{"id":"https://openalex.org/W4387346458","doi":"https://doi.org/10.1145/3584371.3613022","title":"Leveraging Large Language Models for Automatic Hypotheses Testing over Heterogeneous Biological Databases","display_name":"Leveraging Large Language Models for Automatic Hypotheses Testing over Heterogeneous Biological Databases","publication_year":2023,"publication_date":"2023-09-03","ids":{"openalex":"https://openalex.org/W4387346458","doi":"https://doi.org/10.1145/3584371.3613022"},"language":"en","primary_location":{"id":"doi:10.1145/3584371.3613022","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3584371.3613022","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3584371.3613022","source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 14th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://dl.acm.org/doi/pdf/10.1145/3584371.3613022","any_repository_has_fulltext":null},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5030091324","display_name":"Hasan M. Jamil","orcid":"https://orcid.org/0000-0002-3124-3780"},"institutions":[{"id":"https://openalex.org/I155093810","display_name":"University of Idaho","ror":"https://ror.org/03hbp5t65","country_code":"US","type":"education","lineage":["https://openalex.org/I155093810"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Hasan M Jamil","raw_affiliation_strings":["Computer Science, University of Idaho, Moscow, ID, USA"],"raw_orcid":"https://orcid.org/0000-0002-3124-3780","affiliations":[{"raw_affiliation_string":"Computer Science, University of Idaho, Moscow, ID, USA","institution_ids":["https://openalex.org/I155093810"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045463023","display_name":"Stephen A. Krawetz","orcid":"https://orcid.org/0000-0002-7113-2364"},"institutions":[{"id":"https://openalex.org/I185443292","display_name":"Wayne State University","ror":"https://ror.org/01070mq45","country_code":"US","type":"education","lineage":["https://openalex.org/I185443292"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Stephen A Krawetz","raw_affiliation_strings":["School of Medicine, Wayne State University, Detroit, MI, USA"],"raw_orcid":"https://orcid.org/0000-0002-7113-2364","affiliations":[{"raw_affiliation_string":"School of Medicine, Wayne State University, Detroit, MI, USA","institution_ids":["https://openalex.org/I185443292"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5018916255","display_name":"Alexander Gow","orcid":"https://orcid.org/0000-0001-7446-8990"},"institutions":[{"id":"https://openalex.org/I185443292","display_name":"Wayne State University","ror":"https://ror.org/01070mq45","country_code":"US","type":"education","lineage":["https://openalex.org/I185443292"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alexander Gow","raw_affiliation_strings":["School of Medicine, Wayne State University, Detroit, MI, USA"],"raw_orcid":"https://orcid.org/0000-0001-7446-8990","affiliations":[{"raw_affiliation_string":"School of Medicine, Wayne State University, Detroit, MI, USA","institution_ids":["https://openalex.org/I185443292"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5030091324"],"corresponding_institution_ids":["https://openalex.org/I155093810"],"apc_list":null,"apc_paid":null,"fwci":0.194,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.56103956,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"2"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9951000213623047,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9951000213623047,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.989799976348877,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9855999946594238,"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/workflow","display_name":"Workflow","score":0.7253307104110718},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7251516580581665},{"id":"https://openalex.org/keywords/personalization","display_name":"Personalization","score":0.5427179336547852},{"id":"https://openalex.org/keywords/biological-database","display_name":"Biological database","score":0.509323239326477},{"id":"https://openalex.org/keywords/acute-pain","display_name":"Acute pain","score":0.5039348006248474},{"id":"https://openalex.org/keywords/chronic-pain","display_name":"Chronic pain","score":0.4899134039878845},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.48661503195762634},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.4714473485946655},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.44715189933776855},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.43389713764190674},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3010972738265991},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.2468523383140564},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.18120050430297852},{"id":"https://openalex.org/keywords/psychology","display_name":"Psychology","score":0.14419639110565186},{"id":"https://openalex.org/keywords/neuroscience","display_name":"Neuroscience","score":0.12125906348228455},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.11518514156341553},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.09438791871070862}],"concepts":[{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.7253307104110718},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7251516580581665},{"id":"https://openalex.org/C183003079","wikidata":"https://www.wikidata.org/wiki/Q1000371","display_name":"Personalization","level":2,"score":0.5427179336547852},{"id":"https://openalex.org/C20901353","wikidata":"https://www.wikidata.org/wiki/Q4117139","display_name":"Biological database","level":2,"score":0.509323239326477},{"id":"https://openalex.org/C2993997175","wikidata":"https://www.wikidata.org/wiki/Q81938","display_name":"Acute pain","level":2,"score":0.5039348006248474},{"id":"https://openalex.org/C2781118164","wikidata":"https://www.wikidata.org/wiki/Q1088113","display_name":"Chronic pain","level":2,"score":0.4899134039878845},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.48661503195762634},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.4714473485946655},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.44715189933776855},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.43389713764190674},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3010972738265991},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.2468523383140564},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.18120050430297852},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"score":0.14419639110565186},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.12125906348228455},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.11518514156341553},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.09438791871070862},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.0},{"id":"https://openalex.org/C42219234","wikidata":"https://www.wikidata.org/wiki/Q131130","display_name":"Anesthesia","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/3584371.3613022","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3584371.3613022","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3584371.3613022","source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 14th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics","raw_type":"proceedings-article"}],"best_oa_location":{"id":"doi:10.1145/3584371.3613022","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3584371.3613022","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3584371.3613022","source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 14th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics","raw_type":"proceedings-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G10708286","display_name":null,"funder_award_id":"OIA 2019609","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3599619881","display_name":null,"funder_award_id":"P20GM103408","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4387346458.pdf","grobid_xml":"https://content.openalex.org/works/W4387346458.grobid-xml"},"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2108595774","https://openalex.org/W2387713776","https://openalex.org/W2081035100","https://openalex.org/W2278173804","https://openalex.org/W3206324740","https://openalex.org/W87991986","https://openalex.org/W2497175360","https://openalex.org/W4363671771","https://openalex.org/W2767450342","https://openalex.org/W1557027842"],"abstract_inverted_index":{"An":[0],"understanding":[1],"of":[2,6,14,51,148],"the":[3,12,49,118,183],"molecular":[4,103,151,178],"basis":[5],"musculoskeletal":[7],"pain":[8,25,55],"is":[9,64,83],"necessary":[10],"for":[11,157,177],"development":[13],"therapeutics,":[15],"their":[16],"management,":[17],"and":[18,27,61,101,125,167,181],"possible":[19],"personalization.":[20],"One-in-three":[21],"Americans":[22,43],"use":[23,30,162],"OTC":[24],"killers,":[26],"one":[28],"tenth":[29],"prescription":[31],"drugs":[32],"to":[33,58,69,73,84,97,128,153,172],"manage":[34,76],"pain.":[35,47,106],"The":[36],"CDC":[37],"also":[38],"estimates":[39],"that":[40,66,93],"about":[41,117],"20%":[42],"suffer":[44],"from":[45,115,143],"chronic":[46,54],"As":[48],"experience":[50],"acute":[52],"or":[53,75,135],"varies":[56],"due":[57],"individual":[59],"genetics":[60],"physiology,":[62],"it":[63],"imperative":[65],"researchers":[67],"continue":[68],"find":[70],"novel":[71],"therapeutics":[72],"treat":[74],"symptoms.":[77],"In":[78,107],"this":[79],"paper,":[80],"our":[81,108],"goal":[82],"develop":[85],"a":[86,140,144,149,154,163],"seed":[87],"knowledgebase":[88],"computational":[89,155,175],"platform,":[90],"called":[91,133,170],"BioNursery,":[92],"will":[94],"allow":[95],"biologists":[96],"computationally":[98],"hypothesize,":[99],"define":[100],"test":[102],"mechanisms":[104],"underlying":[105],"knowledge":[109,184],"ecosystem,":[110],"we":[111],"accumulate":[112],"curated":[113],"information":[114],"users":[116],"relationships":[119],"among":[120],"biological":[121,130],"databases,":[122],"analysis":[123],"tools,":[124],"database":[126],"contents":[127],"generate":[129],"analyses":[131],"modules,":[132],"\u03c0-graphs,":[134],"process":[136],"graphs.":[137],"We":[138,161],"propose":[139],"mapping":[141],"function":[142],"natural":[145],"language":[146],"description":[147],"hypothesized":[150],"model":[152],"workflow":[156],"testing":[158],"in":[159],"BioNursery.":[160],"crowd":[164],"computing":[165],"feedback":[166],"curation":[168],"system,":[169],"Explorer,":[171],"improve":[173],"proposed":[174],"models":[176],"mechanism":[179],"discovery,":[180],"growing":[182],"ecosystem.":[185]},"counts_by_year":[{"year":2024,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
