{"id":"https://openalex.org/W2790574847","doi":"https://doi.org/10.1093/database/bay017","title":"Finding relevant biomedical datasets: the UC San Diego solution for the bioCADDIE Retrieval Challenge","display_name":"Finding relevant biomedical datasets: the UC San Diego solution for the bioCADDIE Retrieval Challenge","publication_year":2018,"publication_date":"2018-01-01","ids":{"openalex":"https://openalex.org/W2790574847","doi":"https://doi.org/10.1093/database/bay017","mag":"2790574847","pmid":"https://pubmed.ncbi.nlm.nih.gov/29688374"},"language":"en","primary_location":{"id":"doi:10.1093/database/bay017","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bay017","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bay017/27438323/bay017.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bay017/27438323/bay017.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100323807","display_name":"Wei Wei","orcid":"https://orcid.org/0000-0003-1759-4127"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Wei Wei","raw_affiliation_strings":["University of California, San Diego, 9500 Gilman Drive, MC 0728, La Jolla, CA 92093-0728, USA"],"affiliations":[{"raw_affiliation_string":"University of California, San Diego, 9500 Gilman Drive, MC 0728, La Jolla, CA 92093-0728, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045685285","display_name":"Zhanglong Ji","orcid":"https://orcid.org/0000-0002-7017-0289"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zhanglong Ji","raw_affiliation_strings":["University of California, San Diego, 9500 Gilman Drive, MC 0728, La Jolla, CA 92093-0728, USA"],"affiliations":[{"raw_affiliation_string":"University of California, San Diego, 9500 Gilman Drive, MC 0728, La Jolla, CA 92093-0728, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100677813","display_name":"Yupeng He","orcid":"https://orcid.org/0000-0001-9313-614X"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yupeng He","raw_affiliation_strings":["University of California, San Diego, 9500 Gilman Drive, MC 0728, La Jolla, CA 92093-0728, USA"],"affiliations":[{"raw_affiliation_string":"University of California, San Diego, 9500 Gilman Drive, MC 0728, La Jolla, CA 92093-0728, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100324053","display_name":"Kai Zhang","orcid":"https://orcid.org/0000-0003-3454-7357"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kai Zhang","raw_affiliation_strings":["University of California, San Diego, 9500 Gilman Drive, MC 0728, La Jolla, CA 92093-0728, USA"],"affiliations":[{"raw_affiliation_string":"University of California, San Diego, 9500 Gilman Drive, MC 0728, La Jolla, CA 92093-0728, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031827413","display_name":"Yuanchi Ha","orcid":null},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yuanchi Ha","raw_affiliation_strings":["University of California, San Diego, 9500 Gilman Drive, MC 0728, La Jolla, CA 92093-0728, USA"],"affiliations":[{"raw_affiliation_string":"University of California, San Diego, 9500 Gilman Drive, MC 0728, La Jolla, CA 92093-0728, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100350205","display_name":"Qi Li","orcid":"https://orcid.org/0000-0002-3136-2157"},"institutions":[{"id":"https://openalex.org/I168416876","display_name":"Northern Kentucky University","ror":"https://ror.org/01k44g025","country_code":"US","type":"education","lineage":["https://openalex.org/I168416876"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Qi Li","raw_affiliation_strings":["Department of Computer Science, Northern Kentucky University, Nunn Drive Highland Heights, KY 41099, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Northern Kentucky University, Nunn Drive Highland Heights, KY 41099, USA","institution_ids":["https://openalex.org/I168416876"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5084415954","display_name":"Lucila Ohno\u2010Machado","orcid":"https://orcid.org/0000-0002-8005-7327"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lucila Ohno-Machado","raw_affiliation_strings":["University of California, San Diego, 9500 Gilman Drive, MC 0728, La Jolla, CA 92093-0728, USA"],"affiliations":[{"raw_affiliation_string":"University of California, San Diego, 9500 Gilman Drive, MC 0728, La Jolla, CA 92093-0728, USA","institution_ids":["https://openalex.org/I36258959"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5100323807"],"corresponding_institution_ids":["https://openalex.org/I36258959"],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":1415,"currency":"GBP","value_usd":1735},"fwci":0.3711,"has_fulltext":true,"cited_by_count":9,"citation_normalized_percentile":{"value":0.59332214,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":"2018","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":0.9972000122070312,"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":0.9972000122070312,"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/T11986","display_name":"Scientific Computing and Data Management","score":0.9818999767303467,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9776999950408936,"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":0.6473246216773987},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.6226515769958496},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3731847107410431},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3698941469192505},{"id":"https://openalex.org/keywords/library-science","display_name":"Library science","score":0.3273118734359741}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6473246216773987},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.6226515769958496},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3731847107410431},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3698941469192505},{"id":"https://openalex.org/C161191863","wikidata":"https://www.wikidata.org/wiki/Q199655","display_name":"Library science","level":1,"score":0.3273118734359741}],"mesh":[{"descriptor_ui":"D000071253","descriptor_name":"Metadata","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000071253","descriptor_name":"Metadata","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000071253","descriptor_name":"Metadata","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000071253","descriptor_name":"Metadata","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002140","descriptor_name":"California","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002140","descriptor_name":"California","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002140","descriptor_name":"California","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002140","descriptor_name":"California","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/database/bay017","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bay017","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bay017/27438323/bay017.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},{"id":"pmid:29688374","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29688374","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":"Database : the journal of biological databases and curation","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:5861401","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5861401","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Database (Oxford)","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/database/bay017","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bay017","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bay017/27438323/bay017.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G319463894","display_name":null,"funder_award_id":"U24AI117966","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G3474375267","display_name":null,"funder_award_id":"U24AI117966","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2790574847.pdf","grobid_xml":"https://content.openalex.org/works/W2790574847.grobid-xml"},"referenced_works_count":28,"referenced_works":["https://openalex.org/W1521626219","https://openalex.org/W1557757161","https://openalex.org/W1990589796","https://openalex.org/W1993692165","https://openalex.org/W1995973936","https://openalex.org/W2013808584","https://openalex.org/W2063007776","https://openalex.org/W2075386236","https://openalex.org/W2083927153","https://openalex.org/W2096525273","https://openalex.org/W2118526609","https://openalex.org/W2120989936","https://openalex.org/W2122402213","https://openalex.org/W2124260444","https://openalex.org/W2125598167","https://openalex.org/W2134015035","https://openalex.org/W2134725489","https://openalex.org/W2232218540","https://openalex.org/W2486678281","https://openalex.org/W2547597780","https://openalex.org/W2572986783","https://openalex.org/W2604748391","https://openalex.org/W2618327808","https://openalex.org/W2774661587","https://openalex.org/W2785664611","https://openalex.org/W2950031835","https://openalex.org/W4242729757","https://openalex.org/W4244606935"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"https://github.com/w2wei/dataset_retrieval_pipeline.":[0]},"counts_by_year":[{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":3},{"year":2020,"cited_by_count":2},{"year":2018,"cited_by_count":2}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
