{"id":"https://openalex.org/W2143705849","doi":"https://doi.org/10.1093/bioinformatics/btg094","title":"BioQuery: an object framework for buildingqueries to biomedical databases","display_name":"BioQuery: an object framework for buildingqueries to biomedical databases","publication_year":2003,"publication_date":"2003-04-30","ids":{"openalex":"https://openalex.org/W2143705849","doi":"https://doi.org/10.1093/bioinformatics/btg094","mag":"2143705849","pmid":"https://pubmed.ncbi.nlm.nih.gov/12724306"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btg094","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btg094","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/19/7/901/48904333/bioinformatics_19_7_901.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/19/7/901/48904333/bioinformatics_19_7_901.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5062794170","display_name":"James M. Brundege","orcid":null},"institutions":[{"id":"https://openalex.org/I165690674","display_name":"Oregon Health & Science University","ror":"https://ror.org/009avj582","country_code":"US","type":"education","lineage":["https://openalex.org/I165690674"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"James M. Brundege","raw_affiliation_strings":["Division of Medical Informatics and Outcomes Research, BICC Oregon Health & Science University, 3181 SW Sam Jackson Park Rd, Portland, OR 97239, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Medical Informatics and Outcomes Research, BICC Oregon Health & Science University, 3181 SW Sam Jackson Park Rd, Portland, OR 97239, USA","institution_ids":["https://openalex.org/I165690674"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5008812989","display_name":"Christopher Dubay","orcid":null},"institutions":[{"id":"https://openalex.org/I165690674","display_name":"Oregon Health & Science University","ror":"https://ror.org/009avj582","country_code":"US","type":"education","lineage":["https://openalex.org/I165690674"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Christopher Dubay","raw_affiliation_strings":["Division of Medical Informatics and Outcomes Research, BICC Oregon Health & Science University, 3181 SW Sam Jackson Park Rd, Portland, OR 97239, USA","Division of Medical Informatics and Outcomes Research, BICC#N#Oregon Health & Science University,#N#3181 SW Sam Jackson Park Rd,#N#Portland, OR 97239, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Medical Informatics and Outcomes Research, BICC Oregon Health & Science University, 3181 SW Sam Jackson Park Rd, Portland, OR 97239, USA","institution_ids":["https://openalex.org/I165690674"]},{"raw_affiliation_string":"Division of Medical Informatics and Outcomes Research, BICC#N#Oregon Health & Science University,#N#3181 SW Sam Jackson Park Rd,#N#Portland, OR 97239, USA","institution_ids":["https://openalex.org/I165690674"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I165690674"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.6637,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.87391975,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":"19","issue":"7","first_page":"901","last_page":"902"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.39879998564720154,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.39879998564720154,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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":0.2215999960899353,"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/T10885","display_name":"Gene expression and cancer classification","score":0.04879999905824661,"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":0.7693482041358948},{"id":"https://openalex.org/keywords/object","display_name":"Object (grammar)","score":0.6512296795845032},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.5830419659614563},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.47683826088905334},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1840997338294983}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7693482041358948},{"id":"https://openalex.org/C2781238097","wikidata":"https://www.wikidata.org/wiki/Q175026","display_name":"Object (grammar)","level":2,"score":0.6512296795845032},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.5830419659614563},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.47683826088905334},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1840997338294983}],"mesh":[{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009317","descriptor_name":"National Library of Medicine (U.S.)","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009317","descriptor_name":"National Library of Medicine (U.S.)","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009317","descriptor_name":"National Library of Medicine (U.S.)","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014481","descriptor_name":"United States","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014481","descriptor_name":"United States","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014481","descriptor_name":"United States","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019146","descriptor_name":"Hypermedia","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019146","descriptor_name":"Hypermedia","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019146","descriptor_name":"Hypermedia","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btg094","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btg094","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/19/7/901/48904333/bioinformatics_19_7_901.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:12724306","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/12724306","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btg094","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btg094","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/19/7/901/48904333/bioinformatics_19_7_901.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G518948517","display_name":null,"funder_award_id":"T15-LM07088-10","funder_id":"https://openalex.org/F4320337372","funder_display_name":"U.S. National Library of Medicine"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":7,"referenced_works":["https://openalex.org/W1649645444","https://openalex.org/W2054251921","https://openalex.org/W2060462217","https://openalex.org/W2096525273","https://openalex.org/W2098332091","https://openalex.org/W2112441656","https://openalex.org/W2164649389"],"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/W2478288626","https://openalex.org/W2350741829","https://openalex.org/W2530322880","https://openalex.org/W1596801655"],"abstract_inverted_index":{"SUMMARY:":[0],"BioQuery":[1,69],"is":[2,34,38,55],"an":[3],"application":[4,37],"that":[5,45,63],"helps":[6],"scientists":[7],"automate":[8],"database":[9,76],"searches.":[10],"Users":[11],"can":[12,46],"build":[13],"and":[14,21,79,82],"store":[15],"queries":[16,30],"to":[17,50,60,66,87,91,96],"public":[18],"biomedical":[19],"databases,":[20],"receive":[22],"periodic":[23],"updates":[24],"on":[25,40],"the":[26],"results":[27],"of":[28],"those":[29],"when":[31],"new":[32,67],"data":[33],"available.":[35],"The":[36],"implemented":[39],"a":[41,74,85],"portable":[42],"object":[43],"framework":[44,54],"provide":[47,64,88],"database-searching":[48,89],"capability":[49,90],"other":[51],"applications.":[52,93],"This":[53],"easily":[56],"extensible,":[57],"allowing":[58],"users":[59],"develop":[61],"plug-ins":[62],"access":[65],"databases.":[68],"thus":[70],"provides":[71],"end-users":[72],"with":[73],"complete":[75],"searching":[77],"interface":[78],"updating":[80],"service,":[81],"gives":[83],"developers":[84],"toolkit":[86],"their":[92],"AVAILABILITY:":[94],"Free":[95],"all":[97],"users:":[98],"http://www.bioquery.org.":[99]},"counts_by_year":[{"year":2026,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
