{"id":"https://openalex.org/W2154333659","doi":"https://doi.org/10.1142/s0219720010004999","title":"IMPROVING THE INTER-CORPORA COMPATIBILITY FOR PROTEIN ANNOTATIONS","display_name":"IMPROVING THE INTER-CORPORA COMPATIBILITY FOR PROTEIN ANNOTATIONS","publication_year":2010,"publication_date":"2010-06-21","ids":{"openalex":"https://openalex.org/W2154333659","doi":"https://doi.org/10.1142/s0219720010004999","mag":"2154333659","pmid":"https://pubmed.ncbi.nlm.nih.gov/20981894"},"language":"en","primary_location":{"id":"doi:10.1142/s0219720010004999","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720010004999","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"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/A5100371984","display_name":"Yue Wang","orcid":"https://orcid.org/0000-0002-0278-2347"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]},{"id":"https://openalex.org/I161296585","display_name":"Tokyo University of Science","ror":"https://ror.org/05sj3n476","country_code":"JP","type":"education","lineage":["https://openalex.org/I161296585"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"YUE WANG","raw_affiliation_strings":["Department of Computer Science, University of Tokyo, 7-3-1 Hongo, Bunkyo-Ku, Tokyo, 113-0033, Japan","Department of Computer Science, University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Tokyo, 7-3-1 Hongo, Bunkyo-Ku, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974","https://openalex.org/I161296585"]},{"raw_affiliation_string":"Department of Computer Science, University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063923711","display_name":"Jin-Dong Kim","orcid":"https://orcid.org/0000-0001-9660-6303"},"institutions":[{"id":"https://openalex.org/I4210158934","display_name":"Research Organization of Information and Systems","ror":"https://ror.org/04p4e8t29","country_code":"JP","type":"facility","lineage":["https://openalex.org/I1319490839","https://openalex.org/I4210158934"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"JIN-DONG KIM","raw_affiliation_strings":["Database Center for Life Science, Research Organization of Information and Systems, 2-11-16 Yayoi, Bunkyo-Ku, Tokyo, 113-0032, Japan"],"affiliations":[{"raw_affiliation_string":"Database Center for Life Science, Research Organization of Information and Systems, 2-11-16 Yayoi, Bunkyo-Ku, Tokyo, 113-0032, Japan","institution_ids":["https://openalex.org/I4210158934"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044967495","display_name":"Rune S\u00e6tre","orcid":null},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]},{"id":"https://openalex.org/I161296585","display_name":"Tokyo University of Science","ror":"https://ror.org/05sj3n476","country_code":"JP","type":"education","lineage":["https://openalex.org/I161296585"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"RUNE S\u00c6TRE","raw_affiliation_strings":["Department of Computer Science, University of Tokyo, 7-3-1 Hongo, Bunkyo-Ku, Tokyo, 113-0033, Japan","Department of Computer Science, University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Tokyo, 7-3-1 Hongo, Bunkyo-Ku, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974","https://openalex.org/I161296585"]},{"raw_affiliation_string":"Department of Computer Science, University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066925770","display_name":"Sampo Pyysalo","orcid":"https://orcid.org/0000-0002-6279-5000"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]},{"id":"https://openalex.org/I161296585","display_name":"Tokyo University of Science","ror":"https://ror.org/05sj3n476","country_code":"JP","type":"education","lineage":["https://openalex.org/I161296585"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"SAMPO PYYSALO","raw_affiliation_strings":["Department of Computer Science, University of Tokyo, 7-3-1 Hongo, Bunkyo-Ku, Tokyo, 113-0033, Japan","Department of Computer Science, University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Tokyo, 7-3-1 Hongo, Bunkyo-Ku, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974","https://openalex.org/I161296585"]},{"raw_affiliation_string":"Department of Computer Science, University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007825608","display_name":"Tomoko Ohta","orcid":"https://orcid.org/0000-0002-9418-8352"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]},{"id":"https://openalex.org/I161296585","display_name":"Tokyo University of Science","ror":"https://ror.org/05sj3n476","country_code":"JP","type":"education","lineage":["https://openalex.org/I161296585"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"TOMOKO OHTA","raw_affiliation_strings":["Department of Computer Science, University of Tokyo, 7-3-1 Hongo, Bunkyo-Ku, Tokyo, 113-0033, Japan","Department of Computer Science, University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Tokyo, 7-3-1 Hongo, Bunkyo-Ku, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974","https://openalex.org/I161296585"]},{"raw_affiliation_string":"Department of Computer Science, University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5112241147","display_name":"Jun\u2019ichi Tsujii","orcid":null},"institutions":[{"id":"https://openalex.org/I161296585","display_name":"Tokyo University of Science","ror":"https://ror.org/05sj3n476","country_code":"JP","type":"education","lineage":["https://openalex.org/I161296585"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]},{"id":"https://openalex.org/I28407311","display_name":"University of Manchester","ror":"https://ror.org/027m9bs27","country_code":"GB","type":"education","lineage":["https://openalex.org/I28407311"]}],"countries":["GB","JP"],"is_corresponding":false,"raw_author_name":"JUN'ICHI TSUJII","raw_affiliation_strings":["Department of Computer Science, University of Tokyo, 7-3-1 Hongo, Bunkyo-Ku, Tokyo, 113-0033, Japan","National Center for Text Mining, Manchester Interdisciplinary Biocentre, 131 Princess Street, Manchester, M1 7DN, United Kingdom","School of Computer Science, University of Manchester, Kilburn Building, Oxford Road, Manchester, M13 9PL, United Kingdom","Department of Computer Science, University of Tokyo, 7-3-1 Hongo, Bunkyo-Ku, Tokyo, 113-0033, Japan; School of Computer Science, University of Manchester, Kilburn Building, Oxford Road, Manchester, M13 9PL, United Kingdom"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Tokyo, 7-3-1 Hongo, Bunkyo-Ku, Tokyo, 113-0033, Japan","institution_ids":["https://openalex.org/I74801974","https://openalex.org/I161296585"]},{"raw_affiliation_string":"National Center for Text Mining, Manchester Interdisciplinary Biocentre, 131 Princess Street, Manchester, M1 7DN, United Kingdom","institution_ids":[]},{"raw_affiliation_string":"School of Computer Science, University of Manchester, Kilburn Building, Oxford Road, Manchester, M13 9PL, United Kingdom","institution_ids":["https://openalex.org/I28407311"]},{"raw_affiliation_string":"Department of Computer Science, University of Tokyo, 7-3-1 Hongo, Bunkyo-Ku, Tokyo, 113-0033, Japan; School of Computer Science, University of Manchester, Kilburn Building, Oxford Road, Manchester, M13 9PL, United Kingdom","institution_ids":["https://openalex.org/I28407311","https://openalex.org/I161296585"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5100371984"],"corresponding_institution_ids":["https://openalex.org/I161296585","https://openalex.org/I74801974"],"apc_list":null,"apc_paid":null,"fwci":1.0574,"has_fulltext":false,"cited_by_count":10,"citation_normalized_percentile":{"value":0.76123193,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":"08","issue":"05","first_page":"901","last_page":"916"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9998999834060669,"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":0.9998999834060669,"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/T10215","display_name":"Semantic Web and Ontologies","score":0.9882000088691711,"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/T10181","display_name":"Natural Language Processing Techniques","score":0.9857000112533569,"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/annotation","display_name":"Annotation","score":0.8469212055206299},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.807513415813446},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.6444302797317505},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5432381629943848},{"id":"https://openalex.org/keywords/compatibility","display_name":"Compatibility (geochemistry)","score":0.5029444098472595},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.40452077984809875}],"concepts":[{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.8469212055206299},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.807513415813446},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.6444302797317505},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5432381629943848},{"id":"https://openalex.org/C2778648169","wikidata":"https://www.wikidata.org/wiki/Q967768","display_name":"Compatibility (geochemistry)","level":2,"score":0.5029444098472595},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.40452077984809875},{"id":"https://openalex.org/C17409809","wikidata":"https://www.wikidata.org/wiki/Q161764","display_name":"Geochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C127313418","wikidata":"https://www.wikidata.org/wiki/Q1069","display_name":"Geology","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D009626","descriptor_name":"Terminology as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009626","descriptor_name":"Terminology as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009626","descriptor_name":"Terminology as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D039781","descriptor_name":"PubMed","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D039781","descriptor_name":"PubMed","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D039781","descriptor_name":"PubMed","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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}],"locations_count":2,"locations":[{"id":"doi:10.1142/s0219720010004999","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720010004999","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},{"id":"pmid:20981894","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20981894","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 bioinformatics and computational biology","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":17,"referenced_works":["https://openalex.org/W1487177365","https://openalex.org/W1553529581","https://openalex.org/W1585529040","https://openalex.org/W1747861911","https://openalex.org/W1766290689","https://openalex.org/W1977748891","https://openalex.org/W2032566933","https://openalex.org/W2048140075","https://openalex.org/W2058856481","https://openalex.org/W2061327015","https://openalex.org/W2094591616","https://openalex.org/W2103397879","https://openalex.org/W2107005506","https://openalex.org/W2107884284","https://openalex.org/W2149803936","https://openalex.org/W2152183901","https://openalex.org/W2159583324"],"related_works":["https://openalex.org/W2361861616","https://openalex.org/W2263699433","https://openalex.org/W2377979023","https://openalex.org/W2218034408","https://openalex.org/W2392921965","https://openalex.org/W2358755282","https://openalex.org/W2625833328","https://openalex.org/W1533177136","https://openalex.org/W2251519152","https://openalex.org/W3204019825"],"abstract_inverted_index":{"Although":[0],"there":[1],"are":[2],"several":[3],"corpora":[4,14],"with":[5],"protein":[6,26],"annotation,":[7],"incompatibility":[8,43,85],"between":[9,50],"the":[10,20,42,48,55,59,71,84],"annotations":[11],"in":[12,28],"different":[13],"remains":[15],"a":[16,39,63,75],"problem":[17],"that":[18,81],"hinders":[19],"progress":[21],"of":[22,25,77,83],"automatic":[23],"recognition":[24],"names":[27],"biomedical":[29],"literature.":[30],"Here,":[31],"we":[32,66],"report":[33],"on":[34],"our":[35,68],"efforts":[36],"to":[37,41,46],"find":[38],"solution":[40],"issue,":[44],"and":[45,58,74],"improve":[47,67],"compatibility":[49],"two":[51,72],"representative":[52],"protein-annotated":[53],"corpora:":[54],"GENIA":[56],"corpus":[57],"GENETAG":[60],"corpus.":[61],"In":[62],"comparative":[64],"study,":[65],"insight":[69],"into":[70],"corpora,":[73],"series":[76],"experimental":[78],"results":[79],"show":[80],"most":[82],"can":[86],"be":[87],"removed.":[88]},"counts_by_year":[{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":3},{"year":2012,"cited_by_count":3}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
