{"id":"https://openalex.org/W4412784995","doi":"https://doi.org/10.1093/bib/bbaf356","title":"A comparative review of short genetic variant databases across humans and animal species","display_name":"A comparative review of short genetic variant databases across humans and animal species","publication_year":2025,"publication_date":"2025-07-01","ids":{"openalex":"https://openalex.org/W4412784995","doi":"https://doi.org/10.1093/bib/bbaf356","pmid":"https://pubmed.ncbi.nlm.nih.gov/40736747"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaf356","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf356","pdf_url":"https://academic.oup.com/bib/article-pdf/26/4/bbaf356/63891951/bbaf356.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","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/bib/article-pdf/26/4/bbaf356/63891951/bbaf356.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5055531381","display_name":"Samantha L. Van Buren","orcid":"https://orcid.org/0000-0003-1399-9637"},"institutions":[{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Samantha L Van Buren","raw_affiliation_strings":["Department of Population Health and Reproduction, School of Veterinary Medicine, University of California Davis , One Shields Ave Davis, CA 95616 ,","Department of Population Health and Reproduction, School of Veterinary Medicine, University of California Davis, One Shields Ave Davis, CA 95616, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Population Health and Reproduction, School of Veterinary Medicine, University of California Davis , One Shields Ave Davis, CA 95616 ,","institution_ids":["https://openalex.org/I84218800"]},{"raw_affiliation_string":"Department of Population Health and Reproduction, School of Veterinary Medicine, University of California Davis, One Shields Ave Davis, CA 95616, United States","institution_ids":["https://openalex.org/I84218800"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036229691","display_name":"C. Titus Brown","orcid":"https://orcid.org/0000-0001-6001-2677"},"institutions":[{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"C Titus Brown","raw_affiliation_strings":["Department of Population Health and Reproduction, School of Veterinary Medicine, University of California Davis , One Shields Ave Davis, CA 95616 ,","Department of Population Health and Reproduction, School of Veterinary Medicine, University of California Davis, One Shields Ave Davis, CA 95616, United States"],"raw_orcid":"https://orcid.org/0000-0001-6001-2677","affiliations":[{"raw_affiliation_string":"Department of Population Health and Reproduction, School of Veterinary Medicine, University of California Davis , One Shields Ave Davis, CA 95616 ,","institution_ids":["https://openalex.org/I84218800"]},{"raw_affiliation_string":"Department of Population Health and Reproduction, School of Veterinary Medicine, University of California Davis, One Shields Ave Davis, CA 95616, United States","institution_ids":["https://openalex.org/I84218800"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084196958","display_name":"Tomasz Szmato\u0142a","orcid":"https://orcid.org/0000-0003-1588-4198"},"institutions":[{"id":"https://openalex.org/I3019092743","display_name":"University of Agriculture in Krakow","ror":"https://ror.org/012dxyr07","country_code":"PL","type":"education","lineage":["https://openalex.org/I3019092743"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Tomasz Szmato\u0142a","raw_affiliation_strings":["Center for Experimental and Innovative Medicine, University of Agriculture in Krakow , R\u0119dzina 1c, 30-248 Krak\u00f3w ,","Center for Experimental and Innovative Medicine, University of Agriculture in Krakow, R\u0119dzina 1c, 30-248 Krak\u00f3w, Poland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Experimental and Innovative Medicine, University of Agriculture in Krakow , R\u0119dzina 1c, 30-248 Krak\u00f3w ,","institution_ids":["https://openalex.org/I3019092743"]},{"raw_affiliation_string":"Center for Experimental and Innovative Medicine, University of Agriculture in Krakow, R\u0119dzina 1c, 30-248 Krak\u00f3w, Poland","institution_ids":["https://openalex.org/I3019092743"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5045863299","display_name":"Carrie J. Finno","orcid":"https://orcid.org/0000-0001-5924-0234"},"institutions":[{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Carrie J Finno","raw_affiliation_strings":["Department of Population Health and Reproduction, School of Veterinary Medicine, University of California Davis , One Shields Ave Davis, CA 95616 ,","Department of Population Health and Reproduction, School of Veterinary Medicine, University of California Davis, One Shields Ave Davis, CA 95616, United States"],"raw_orcid":"https://orcid.org/0000-0001-5924-0234","affiliations":[{"raw_affiliation_string":"Department of Population Health and Reproduction, School of Veterinary Medicine, University of California Davis , One Shields Ave Davis, CA 95616 ,","institution_ids":["https://openalex.org/I84218800"]},{"raw_affiliation_string":"Department of Population Health and Reproduction, School of Veterinary Medicine, University of California Davis, One Shields Ave Davis, CA 95616, United States","institution_ids":["https://openalex.org/I84218800"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":1.7397,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.84596697,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":99},"biblio":{"volume":"26","issue":"4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9991000294685364,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9991000294685364,"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/T10012","display_name":"Genetic diversity and population structure","score":0.9984999895095825,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10751","display_name":"Forensic and Genetic Research","score":0.9955000281333923,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/genetic-variation","display_name":"Genetic variation","score":0.5509348511695862},{"id":"https://openalex.org/keywords/variation","display_name":"Variation (astronomy)","score":0.5286945104598999},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.4950472414493561},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4899279475212097},{"id":"https://openalex.org/keywords/genetic-variants","display_name":"Genetic variants","score":0.47741758823394775},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4449882209300995},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.4288247525691986},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.32090359926223755},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.29090648889541626},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1625935435295105},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1361398696899414},{"id":"https://openalex.org/keywords/genotype","display_name":"Genotype","score":0.10035857558250427}],"concepts":[{"id":"https://openalex.org/C68873052","wikidata":"https://www.wikidata.org/wiki/Q349856","display_name":"Genetic variation","level":3,"score":0.5509348511695862},{"id":"https://openalex.org/C2778334786","wikidata":"https://www.wikidata.org/wiki/Q1586270","display_name":"Variation (astronomy)","level":2,"score":0.5286945104598999},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.4950472414493561},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4899279475212097},{"id":"https://openalex.org/C2993967602","wikidata":"https://www.wikidata.org/wiki/Q5532932","display_name":"Genetic variants","level":4,"score":0.47741758823394775},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4449882209300995},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.4288247525691986},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.32090359926223755},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.29090648889541626},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1625935435295105},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1361398696899414},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.10035857558250427},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C44870925","wikidata":"https://www.wikidata.org/wiki/Q37547","display_name":"Astrophysics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013045","descriptor_name":"Species Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013045","descriptor_name":"Species Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013045","descriptor_name":"Species Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013045","descriptor_name":"Species Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbaf356","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf356","pdf_url":"https://academic.oup.com/bib/article-pdf/26/4/bbaf356/63891951/bbaf356.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40736747","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40736747","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:12309242","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12309242","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbaf356","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf356","pdf_url":"https://academic.oup.com/bib/article-pdf/26/4/bbaf356/63891951/bbaf356.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.699999988079071,"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320311505","display_name":"School of Veterinary Medicine, University of California, Davis","ror":"https://ror.org/05rrcem69"},{"id":"https://openalex.org/F4320332564","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69"},{"id":"https://openalex.org/F4320337896","display_name":"UC Davis Center for Equine Health","ror":null}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4412784995.pdf"},"referenced_works_count":39,"referenced_works":["https://openalex.org/W1912672559","https://openalex.org/W2051317473","https://openalex.org/W2051978340","https://openalex.org/W2110523081","https://openalex.org/W2122732537","https://openalex.org/W2467159710","https://openalex.org/W2519989212","https://openalex.org/W2765284763","https://openalex.org/W2899154704","https://openalex.org/W2949934356","https://openalex.org/W2953226067","https://openalex.org/W2957375864","https://openalex.org/W2963747872","https://openalex.org/W2968499116","https://openalex.org/W2989100769","https://openalex.org/W3035027294","https://openalex.org/W3083985197","https://openalex.org/W3099124058","https://openalex.org/W3126160703","https://openalex.org/W3131055609","https://openalex.org/W3155409921","https://openalex.org/W3193282648","https://openalex.org/W3205371628","https://openalex.org/W3210531406","https://openalex.org/W4210266986","https://openalex.org/W4213328665","https://openalex.org/W4280492755","https://openalex.org/W4286797671","https://openalex.org/W4294012180","https://openalex.org/W4307362091","https://openalex.org/W4307362411","https://openalex.org/W4377832172","https://openalex.org/W4385811244","https://openalex.org/W4388615740","https://openalex.org/W4388615950","https://openalex.org/W4388928506","https://openalex.org/W4389142474","https://openalex.org/W4392615569","https://openalex.org/W4404225842"],"related_works":["https://openalex.org/W2386430105","https://openalex.org/W2356521405","https://openalex.org/W2038534795","https://openalex.org/W4205675103","https://openalex.org/W4398166144","https://openalex.org/W2606530976","https://openalex.org/W1613639794","https://openalex.org/W2910000216","https://openalex.org/W2791197909","https://openalex.org/W3031158976"],"abstract_inverted_index":{"Understanding":[0],"genetic":[1,17,35,41,93],"variation":[2,94],"is":[3,87],"necessary":[4],"to":[5,88],"unravel":[6],"the":[7,34,47,69],"complexities":[8],"of":[9,37],"evolution":[10],"and":[11,53,73,82,103,109],"diverse":[12],"traits":[13],"across":[14,95],"species.":[15,65],"Short":[16],"variants":[18],"(<50":[19],"bp":[20],"in":[21,32,91],"length)":[22],"represent":[23],"key":[24],"genomic":[25],"variations":[26],"that":[27,76],"play":[28],"a":[29],"crucial":[30],"role":[31],"shaping":[33],"landscape":[36],"populations.":[38],"Human":[39],"short":[40],"variant":[42,51,59],"databases":[43,60],"are":[44],"often":[45],"considered":[46],"gold":[48],"standard":[49],"for":[50,62,99,107],"repositories,":[52],"this":[54],"review":[55,67],"compares":[56],"them":[57],"with":[58],"created":[61],"various":[63,74],"animal":[64,83],"This":[66],"examines":[68],"methodologies,":[70],"data":[71],"integration,":[72],"applications":[75],"differ":[77],"or":[78],"align":[79],"between":[80],"human":[81],"databases.":[84],"The":[85],"goal":[86],"identify":[89],"challenges":[90],"leveraging":[92],"species,":[96],"recommend":[97],"strategies":[98],"overcoming":[100],"these":[101],"challenges,":[102],"suggest":[104],"future":[105],"directions":[106],"research":[108],"database":[110],"development.":[111]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":1}],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2025-10-10T00:00:00"}
