{"id":"https://openalex.org/W7164540873","doi":"https://doi.org/10.48550/arxiv.2606.13051","title":"AAbAAC: An Annotated Corpus for Autoimmunity Information Extraction","display_name":"AAbAAC: An Annotated Corpus for Autoimmunity Information Extraction","publication_year":2026,"publication_date":"2026-06-11","ids":{"openalex":"https://openalex.org/W7164540873","doi":"https://doi.org/10.48550/arxiv.2606.13051"},"language":null,"primary_location":{"id":"doi:10.48550/arxiv.2606.13051","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2606.13051","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Preprint"},"type":"preprint","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.48550/arxiv.2606.13051","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5071568501","display_name":"Fabien Maury","orcid":null},"institutions":[{"id":"https://openalex.org/I4210123504","display_name":"Imagineering (Japan)","ror":"https://ror.org/035b4az83","country_code":"JP","type":"company","lineage":["https://openalex.org/I4210123504"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Maury, Fabien","raw_affiliation_strings":["Imagine - U1163, HeKA | U1346"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Imagine - U1163, HeKA | U1346","institution_ids":["https://openalex.org/I4210123504"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091344822","display_name":"Sol\u00e8ne Grosdidier","orcid":null},"institutions":[{"id":"https://openalex.org/I4210123504","display_name":"Imagineering (Japan)","ror":"https://ror.org/035b4az83","country_code":"JP","type":"company","lineage":["https://openalex.org/I4210123504"]},{"id":"https://openalex.org/I4210165077","display_name":"Institut des Maladies G\u00e9n\u00e9tiques Imagine","ror":"https://ror.org/05rq3rb55","country_code":"FR","type":"facility","lineage":["https://openalex.org/I154526488","https://openalex.org/I204730241","https://openalex.org/I4210100892","https://openalex.org/I4210165077"]}],"countries":["FR","JP"],"is_corresponding":false,"raw_author_name":"Grosdidier, Sol\u00e8ne","raw_affiliation_strings":["Imagine - U1163"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Imagine - U1163","institution_ids":["https://openalex.org/I4210123504","https://openalex.org/I4210165077"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075239166","display_name":"Maud de Dieuleveult","orcid":"https://orcid.org/0000-0002-3387-1836"},"institutions":[{"id":"https://openalex.org/I4210123504","display_name":"Imagineering (Japan)","ror":"https://ror.org/035b4az83","country_code":"JP","type":"company","lineage":["https://openalex.org/I4210123504"]},{"id":"https://openalex.org/I4210165077","display_name":"Institut des Maladies G\u00e9n\u00e9tiques Imagine","ror":"https://ror.org/05rq3rb55","country_code":"FR","type":"facility","lineage":["https://openalex.org/I154526488","https://openalex.org/I204730241","https://openalex.org/I4210100892","https://openalex.org/I4210165077"]}],"countries":["FR","JP"],"is_corresponding":false,"raw_author_name":"de Dieuleveult, Maud","raw_affiliation_strings":["Imagine - U1163"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Imagine - U1163","institution_ids":["https://openalex.org/I4210123504","https://openalex.org/I4210165077"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5082641159","display_name":"Adrien Coulet","orcid":"https://orcid.org/0000-0002-1466-062X"},"institutions":[{"id":"https://openalex.org/I4210132374","display_name":"Heureka (United States)","ror":"https://ror.org/02xvpd793","country_code":"US","type":"company","lineage":["https://openalex.org/I4210132374"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Coulet, Adrien","raw_affiliation_strings":["HeKA | U1346"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"HeKA | U1346","institution_ids":["https://openalex.org/I4210132374"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.3889999985694885,"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":0.3889999985694885,"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/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.20059999823570251,"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":0.07930000126361847,"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":0.6704999804496765},{"id":"https://openalex.org/keywords/information-extraction","display_name":"Information extraction","score":0.6173999905586243},{"id":"https://openalex.org/keywords/named-entity-recognition","display_name":"Named-entity recognition","score":0.5235999822616577},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.5234000086784363},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.46399998664855957},{"id":"https://openalex.org/keywords/focus","display_name":"Focus (optics)","score":0.396699994802475},{"id":"https://openalex.org/keywords/biomedical-text-mining","display_name":"Biomedical text mining","score":0.36160001158714294}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6973999738693237},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.6704999804496765},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6685000061988831},{"id":"https://openalex.org/C195807954","wikidata":"https://www.wikidata.org/wiki/Q1662562","display_name":"Information extraction","level":2,"score":0.6173999905586243},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.6036999821662903},{"id":"https://openalex.org/C2779135771","wikidata":"https://www.wikidata.org/wiki/Q403574","display_name":"Named-entity recognition","level":3,"score":0.5235999822616577},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.5234000086784363},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.46399998664855957},{"id":"https://openalex.org/C192209626","wikidata":"https://www.wikidata.org/wiki/Q190909","display_name":"Focus (optics)","level":2,"score":0.396699994802475},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3831000030040741},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.37299999594688416},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3628999888896942},{"id":"https://openalex.org/C165141518","wikidata":"https://www.wikidata.org/wiki/Q4915126","display_name":"Biomedical text mining","level":3,"score":0.36160001158714294},{"id":"https://openalex.org/C2777889803","wikidata":"https://www.wikidata.org/wiki/Q25047676","display_name":"Named entity","level":2,"score":0.3467999994754791},{"id":"https://openalex.org/C153604712","wikidata":"https://www.wikidata.org/wiki/Q7310755","display_name":"Relationship extraction","level":3,"score":0.33070001006126404},{"id":"https://openalex.org/C2780130043","wikidata":"https://www.wikidata.org/wiki/Q192360","display_name":"Autoimmunity","level":3,"score":0.3255999982357025},{"id":"https://openalex.org/C155092808","wikidata":"https://www.wikidata.org/wiki/Q182557","display_name":"Computational linguistics","level":2,"score":0.3174999952316284},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.30410000681877136},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.29409998655319214},{"id":"https://openalex.org/C51632099","wikidata":"https://www.wikidata.org/wiki/Q3985153","display_name":"Training set","level":2,"score":0.28769999742507935}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.48550/arxiv.2606.13051","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2606.13051","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"Preprint"}],"best_oa_location":{"id":"doi:10.48550/arxiv.2606.13051","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2606.13051","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Preprint"},"sustainable_development_goals":[{"display_name":"Quality Education","score":0.6994389295578003,"id":"https://metadata.un.org/sdg/4"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":[],"abstract_inverted_index":{"Despite":[0],"advances":[1],"in":[2,16,63,128,136],"information":[3,126],"extraction":[4,127],"driven":[5],"by":[6],"deep":[7],"learning":[8],"and":[9,66,76,93,112,152],"large":[10],"language":[11],"models,":[12],"performance":[13,138],"gaps":[14],"remain":[15],"highly":[17],"specialized":[18,150],"biomedical":[19],"fields,":[20],"where":[21,39,88],"domainspecific":[22],"complexity":[23],"poses":[24],"challenges":[25],"for":[26,125,149],"generalist":[27],"models.":[28,117],"In":[29],"this":[30],"work,":[31],"we":[32,72,89],"focus":[33],"on":[34,104],"the":[35,40,64,105,121,129,143,155],"domain":[36,130],"of":[37,43,82,107,123,131,145,158],"autoimmunity,":[38,132],"main":[41],"entities":[42,92],"interest":[44],"are":[45],"autoimmune":[46],"diseases,":[47],"autoantibodies":[48],"(i.e.,":[49],"molecules":[50],"that":[51],"may":[52],"mark":[53],"or":[54],"cause":[55],"these":[56],"diseases),":[57],"their":[58,61,67,94],"molecular":[59],"targets,":[60],"location":[62],"body,":[65],"associated":[68],"clinical":[69],"signs.":[70],"Herein,":[71],"present":[73],"AAbAAC":[74,97,124,161],"(AutoAntibodies":[75],"Autoimmunity":[77],"Annotated":[78],"Corpus),":[79],"a":[80],"corpus":[81,162],"115":[83],"abstracts":[84],"selected":[85],"from":[86],"PubMed,":[87],"manually":[90],"annotated":[91],"relationships.":[95],"First,":[96],"was":[98],"used":[99],"to":[100,114,154],"evaluate":[101],"several":[102],"methods":[103],"task":[106],"named":[108],"entity":[109],"recognition":[110],"(NER),":[111],"secondly,":[113],"fine-tune":[115],"NER":[116,137],"Our":[118],"study":[119,157],"demonstrates":[120],"utility":[122],"showing":[133],"expected":[134],"improvement":[135],"after":[139],"finetuning.":[140],"This":[141],"illustrates":[142],"value":[144],"small-scale":[146],"annotation":[147],"efforts":[148],"domains":[151],"contributes":[153],"computational":[156],"autoimmunity.":[159],"The":[160],"is":[163],"available":[164],"at":[165],"https://github.com/f-maury/AAbAAC.":[166]},"counts_by_year":[],"updated_date":"2026-07-01T06:00:48.157686","created_date":"2026-06-13T00:00:00"}