{"id":"https://openalex.org/W2986909442","doi":"https://doi.org/10.18653/v1/d19-5704","title":"IxaMed at PharmacoNER Challenge 2019","display_name":"IxaMed at PharmacoNER Challenge 2019","publication_year":2019,"publication_date":"2019-01-01","ids":{"openalex":"https://openalex.org/W2986909442","doi":"https://doi.org/10.18653/v1/d19-5704","mag":"2986909442"},"language":"en","primary_location":{"id":"doi:10.18653/v1/d19-5704","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/d19-5704","pdf_url":"https://www.aclweb.org/anthology/D19-5704.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of The 5th Workshop on BioNLP Open Shared Tasks","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.aclweb.org/anthology/D19-5704.pdf","any_repository_has_fulltext":null},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5081567900","display_name":"Xabier Lahuerta","orcid":null},"institutions":[{"id":"https://openalex.org/I169108374","display_name":"University of the Basque Country","ror":"https://ror.org/000xsnr85","country_code":"ES","type":"education","lineage":["https://openalex.org/I169108374"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Xabier Lahuerta","raw_affiliation_strings":["IXA NLP Group UPV/EHU University of the Basque Country Donostia, Basque Country"],"affiliations":[{"raw_affiliation_string":"IXA NLP Group UPV/EHU University of the Basque Country Donostia, Basque Country","institution_ids":["https://openalex.org/I169108374"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066077901","display_name":"Iakes Goenaga","orcid":"https://orcid.org/0000-0002-0946-5782"},"institutions":[{"id":"https://openalex.org/I169108374","display_name":"University of the Basque Country","ror":"https://ror.org/000xsnr85","country_code":"ES","type":"education","lineage":["https://openalex.org/I169108374"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Iakes Goenaga","raw_affiliation_strings":["IXA NLP Group UPV/EHU University of the Basque Country Donostia, Basque Country"],"affiliations":[{"raw_affiliation_string":"IXA NLP Group UPV/EHU University of the Basque Country Donostia, Basque Country","institution_ids":["https://openalex.org/I169108374"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030328561","display_name":"Koldo Gojenola","orcid":"https://orcid.org/0000-0002-2116-6611"},"institutions":[{"id":"https://openalex.org/I169108374","display_name":"University of the Basque Country","ror":"https://ror.org/000xsnr85","country_code":"ES","type":"education","lineage":["https://openalex.org/I169108374"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Koldo Gojenola","raw_affiliation_strings":["IXA NLP Group UPV/EHU University of the Basque Country Donostia, Basque Country"],"affiliations":[{"raw_affiliation_string":"IXA NLP Group UPV/EHU University of the Basque Country Donostia, Basque Country","institution_ids":["https://openalex.org/I169108374"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Aitziber Atutxa Salazar","orcid":null},"institutions":[{"id":"https://openalex.org/I169108374","display_name":"University of the Basque Country","ror":"https://ror.org/000xsnr85","country_code":"ES","type":"education","lineage":["https://openalex.org/I169108374"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Aitziber Atutxa Salazar","raw_affiliation_strings":["IXA NLP Group UPV/EHU University of the Basque Country Donostia, Basque Country"],"affiliations":[{"raw_affiliation_string":"IXA NLP Group UPV/EHU University of the Basque Country Donostia, Basque Country","institution_ids":["https://openalex.org/I169108374"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5017928422","display_name":"Maite Oronoz","orcid":"https://orcid.org/0000-0001-9097-6047"},"institutions":[{"id":"https://openalex.org/I169108374","display_name":"University of the Basque Country","ror":"https://ror.org/000xsnr85","country_code":"ES","type":"education","lineage":["https://openalex.org/I169108374"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Maite Oronoz","raw_affiliation_strings":["IXA NLP Group UPV/EHU University of the Basque Country Donostia, Basque Country"],"affiliations":[{"raw_affiliation_string":"IXA NLP Group UPV/EHU University of the Basque Country Donostia, Basque Country","institution_ids":["https://openalex.org/I169108374"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5081567900"],"corresponding_institution_ids":["https://openalex.org/I169108374"],"apc_list":null,"apc_paid":null,"fwci":0.1445,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.59791437,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"21","last_page":"25"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10181","display_name":"Natural Language Processing Techniques","score":0.9988999962806702,"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"}},"topics":[{"id":"https://openalex.org/T10181","display_name":"Natural Language Processing Techniques","score":0.9988999962806702,"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/T10028","display_name":"Topic Modeling","score":0.998199999332428,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9961000084877014,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/levenshtein-distance","display_name":"Levenshtein distance","score":0.7821290493011475},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.7335519194602966},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.727976381778717},{"id":"https://openalex.org/keywords/indexation","display_name":"Indexation","score":0.694799542427063},{"id":"https://openalex.org/keywords/word","display_name":"Word (group theory)","score":0.6941783428192139},{"id":"https://openalex.org/keywords/string","display_name":"String (physics)","score":0.6503314971923828},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.6415817737579346},{"id":"https://openalex.org/keywords/health-records","display_name":"Health records","score":0.5708379149436951},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.534092366695404},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5226185917854309},{"id":"https://openalex.org/keywords/f1-score","display_name":"F1 score","score":0.4520357847213745},{"id":"https://openalex.org/keywords/linguistics","display_name":"Linguistics","score":0.1465396285057068},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.10678613185882568},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.06392207741737366}],"concepts":[{"id":"https://openalex.org/C2777515626","wikidata":"https://www.wikidata.org/wiki/Q496939","display_name":"Levenshtein distance","level":2,"score":0.7821290493011475},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.7335519194602966},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.727976381778717},{"id":"https://openalex.org/C186311912","wikidata":"https://www.wikidata.org/wiki/Q2038409","display_name":"Indexation","level":3,"score":0.694799542427063},{"id":"https://openalex.org/C90805587","wikidata":"https://www.wikidata.org/wiki/Q10944557","display_name":"Word (group theory)","level":2,"score":0.6941783428192139},{"id":"https://openalex.org/C157486923","wikidata":"https://www.wikidata.org/wiki/Q1376436","display_name":"String (physics)","level":2,"score":0.6503314971923828},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.6415817737579346},{"id":"https://openalex.org/C3019952477","wikidata":"https://www.wikidata.org/wiki/Q1324077","display_name":"Health records","level":3,"score":0.5708379149436951},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.534092366695404},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5226185917854309},{"id":"https://openalex.org/C148524875","wikidata":"https://www.wikidata.org/wiki/Q6975395","display_name":"F1 score","level":2,"score":0.4520357847213745},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.1465396285057068},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.10678613185882568},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.06392207741737366},{"id":"https://openalex.org/C160735492","wikidata":"https://www.wikidata.org/wiki/Q31207","display_name":"Health care","level":2,"score":0.0},{"id":"https://openalex.org/C201995342","wikidata":"https://www.wikidata.org/wiki/Q682496","display_name":"Systems engineering","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},{"id":"https://openalex.org/C37914503","wikidata":"https://www.wikidata.org/wiki/Q156495","display_name":"Mathematical physics","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/C126285488","wikidata":"https://www.wikidata.org/wiki/Q178476","display_name":"Monetary policy","level":2,"score":0.0},{"id":"https://openalex.org/C50522688","wikidata":"https://www.wikidata.org/wiki/Q189833","display_name":"Economic growth","level":1,"score":0.0},{"id":"https://openalex.org/C556758197","wikidata":"https://www.wikidata.org/wiki/Q580018","display_name":"Monetary economics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.18653/v1/d19-5704","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/d19-5704","pdf_url":"https://www.aclweb.org/anthology/D19-5704.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of The 5th Workshop on BioNLP Open Shared Tasks","raw_type":"proceedings-article"}],"best_oa_location":{"id":"doi:10.18653/v1/d19-5704","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/d19-5704","pdf_url":"https://www.aclweb.org/anthology/D19-5704.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of The 5th Workshop on BioNLP Open Shared Tasks","raw_type":"proceedings-article"},"sustainable_development_goals":[{"score":0.6899999976158142,"id":"https://metadata.un.org/sdg/4","display_name":"Quality Education"}],"awards":[{"id":"https://openalex.org/G1008005187","display_name":null,"funder_award_id":"AEI/FEDER, UE","funder_id":"https://openalex.org/F4320315062","funder_display_name":"Ministerio de Ciencia, Innovaci\u00f3n y Universidades"},{"id":"https://openalex.org/G1028331295","display_name":null,"funder_award_id":"MCIU/AEI/FEDER","funder_id":"https://openalex.org/F4320335598","funder_display_name":"Agencia Estatal de Investigaci\u00f3n"},{"id":"https://openalex.org/G1643641974","display_name":null,"funder_award_id":"AEI/FEDER","funder_id":"https://openalex.org/F4320335598","funder_display_name":"Agencia Estatal de Investigaci\u00f3n"},{"id":"https://openalex.org/G2311694283","display_name":null,"funder_award_id":"AEI/FEDER","funder_id":"https://openalex.org/F4320315062","funder_display_name":"Ministerio de Ciencia, Innovaci\u00f3n y Universidades"},{"id":"https://openalex.org/G3011659578","display_name":null,"funder_award_id":"MCIU/AEI/FEDER, UE","funder_id":"https://openalex.org/F4320315062","funder_display_name":"Ministerio de Ciencia, Innovaci\u00f3n y Universidades"},{"id":"https://openalex.org/G3765560856","display_name":null,"funder_award_id":"MCIU/AEI/FEDER","funder_id":"https://openalex.org/F4320315062","funder_display_name":"Ministerio de Ciencia, Innovaci\u00f3n y Universidades"},{"id":"https://openalex.org/G4816244515","display_name":null,"funder_award_id":"FEDER","funder_id":"https://openalex.org/F4320335598","funder_display_name":"Agencia Estatal de Investigaci\u00f3n"},{"id":"https://openalex.org/G6063137639","display_name":null,"funder_award_id":"FEDER","funder_id":"https://openalex.org/F4320315062","funder_display_name":"Ministerio de Ciencia, Innovaci\u00f3n y Universidades"},{"id":"https://openalex.org/G6760850704","display_name":null,"funder_award_id":"2014111003","funder_id":"https://openalex.org/F4320321705","funder_display_name":"Eusko Jaurlaritza"},{"id":"https://openalex.org/G7115649624","display_name":null,"funder_award_id":"FEDER, UE","funder_id":"https://openalex.org/F4320335598","funder_display_name":"Agencia Estatal de Investigaci\u00f3n"},{"id":"https://openalex.org/G8063416118","display_name":null,"funder_award_id":"PGC2018","funder_id":"https://openalex.org/F4320315062","funder_display_name":"Ministerio de Ciencia, Innovaci\u00f3n y Universidades"},{"id":"https://openalex.org/G8372737763","display_name":null,"funder_award_id":"TIN2016-77820-C3-1-R","funder_id":"https://openalex.org/F4320309480","funder_display_name":"Nvidia"}],"funders":[{"id":"https://openalex.org/F4320309480","display_name":"Nvidia","ror":"https://ror.org/03jdj4y14"},{"id":"https://openalex.org/F4320315062","display_name":"Ministerio de Ciencia, Innovaci\u00f3n y Universidades","ror":null},{"id":"https://openalex.org/F4320321705","display_name":"Eusko Jaurlaritza","ror":"https://ror.org/00pz2fp31"},{"id":"https://openalex.org/F4320335598","display_name":"Agencia Estatal de Investigaci\u00f3n","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2986909442.pdf","grobid_xml":"https://content.openalex.org/works/W2986909442.grobid-xml"},"referenced_works_count":25,"referenced_works":["https://openalex.org/W1647671624","https://openalex.org/W1810943226","https://openalex.org/W1938755728","https://openalex.org/W1951216520","https://openalex.org/W2064675550","https://openalex.org/W2107890417","https://openalex.org/W2130942839","https://openalex.org/W2143902665","https://openalex.org/W2146974287","https://openalex.org/W2153579005","https://openalex.org/W2176568210","https://openalex.org/W2251403365","https://openalex.org/W2252051187","https://openalex.org/W2296283641","https://openalex.org/W2488984245","https://openalex.org/W2614787793","https://openalex.org/W2880875857","https://openalex.org/W2889045959","https://openalex.org/W2889448814","https://openalex.org/W2904967645","https://openalex.org/W2948105016","https://openalex.org/W2951559648","https://openalex.org/W2962902328","https://openalex.org/W2985294119","https://openalex.org/W4294170691"],"related_works":["https://openalex.org/W2034885681","https://openalex.org/W3173934479","https://openalex.org/W3123079823","https://openalex.org/W1986887726","https://openalex.org/W3145536083","https://openalex.org/W1502097281","https://openalex.org/W2025431960","https://openalex.org/W2130630804","https://openalex.org/W1498543075","https://openalex.org/W4226356557"],"abstract_inverted_index":{"The":[0,16,33],"aim":[1],"of":[2,19,35,48,57,75,88,103,115,128],"this":[3],"paper":[4],"is":[5,38],"to":[6,45,54,67],"present":[7],"our":[8,94,143],"approach":[9],"(IxaMed)":[10],"on":[11,81],"the":[12,36,46,55,122,126,129,135],"PharmacoNER":[13],"2019":[14],"task.":[15],"task":[17,37],"consists":[18],"identifying":[20],"chemical,":[21],"drug,":[22],"and":[23,51,105,117],"gene/protein":[24],"mentions":[25],"from":[26],"clinical":[27],"case":[28],"studies":[29],"written":[30],"in":[31,40,83],"Spanish.":[32],"evaluation":[34],"divided":[39],"two":[41],"scenarios:":[42],"one":[43,52],"corresponding":[44,53],"detection":[47],"named":[49,58,69,130],"entities":[50,59,70,131],"indexation":[56,127],"that":[60],"have":[61,72,92,133],"been":[62],"previously":[63],"identified.":[64],"In":[65],"order":[66],"identify":[68],"we":[71,132],"made":[73],"use":[74],"a":[76,79,139],"Bi-LSTM":[77],"with":[78,85,111],"CRF":[80],"top":[82],"combination":[84],"different":[86],"types":[87],"word":[89,101],"embeddings.":[90],"We":[91],"achieved":[93],"best":[95,144],"result":[96],"(86.81":[97],"F-Score)":[98],"combining":[99],"pretrained":[100],"embeddings":[102,114],"Wikipedia":[104,116],"Electronic":[106,118],"Health":[107,119],"Records":[108],"(50M":[109],"words)":[110],"contextual":[112],"string":[113],"Records.":[120],"On":[121],"other":[123],"hand,":[124],"for":[125],"used":[134],"Levenshtein":[136],"distance":[137],"obtaining":[138],"85.34":[140],"F-Score":[141],"as":[142],"result.":[145]},"counts_by_year":[{"year":2021,"cited_by_count":1}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}