{"id":"https://openalex.org/W2468365289","doi":"https://doi.org/10.1109/tcbb.2015.2478467","title":"An Unsupervised Graph Based Continuous Word Representation Method for Biomedical Text Mining","display_name":"An Unsupervised Graph Based Continuous Word Representation Method for Biomedical Text Mining","publication_year":2015,"publication_date":"2015-09-14","ids":{"openalex":"https://openalex.org/W2468365289","doi":"https://doi.org/10.1109/tcbb.2015.2478467","mag":"2468365289","pmid":"https://pubmed.ncbi.nlm.nih.gov/26390497"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2015.2478467","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2015.2478467","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","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/A5035224017","display_name":"Zhenchao Jiang","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":"Zhenchao Jiang","raw_affiliation_strings":["School of Computer Science and Technology Dalian University of Technology, Dalian, Liaoning, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology Dalian University of Technology, Dalian, Liaoning, China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082868235","display_name":"Lishuang Li","orcid":"https://orcid.org/0000-0002-4189-1466"},"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":"Lishuang Li","raw_affiliation_strings":["School of Computer Science and Technology Dalian University of Technology, Dalian, Liaoning, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology Dalian University of Technology, Dalian, Liaoning, China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5046871248","display_name":"Degen Huang","orcid":"https://orcid.org/0000-0002-8860-7805"},"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":"Degen Huang","raw_affiliation_strings":["School of Computer Science and Technology Dalian University of Technology, Dalian, Liaoning, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology Dalian University of Technology, Dalian, Liaoning, China","institution_ids":["https://openalex.org/I27357992"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I27357992"],"apc_list":null,"apc_paid":null,"fwci":0.8868,"has_fulltext":false,"cited_by_count":10,"citation_normalized_percentile":{"value":0.75111375,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"13","issue":"4","first_page":"634","last_page":"642"},"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/T10028","display_name":"Topic Modeling","score":0.9966999888420105,"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/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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8060411810874939},{"id":"https://openalex.org/keywords/analogy","display_name":"Analogy","score":0.7679705619812012},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.6992263197898865},{"id":"https://openalex.org/keywords/word","display_name":"Word (group theory)","score":0.6868664026260376},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.6017976403236389},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.567353367805481},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.5467405319213867},{"id":"https://openalex.org/keywords/dependency","display_name":"Dependency (UML)","score":0.4628109037876129},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.4501093924045563},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.4480646848678589},{"id":"https://openalex.org/keywords/biomedical-text-mining","display_name":"Biomedical text mining","score":0.44111737608909607},{"id":"https://openalex.org/keywords/semeval","display_name":"SemEval","score":0.4137769341468811},{"id":"https://openalex.org/keywords/text-mining","display_name":"Text mining","score":0.19887614250183105},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.17835119366645813},{"id":"https://openalex.org/keywords/linguistics","display_name":"Linguistics","score":0.17518752813339233}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8060411810874939},{"id":"https://openalex.org/C521332185","wikidata":"https://www.wikidata.org/wiki/Q185816","display_name":"Analogy","level":2,"score":0.7679705619812012},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.6992263197898865},{"id":"https://openalex.org/C90805587","wikidata":"https://www.wikidata.org/wiki/Q10944557","display_name":"Word (group theory)","level":2,"score":0.6868664026260376},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6017976403236389},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.567353367805481},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.5467405319213867},{"id":"https://openalex.org/C19768560","wikidata":"https://www.wikidata.org/wiki/Q320727","display_name":"Dependency (UML)","level":2,"score":0.4628109037876129},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.4501093924045563},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.4480646848678589},{"id":"https://openalex.org/C165141518","wikidata":"https://www.wikidata.org/wiki/Q4915126","display_name":"Biomedical text mining","level":3,"score":0.44111737608909607},{"id":"https://openalex.org/C44572571","wikidata":"https://www.wikidata.org/wiki/Q7448970","display_name":"SemEval","level":3,"score":0.4137769341468811},{"id":"https://openalex.org/C71472368","wikidata":"https://www.wikidata.org/wiki/Q676880","display_name":"Text mining","level":2,"score":0.19887614250183105},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.17835119366645813},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.17518752813339233},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","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/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000069558","descriptor_name":"Unsupervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069558","descriptor_name":"Unsupervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069558","descriptor_name":"Unsupervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbb.2015.2478467","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2015.2478467","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26390497","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26390497","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":"IEEE/ACM transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.41999998688697815,"id":"https://metadata.un.org/sdg/4","display_name":"Quality Education"}],"awards":[{"id":"https://openalex.org/G1267140333","display_name":"\u8de8\u8bed\u8a00\u4fe1\u606f\u68c0\u7d22\u4e2d\u7684\u673a\u5668\u7ffb\u8bd1\u7814\u7a76","funder_award_id":"61173100","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G873187850","display_name":"\u878d\u5408\u6307\u4ee3\u6d88\u89e3\u548c\u8fc1\u79fb\u5b66\u4e60\u7684\u86cb\u767d\u8d28\u4ea4\u4e92\u5173\u7cfb\u62bd\u53d6\u7684\u7814\u7a76","funder_award_id":"61173101","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":33,"referenced_works":["https://openalex.org/W71795751","https://openalex.org/W145476170","https://openalex.org/W1614298861","https://openalex.org/W1850865022","https://openalex.org/W2097960255","https://openalex.org/W2124772738","https://openalex.org/W2131462252","https://openalex.org/W2141599568","https://openalex.org/W2147152072","https://openalex.org/W2153579005","https://openalex.org/W2158899491","https://openalex.org/W2164019165","https://openalex.org/W2165612380","https://openalex.org/W2166474856","https://openalex.org/W2169974160","https://openalex.org/W2250539671","https://openalex.org/W2251771443","https://openalex.org/W2997617958","https://openalex.org/W2998704965","https://openalex.org/W4285719527","https://openalex.org/W4294170691","https://openalex.org/W4297809627","https://openalex.org/W6602989467","https://openalex.org/W6605963037","https://openalex.org/W6636510571","https://openalex.org/W6678739045","https://openalex.org/W6679224782","https://openalex.org/W6680532216","https://openalex.org/W6680890276","https://openalex.org/W6682691769","https://openalex.org/W6683738474","https://openalex.org/W6684165356","https://openalex.org/W6685182218"],"related_works":["https://openalex.org/W2392206215","https://openalex.org/W2365201483","https://openalex.org/W2355561779","https://openalex.org/W2352407775","https://openalex.org/W2186567693","https://openalex.org/W2803176955","https://openalex.org/W2117805747","https://openalex.org/W2188275805","https://openalex.org/W2797876554","https://openalex.org/W4287641341"],"abstract_inverted_index":{"In":[0],"biomedical":[1,109],"text":[2,110],"mining":[3],"tasks,":[4],"distributed":[5],"word":[6,47,77,97,101],"representation":[7,64,98],"has":[8],"succeeded":[9],"in":[10,46],"capturing":[11],"semantic":[12,42],"regularities,":[13],"but":[14],"most":[15],"of":[16,30,71],"them":[17],"are":[18,23],"shallow-window":[19],"based":[20],"models,":[21],"which":[22],"not":[24],"sufficient":[25],"for":[26,60],"expressing":[27],"the":[28,41],"meaning":[29],"words.":[31],"To":[32],"represent":[33],"words":[34],"using":[35],"deeper":[36],"information,":[37],"we":[38],"make":[39],"explicit":[40],"regularity":[43],"to":[44],"emerge":[45],"relations,":[48,54],"including":[49],"dependency":[50],"relations":[51],"and":[52,55,80,104],"context":[53],"propose":[56],"a":[57],"novel":[58],"architecture":[59],"computing":[61],"continuous":[62],"vector":[63],"by":[65],"leveraging":[66],"those":[67],"relations.":[68],"The":[69],"performance":[70],"our":[72,90],"model":[73],"is":[74],"measured":[75],"on":[76,100,108],"analogy":[78,102],"task":[79,103],"Protein-Protein":[81],"Interaction":[82],"Extraction":[83],"(PPIE)":[84],"task.":[85],"Experimental":[86],"results":[87],"show":[88],"that":[89],"method":[91],"performs":[92],"overall":[93],"better":[94],"than":[95],"other":[96],"models":[99],"have":[105],"many":[106],"advantages":[107],"mining.":[111]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":5}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}