{"id":"https://openalex.org/W4385572540","doi":"https://doi.org/10.18653/v1/2023.bionlp-1.22","title":"Automated Extraction of Molecular Interactions and Pathway Knowledge using Large Language Model, Galactica: Opportunities and Challenges","display_name":"Automated Extraction of Molecular Interactions and Pathway Knowledge using Large Language Model, Galactica: Opportunities and Challenges","publication_year":2023,"publication_date":"2023-01-01","ids":{"openalex":"https://openalex.org/W4385572540","doi":"https://doi.org/10.18653/v1/2023.bionlp-1.22"},"language":"en","primary_location":{"id":"doi:10.18653/v1/2023.bionlp-1.22","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/2023.bionlp-1.22","pdf_url":"https://aclanthology.org/2023.bionlp-1.22.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":"The 22nd Workshop on Biomedical Natural Language Processing and BioNLP Shared Tasks","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://aclanthology.org/2023.bionlp-1.22.pdf","any_repository_has_fulltext":null},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5021525568","display_name":"Gilchan Park","orcid":"https://orcid.org/0000-0002-0153-6646"},"institutions":[{"id":"https://openalex.org/I200870766","display_name":"Brookhaven National Laboratory","ror":"https://ror.org/02ex6cf31","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I200870766","https://openalex.org/I39565521","https://openalex.org/I4210142672"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Gilchan Park","raw_affiliation_strings":["Computational Science Initiative, Brookhaven National Laboratory, Upton, NY"],"affiliations":[{"raw_affiliation_string":"Computational Science Initiative, Brookhaven National Laboratory, Upton, NY","institution_ids":["https://openalex.org/I200870766"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081620315","display_name":"Byung-Jun Yoon","orcid":"https://orcid.org/0000-0001-9328-1101"},"institutions":[{"id":"https://openalex.org/I200870766","display_name":"Brookhaven National Laboratory","ror":"https://ror.org/02ex6cf31","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I200870766","https://openalex.org/I39565521","https://openalex.org/I4210142672"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Byung-Jun Yoon","raw_affiliation_strings":["Computational Science Initiative, Brookhaven National Laboratory, Upton, NY"],"affiliations":[{"raw_affiliation_string":"Computational Science Initiative, Brookhaven National Laboratory, Upton, NY","institution_ids":["https://openalex.org/I200870766"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071318806","display_name":"Xihaier Luo","orcid":"https://orcid.org/0000-0002-7621-940X"},"institutions":[{"id":"https://openalex.org/I200870766","display_name":"Brookhaven National Laboratory","ror":"https://ror.org/02ex6cf31","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I200870766","https://openalex.org/I39565521","https://openalex.org/I4210142672"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xihaier Luo","raw_affiliation_strings":["Computational Science Initiative, Brookhaven National Laboratory, Upton, NY"],"affiliations":[{"raw_affiliation_string":"Computational Science Initiative, Brookhaven National Laboratory, Upton, NY","institution_ids":["https://openalex.org/I200870766"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101604645","display_name":"Vanessa L\u00f3pez","orcid":"https://orcid.org/0009-0006-3952-4663"},"institutions":[{"id":"https://openalex.org/I200870766","display_name":"Brookhaven National Laboratory","ror":"https://ror.org/02ex6cf31","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I200870766","https://openalex.org/I39565521","https://openalex.org/I4210142672"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Vanessa Lpez-Marrero","raw_affiliation_strings":["Computational Science Initiative, Brookhaven National Laboratory, Upton, NY"],"affiliations":[{"raw_affiliation_string":"Computational Science Initiative, Brookhaven National Laboratory, Upton, NY","institution_ids":["https://openalex.org/I200870766"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077710687","display_name":"Patrick Johnstone","orcid":null},"institutions":[{"id":"https://openalex.org/I200870766","display_name":"Brookhaven National Laboratory","ror":"https://ror.org/02ex6cf31","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I200870766","https://openalex.org/I39565521","https://openalex.org/I4210142672"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Patrick Johnstone","raw_affiliation_strings":["Computational Science Initiative, Brookhaven National Laboratory, Upton, NY"],"affiliations":[{"raw_affiliation_string":"Computational Science Initiative, Brookhaven National Laboratory, Upton, NY","institution_ids":["https://openalex.org/I200870766"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048176207","display_name":"Shinjae Yoo","orcid":"https://orcid.org/0000-0003-4378-6448"},"institutions":[{"id":"https://openalex.org/I200870766","display_name":"Brookhaven National Laboratory","ror":"https://ror.org/02ex6cf31","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I200870766","https://openalex.org/I39565521","https://openalex.org/I4210142672"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shinjae Yoo","raw_affiliation_strings":["Computational Science Initiative, Brookhaven National Laboratory, Upton, NY"],"affiliations":[{"raw_affiliation_string":"Computational Science Initiative, Brookhaven National Laboratory, Upton, NY","institution_ids":["https://openalex.org/I200870766"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5013533662","display_name":"Francis J. Alexander","orcid":"https://orcid.org/0000-0001-9848-555X"},"institutions":[{"id":"https://openalex.org/I200870766","display_name":"Brookhaven National Laboratory","ror":"https://ror.org/02ex6cf31","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I200870766","https://openalex.org/I39565521","https://openalex.org/I4210142672"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Francis Alexander","raw_affiliation_strings":["Computational Science Initiative, Brookhaven National Laboratory, Upton, NY"],"affiliations":[{"raw_affiliation_string":"Computational Science Initiative, Brookhaven National Laboratory, Upton, NY","institution_ids":["https://openalex.org/I200870766"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5021525568"],"corresponding_institution_ids":["https://openalex.org/I200870766"],"apc_list":null,"apc_paid":null,"fwci":1.0536,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":{"value":0.77330332,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":null,"issue":null,"first_page":"255","last_page":"264"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9801999926567078,"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":0.9801999926567078,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9369000196456909,"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/computer-science","display_name":"Computer science","score":0.7125157117843628},{"id":"https://openalex.org/keywords/extraction","display_name":"Extraction (chemistry)","score":0.42760422825813293},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.3939511775970459},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.07970654964447021}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7125157117843628},{"id":"https://openalex.org/C4725764","wikidata":"https://www.wikidata.org/wiki/Q844704","display_name":"Extraction (chemistry)","level":2,"score":0.42760422825813293},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.3939511775970459},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.07970654964447021},{"id":"https://openalex.org/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.18653/v1/2023.bionlp-1.22","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/2023.bionlp-1.22","pdf_url":"https://aclanthology.org/2023.bionlp-1.22.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":"The 22nd Workshop on Biomedical Natural Language Processing and BioNLP Shared Tasks","raw_type":"proceedings-article"}],"best_oa_location":{"id":"doi:10.18653/v1/2023.bionlp-1.22","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/2023.bionlp-1.22","pdf_url":"https://aclanthology.org/2023.bionlp-1.22.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":"The 22nd Workshop on Biomedical Natural Language Processing and BioNLP Shared Tasks","raw_type":"proceedings-article"},"sustainable_development_goals":[{"score":0.8199999928474426,"id":"https://metadata.un.org/sdg/4","display_name":"Quality Education"}],"awards":[{"id":"https://openalex.org/G3434090788","display_name":null,"funder_award_id":"KP160101","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"}],"funders":[{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320332359","display_name":"Office of Science","ror":"https://ror.org/00mmn6b08"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4385572540.pdf"},"referenced_works_count":15,"referenced_works":["https://openalex.org/W1992045522","https://openalex.org/W2120261416","https://openalex.org/W2159482845","https://openalex.org/W2527801679","https://openalex.org/W2601884081","https://openalex.org/W2897805491","https://openalex.org/W2964348125","https://openalex.org/W3107527779","https://openalex.org/W3116802215","https://openalex.org/W4281557260","https://openalex.org/W4292779060","https://openalex.org/W4313527179","https://openalex.org/W4320005767","https://openalex.org/W4320024282","https://openalex.org/W4385573087"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2350741829","https://openalex.org/W2530322880","https://openalex.org/W1596801655","https://openalex.org/W2359140296"],"abstract_inverted_index":{"Gilchan":[0],"Park,":[1],"Byung-Jun":[2],"Yoon,":[3],"Xihaier":[4],"Luo,":[5],"Vanessa":[6],"Lpez-Marrero,":[7],"Patrick":[8],"Johnstone,":[9],"Shinjae":[10],"Yoo,":[11],"Francis":[12],"Alexander.":[13],"The":[14],"22nd":[15],"Workshop":[16],"on":[17],"Biomedical":[18],"Natural":[19],"Language":[20],"Processing":[21],"and":[22],"BioNLP":[23],"Shared":[24],"Tasks.":[25],"2023.":[26]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
