{"id":"https://openalex.org/W2011365423","doi":"https://doi.org/10.1145/2665970.2665974","title":"Entity Linking for Biomedical Literature","display_name":"Entity Linking for Biomedical Literature","publication_year":2014,"publication_date":"2014-11-03","ids":{"openalex":"https://openalex.org/W2011365423","doi":"https://doi.org/10.1145/2665970.2665974","mag":"2011365423"},"language":"en","primary_location":{"id":"doi:10.1145/2665970.2665974","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2665970.2665974","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the ACM 8th International Workshop on Data and Text Mining in Bioinformatics","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/A5076799725","display_name":"Jin Zheng","orcid":null},"institutions":[{"id":"https://openalex.org/I165799507","display_name":"Rensselaer Polytechnic Institute","ror":"https://ror.org/01rtyzb94","country_code":"US","type":"education","lineage":["https://openalex.org/I165799507"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jin Guang Zheng","raw_affiliation_strings":["Rensselaer Polytechnic Institute, Troy, NY, USA"],"affiliations":[{"raw_affiliation_string":"Rensselaer Polytechnic Institute, Troy, NY, USA","institution_ids":["https://openalex.org/I165799507"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063307430","display_name":"Daniel P. Howsmon","orcid":"https://orcid.org/0000-0002-7177-1342"},"institutions":[{"id":"https://openalex.org/I165799507","display_name":"Rensselaer Polytechnic Institute","ror":"https://ror.org/01rtyzb94","country_code":"US","type":"education","lineage":["https://openalex.org/I165799507"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Daniel Howsmon","raw_affiliation_strings":["Rensselaer Polytechnic Institute, Troy, NY, USA"],"affiliations":[{"raw_affiliation_string":"Rensselaer Polytechnic Institute, Troy, NY, USA","institution_ids":["https://openalex.org/I165799507"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103097182","display_name":"Boliang Zhang","orcid":"https://orcid.org/0009-0003-8767-340X"},"institutions":[{"id":"https://openalex.org/I165799507","display_name":"Rensselaer Polytechnic Institute","ror":"https://ror.org/01rtyzb94","country_code":"US","type":"education","lineage":["https://openalex.org/I165799507"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Boliang Zhang","raw_affiliation_strings":["Rensselaer Polytechnic Institute, Troy, NY, USA"],"affiliations":[{"raw_affiliation_string":"Rensselaer Polytechnic Institute, Troy, NY, USA","institution_ids":["https://openalex.org/I165799507"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073305158","display_name":"Juergen Hahn","orcid":"https://orcid.org/0000-0002-1078-4203"},"institutions":[{"id":"https://openalex.org/I165799507","display_name":"Rensselaer Polytechnic Institute","ror":"https://ror.org/01rtyzb94","country_code":"US","type":"education","lineage":["https://openalex.org/I165799507"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Juergen Hahn","raw_affiliation_strings":["Rensselaer Polytechnic Institute, Troy, NY, USA"],"affiliations":[{"raw_affiliation_string":"Rensselaer Polytechnic Institute, Troy, NY, USA","institution_ids":["https://openalex.org/I165799507"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043699777","display_name":"Deborah L. McGuinness","orcid":"https://orcid.org/0000-0001-7037-4567"},"institutions":[{"id":"https://openalex.org/I165799507","display_name":"Rensselaer Polytechnic Institute","ror":"https://ror.org/01rtyzb94","country_code":"US","type":"education","lineage":["https://openalex.org/I165799507"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Deborah McGuinness","raw_affiliation_strings":["Rensselaer Polytechnic Institute, Troy, NY, USA"],"affiliations":[{"raw_affiliation_string":"Rensselaer Polytechnic Institute, Troy, NY, USA","institution_ids":["https://openalex.org/I165799507"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010414972","display_name":"James Hendler","orcid":"https://orcid.org/0000-0003-3056-1960"},"institutions":[{"id":"https://openalex.org/I165799507","display_name":"Rensselaer Polytechnic Institute","ror":"https://ror.org/01rtyzb94","country_code":"US","type":"education","lineage":["https://openalex.org/I165799507"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"James Hendler","raw_affiliation_strings":["Rensselaer Polytechnic Institute, Troy, NY, USA"],"affiliations":[{"raw_affiliation_string":"Rensselaer Polytechnic Institute, Troy, NY, USA","institution_ids":["https://openalex.org/I165799507"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5103178893","display_name":"Heng Ji","orcid":"https://orcid.org/0000-0002-7954-7994"},"institutions":[{"id":"https://openalex.org/I165799507","display_name":"Rensselaer Polytechnic Institute","ror":"https://ror.org/01rtyzb94","country_code":"US","type":"education","lineage":["https://openalex.org/I165799507"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Heng Ji","raw_affiliation_strings":["Rensselaer Polytechnic Institute, Troy, NY, USA"],"affiliations":[{"raw_affiliation_string":"Rensselaer Polytechnic Institute, Troy, NY, USA","institution_ids":["https://openalex.org/I165799507"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5076799725"],"corresponding_institution_ids":["https://openalex.org/I165799507"],"apc_list":null,"apc_paid":null,"fwci":1.6732,"has_fulltext":false,"cited_by_count":30,"citation_normalized_percentile":{"value":0.83302853,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"1","issue":null,"first_page":"3","last_page":"4"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9994999766349792,"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":0.9994999766349792,"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":0.9991999864578247,"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":0.9955999851226807,"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":0.8266340494155884},{"id":"https://openalex.org/keywords/entity-linking","display_name":"Entity linking","score":0.6378052830696106},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.627260684967041},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.6128725409507751},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.6013850569725037},{"id":"https://openalex.org/keywords/ranking","display_name":"Ranking (information retrieval)","score":0.5882547497749329},{"id":"https://openalex.org/keywords/knowledge-base","display_name":"Knowledge base","score":0.5729811191558838},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.5726231336593628},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.4998011589050293},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4432097375392914},{"id":"https://openalex.org/keywords/semantic-similarity","display_name":"Semantic similarity","score":0.43993157148361206},{"id":"https://openalex.org/keywords/named-entity-recognition","display_name":"Named-entity recognition","score":0.4376554489135742},{"id":"https://openalex.org/keywords/domain-knowledge","display_name":"Domain knowledge","score":0.4139053225517273},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3966577649116516},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.36529305577278137}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8266340494155884},{"id":"https://openalex.org/C96711827","wikidata":"https://www.wikidata.org/wiki/Q17012245","display_name":"Entity linking","level":3,"score":0.6378052830696106},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.627260684967041},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.6128725409507751},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.6013850569725037},{"id":"https://openalex.org/C189430467","wikidata":"https://www.wikidata.org/wiki/Q7293293","display_name":"Ranking (information retrieval)","level":2,"score":0.5882547497749329},{"id":"https://openalex.org/C4554734","wikidata":"https://www.wikidata.org/wiki/Q593744","display_name":"Knowledge base","level":2,"score":0.5729811191558838},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.5726231336593628},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.4998011589050293},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4432097375392914},{"id":"https://openalex.org/C130318100","wikidata":"https://www.wikidata.org/wiki/Q2268914","display_name":"Semantic similarity","level":2,"score":0.43993157148361206},{"id":"https://openalex.org/C2779135771","wikidata":"https://www.wikidata.org/wiki/Q403574","display_name":"Named-entity recognition","level":3,"score":0.4376554489135742},{"id":"https://openalex.org/C207685749","wikidata":"https://www.wikidata.org/wiki/Q2088941","display_name":"Domain knowledge","level":2,"score":0.4139053225517273},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3966577649116516},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.36529305577278137},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","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},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/2665970.2665974","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2665970.2665974","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the ACM 8th International Workshop on Data and Text Mining in Bioinformatics","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/12","score":0.5199999809265137,"display_name":"Responsible consumption and production"}],"awards":[{"id":"https://openalex.org/G3911920403","display_name":null,"funder_award_id":"FA8750-13-2-0041","funder_id":"https://openalex.org/F4320332180","funder_display_name":"Defense Advanced Research Projects Agency"},{"id":"https://openalex.org/G5163254555","display_name":null,"funder_award_id":"IIS-0953149","funder_id":"https://openalex.org/F4320337389","funder_display_name":"Division of Information and Intelligent Systems"},{"id":"https://openalex.org/G5801531635","display_name":null,"funder_award_id":"W911NF-09-2-0053 (NS-CTA)","funder_id":"https://openalex.org/F4320338295","funder_display_name":"Army Research Laboratory"}],"funders":[{"id":"https://openalex.org/F4320309327","display_name":"Google","ror":"https://ror.org/00njsd438"},{"id":"https://openalex.org/F4320309500","display_name":"Rensselaer Polytechnic Institute","ror":"https://ror.org/01rtyzb94"},{"id":"https://openalex.org/F4320332180","display_name":"Defense Advanced Research Projects Agency","ror":"https://ror.org/02caytj08"},{"id":"https://openalex.org/F4320337389","display_name":"Division of Information and Intelligent Systems","ror":"https://ror.org/053a2cp42"},{"id":"https://openalex.org/F4320338295","display_name":"Army Research Laboratory","ror":"https://ror.org/011hc8f90"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":43,"referenced_works":["https://openalex.org/W103340358","https://openalex.org/W1516184288","https://openalex.org/W1854214752","https://openalex.org/W1976316416","https://openalex.org/W1982528660","https://openalex.org/W1984361118","https://openalex.org/W1995875735","https://openalex.org/W1996787131","https://openalex.org/W2004763266","https://openalex.org/W2009264880","https://openalex.org/W2014362743","https://openalex.org/W2041404167","https://openalex.org/W2057047055","https://openalex.org/W2061166439","https://openalex.org/W2088762045","https://openalex.org/W2100341149","https://openalex.org/W2104012281","https://openalex.org/W2104583100","https://openalex.org/W2115352105","https://openalex.org/W2123142779","https://openalex.org/W2124176947","https://openalex.org/W2131357087","https://openalex.org/W2139047169","https://openalex.org/W2143035038","https://openalex.org/W2161290181","https://openalex.org/W2181629536","https://openalex.org/W2250741050","https://openalex.org/W2250869925","https://openalex.org/W2251084827","https://openalex.org/W2252052301","https://openalex.org/W2252250824","https://openalex.org/W2407669909","https://openalex.org/W2595697910","https://openalex.org/W2759083144","https://openalex.org/W2801356492","https://openalex.org/W2978725006","https://openalex.org/W6639055396","https://openalex.org/W6680614221","https://openalex.org/W6683481755","https://openalex.org/W6685530852","https://openalex.org/W6691332274","https://openalex.org/W6691480130","https://openalex.org/W6691547590"],"related_works":["https://openalex.org/W2186562580","https://openalex.org/W3198729192","https://openalex.org/W4255258373","https://openalex.org/W2593907245","https://openalex.org/W3000685722","https://openalex.org/W2520117834","https://openalex.org/W626980589","https://openalex.org/W4313162113","https://openalex.org/W1884363728","https://openalex.org/W3133906981"],"abstract_inverted_index":{"The":[0,118],"Entity":[1],"Linking":[2],"(EL)":[3],"task":[4],"links":[5],"entity":[6,71,133],"mentions":[7],"from":[8,108],"an":[9],"unstructured":[10,109],"document":[11],"to":[12,53,56,105,115],"entities":[13,107],"in":[14,23,35,47,127],"a":[15,69,81,99],"knowledge":[16],"base.":[17],"Although":[18],"this":[19,28],"problem":[20,29,46],"is":[21,52,89],"well-studied":[22],"news":[24],"and":[25,125,132],"social":[26],"media,":[27],"has":[30],"not":[31],"received":[32],"much":[33],"attention":[34],"the":[36,44,48,93,121],"life":[37,49,94],"science":[38,95],"domain.":[39],"One":[40],"outcome":[41],"of":[42,60,84,112],"tackling":[43],"EL":[45],"sciences":[50],"domain":[51],"enable":[54],"scientists":[55],"build":[57],"computational":[58],"models":[59],"biological":[61],"processes":[62],"with":[63],"more":[64],"efficiency.":[65],"However,":[66],"simply":[67],"applying":[68],"news-trained":[70],"linker":[72],"produces":[73],"inadequate":[74],"results.":[75],"Since":[76],"existing":[77],"supervised":[78],"approaches":[79],"require":[80],"large":[82],"amount":[83],"manually-labeled":[85],"training":[86],"data,":[87],"which":[88],"currently":[90],"unavailable":[91],"for":[92,129],"domain,":[96],"we":[97],"propose":[98],"novel":[100],"unsupervised":[101],"collective":[102],"inference":[103],"approach":[104,119],"link":[106],"full":[110],"texts":[111],"biomedical":[113],"literature":[114],"300":[116],"ontologies.":[117],"leverages":[120],"rich":[122],"semantic":[123],"information":[124],"structures":[126],"ontologies":[128],"similarity":[130],"computation":[131],"ranking.":[134]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":8},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":7},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
