{"id":"https://openalex.org/W2137852169","doi":"https://doi.org/10.1109/csb.2002.1039333","title":"A multi-level text mining method to extract biological relationships","display_name":"A multi-level text mining method to extract biological relationships","publication_year":2003,"publication_date":"2003-06-25","ids":{"openalex":"https://openalex.org/W2137852169","doi":"https://doi.org/10.1109/csb.2002.1039333","mag":"2137852169","pmid":"https://pubmed.ncbi.nlm.nih.gov/15838127"},"language":"en","primary_location":{"id":"doi:10.1109/csb.2002.1039333","is_oa":false,"landing_page_url":"https://doi.org/10.1109/csb.2002.1039333","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings. IEEE Computer Society Bioinformatics Conference","raw_type":"proceedings-article"},"type":"conference-paper","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/A5044460012","display_name":"Mathew Palakal","orcid":"https://orcid.org/0000-0002-2990-0999"},"institutions":[{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"M. Palakal","raw_affiliation_strings":["Department of Computer & Information Science, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA","Dept. of Comput. & Inf. Sci., Indiana Univ., Indianapolis, IN, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer & Information Science, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA","institution_ids":["https://openalex.org/I55769427"]},{"raw_affiliation_string":"Dept. of Comput. & Inf. Sci., Indiana Univ., Indianapolis, IN, USA","institution_ids":["https://openalex.org/I55769427"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082762217","display_name":"Matthew J. Stephens","orcid":"https://orcid.org/0000-0001-7593-4578"},"institutions":[{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"M. Stephens","raw_affiliation_strings":["Department of Computer & Information Science, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA","Dept. of Comput. & Inf. Sci., Indiana Univ., Indianapolis, IN, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer & Information Science, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA","institution_ids":["https://openalex.org/I55769427"]},{"raw_affiliation_string":"Dept. of Comput. & Inf. Sci., Indiana Univ., Indianapolis, IN, USA","institution_ids":["https://openalex.org/I55769427"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072472948","display_name":"Saurabh Mukhopadhyay","orcid":"https://orcid.org/0000-0003-2072-5386"},"institutions":[{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"S. Mukhopadhyay","raw_affiliation_strings":["Department of Computer & Information Science, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA","Dept. of Comput. & Inf. Sci., Indiana Univ., Indianapolis, IN, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer & Information Science, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA","institution_ids":["https://openalex.org/I55769427"]},{"raw_affiliation_string":"Dept. of Comput. & Inf. Sci., Indiana Univ., Indianapolis, IN, USA","institution_ids":["https://openalex.org/I55769427"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057931510","display_name":"R.R. Raje","orcid":null},"institutions":[{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"R. Raje","raw_affiliation_strings":["Department of Computer & Information Science, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA","Dept. of Comput. & Inf. Sci., Indiana Univ., Indianapolis, IN, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer & Information Science, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA","institution_ids":["https://openalex.org/I55769427"]},{"raw_affiliation_string":"Dept. of Comput. & Inf. Sci., Indiana Univ., Indianapolis, IN, USA","institution_ids":["https://openalex.org/I55769427"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5033037996","display_name":"Simon J. Rhodes","orcid":null},"institutions":[{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"S. Rhodes","raw_affiliation_strings":["Department of Computer & Information Science, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA","School of Science"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer & Information Science, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA","institution_ids":["https://openalex.org/I55769427"]},{"raw_affiliation_string":"School of Science","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I55769427"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":36,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":"1","issue":null,"first_page":"97","last_page":"108"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9998000264167786,"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":0.9998000264167786,"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":0.9879000186920166,"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/T10215","display_name":"Semantic Web and Ontologies","score":0.9821000099182129,"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/computer-science","display_name":"Computer science","score":0.6457844376564026},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3602140545845032},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.35827893018722534}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6457844376564026},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3602140545845032},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.35827893018722534}],"mesh":[{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010506","descriptor_name":"Periodicals as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010506","descriptor_name":"Periodicals as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010506","descriptor_name":"Periodicals as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016239","descriptor_name":"MEDLINE","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016239","descriptor_name":"MEDLINE","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016239","descriptor_name":"MEDLINE","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/csb.2002.1039333","is_oa":false,"landing_page_url":"https://doi.org/10.1109/csb.2002.1039333","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings. IEEE Computer Society Bioinformatics Conference","raw_type":"proceedings-article"},{"id":"pmid:15838127","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15838127","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":"Proceedings. IEEE Computer Society Bioinformatics Conference","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.7400000095367432,"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":26,"referenced_works":["https://openalex.org/W182831726","https://openalex.org/W1579838312","https://openalex.org/W1592053870","https://openalex.org/W1712279155","https://openalex.org/W1987146951","https://openalex.org/W2038721957","https://openalex.org/W2055043387","https://openalex.org/W2086613190","https://openalex.org/W2095800292","https://openalex.org/W2096146054","https://openalex.org/W2117400858","https://openalex.org/W2127230663","https://openalex.org/W2130260860","https://openalex.org/W2134769633","https://openalex.org/W2152698860","https://openalex.org/W2158505321","https://openalex.org/W3143770986","https://openalex.org/W3214380909","https://openalex.org/W4235505822","https://openalex.org/W4236236547","https://openalex.org/W4245668478","https://openalex.org/W6607467106","https://openalex.org/W6637421508","https://openalex.org/W6647258397","https://openalex.org/W6674318754","https://openalex.org/W6682425626"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052","https://openalex.org/W4402327032","https://openalex.org/W2382290278"],"abstract_inverted_index":{"Accurate":[0],"and":[1,50,53,62,103,133],"computationally":[2],"efficient":[3],"approaches":[4],"in":[5,38],"discovering":[6],"relationships":[7,30,115],"between":[8,31],"biological":[9,20,33],"objects":[10,34],"from":[11],"text":[12,40],"documents":[13],"are":[14,36,65],"important":[15],"for":[16,96],"biologists":[17],"to":[18,28,67,71,135,140],"develop":[19],"models.":[21],"This":[22],"paper":[23],"presents":[24],"a":[25,39,85,109,124],"novel":[26],"approach":[27,43,129],"extract":[29],"multiple":[32],"that":[35],"present":[37],"document.":[41],"The":[42,128],"involves":[44],"object":[45,98],"identification,":[46],"reference":[47],"resolution,":[48],"ontology":[49],"synonym":[51,101],"discovery,":[52,102],"extracting":[54,77],"object-object":[55,78],"relationships.":[56,79],"Hidden":[57],"Markov":[58],"Models":[59],"(HMMs),":[60],"dictionaries,":[61],"N-Gram":[63],"models":[64],"used":[66],"set":[68],"the":[69,73,97,105],"framework":[70],"tackle":[72],"complex":[74],"task":[75],"of":[76,87,111,118,126],"Experiments":[80],"were":[81,94,116,121],"carried":[82],"out":[83],"using":[84],"corpus":[86,110],"one":[88],"thousand":[89,112],"Medline":[90],"abstracts.":[91],"Intermediate":[92],"results":[93],"obtained":[95],"identification":[99],"process,":[100],"finally":[104],"relationship":[106],"extraction.":[107],"For":[108],"abstracts,":[113],"53":[114],"extracted":[117],"which":[119],"43":[120],"correct,":[122],"giving":[123],"specificity":[125],"81%.":[127],"is":[130],"both":[131],"adaptable":[132],"scalable":[134],"new":[136],"problems":[137],"as":[138],"opposed":[139],"rule-based":[141],"methods.":[142]},"counts_by_year":[{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":3}],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}
