],"small-scale":[35],"reported":[38],"in":[39,117],"massive":[40],"literature":[41,57,103],"with":[42,98,150],"experimental":[43],"confidence.":[44],"Text":[45],"mining":[46,72],"can":[47],"be":[48,60],"employed":[49],"extract":[51],"biomedical":[56,125],"which":[58],"could":[59],"significant":[62],"complement":[63],"abundance-based":[65],"method.":[66],"The":[67,159],"key":[68],"tasks":[69],"text":[71],"include":[73],"named":[74,109,139],"entity":[75,81,110,140],"recognition":[76,82,141],"and":[77,132,145,156,161],"relation":[78],"extraction.":[79],"Named":[80],"identifies":[83],"the":[84,87,91,105,120,124,137],"name":[85],"specified":[88],"type":[89],"text.":[92],"We":[93],"annotated":[95],"corpus":[97],"1344":[99],"abstracts":[100],"for":[104],"task":[106],"bacterial":[108,130,138],"recognition.":[111],"Six":[112],"new":[113],"features":[114,122],"were":[115],"added":[116],"addition":[118],"general":[121],"field.":[126],"Based":[127],"on":[128],"dictionary":[131],"conditional":[133],"random":[134],"field":[135],"(CRF),":[136],"model":[142],"was":[143],"trained":[144],"achieved":[147],"performance":[149],"precision":[151],"89.118%,":[152],"recall":[153],"81.598":[154],"%":[155],"F-measure":[157],"85.192%.":[158],"system":[160],"template":[162],"available":[164],"at":[165],"https://github.com/bluelilywxy/BacNER-V1.0.git.":[166]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":8},{"year":2018,"cited_by_count":3}],"updated_date":"2026-07-29T14:22:42.915294","created_date":"2025-10-10T00:00:00"}