{"id":"https://openalex.org/W4377087476","doi":"https://doi.org/10.1093/nar/gkad391","title":"Genome Context Viewer (GCV) version 2: enhanced visual exploration of multiple annotated genomes","display_name":"Genome Context Viewer (GCV) version 2: enhanced visual exploration of multiple annotated genomes","publication_year":2023,"publication_date":"2023-05-19","ids":{"openalex":"https://openalex.org/W4377087476","doi":"https://doi.org/10.1093/nar/gkad391","pmid":"https://pubmed.ncbi.nlm.nih.gov/37207325"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkad391","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkad391","pdf_url":"https://academic.oup.com/nar/advance-article-pdf/doi/10.1093/nar/gkad391/50398618/gkad391.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","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/nar/advance-article-pdf/doi/10.1093/nar/gkad391/50398618/gkad391.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5012589523","display_name":"Alan Cleary","orcid":"https://orcid.org/0000-0002-6567-5346"},"institutions":[{"id":"https://openalex.org/I1310183320","display_name":"National Center for Genome Resources","ror":"https://ror.org/01p4cne93","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1310183320"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Alan M Cleary","raw_affiliation_strings":["National Center for Genome Resources , 2935 Rodeo Park Dr E, Santa Fe, NM 87505, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Genome Resources , 2935 Rodeo Park Dr E, Santa Fe, NM 87505, USA","institution_ids":["https://openalex.org/I1310183320"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5077194053","display_name":"Andrew Farmer","orcid":"https://orcid.org/0000-0002-4224-2433"},"institutions":[{"id":"https://openalex.org/I1310183320","display_name":"National Center for Genome Resources","ror":"https://ror.org/01p4cne93","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1310183320"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andrew D Farmer","raw_affiliation_strings":["National Center for Genome Resources , 2935 Rodeo Park Dr E, Santa Fe, NM 87505, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Genome Resources , 2935 Rodeo Park Dr E, Santa Fe, NM 87505, USA","institution_ids":["https://openalex.org/I1310183320"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5012589523"],"corresponding_institution_ids":["https://openalex.org/I1310183320"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":0.7894,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.72779153,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":98},"biblio":{"volume":"51","issue":"W1","first_page":"W225","last_page":"W231"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9994000196456909,"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":0.9994000196456909,"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/T10494","display_name":"Plant Virus Research Studies","score":0.9921000003814697,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10878","display_name":"CRISPR and Genetic Engineering","score":0.9830999970436096,"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/genome","display_name":"Genome","score":0.7861679792404175},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.6898094415664673},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.67903071641922},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.5050478577613831},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5026357173919678},{"id":"https://openalex.org/keywords/usability","display_name":"Usability","score":0.44525086879730225},{"id":"https://openalex.org/keywords/genome-browser","display_name":"Genome browser","score":0.4423838257789612},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3893386125564575},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.3632420301437378},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3003999590873718},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.23765504360198975},{"id":"https://openalex.org/keywords/human\u2013computer-interaction","display_name":"Human\u2013computer interaction","score":0.16746091842651367},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.15422603487968445}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.7861679792404175},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6898094415664673},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.67903071641922},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5050478577613831},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5026357173919678},{"id":"https://openalex.org/C170130773","wikidata":"https://www.wikidata.org/wiki/Q216378","display_name":"Usability","level":2,"score":0.44525086879730225},{"id":"https://openalex.org/C2781148417","wikidata":"https://www.wikidata.org/wiki/Q5533486","display_name":"Genome browser","level":5,"score":0.4423838257789612},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3893386125564575},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.3632420301437378},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3003999590873718},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.23765504360198975},{"id":"https://openalex.org/C107457646","wikidata":"https://www.wikidata.org/wiki/Q207434","display_name":"Human\u2013computer interaction","level":1,"score":0.16746091842651367},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.15422603487968445},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","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":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/nar/gkad391","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkad391","pdf_url":"https://academic.oup.com/nar/advance-article-pdf/doi/10.1093/nar/gkad391/50398618/gkad391.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:37207325","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37207325","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:10320139","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10320139","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10320139/pdf/gkad391.pdf","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":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkad391","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkad391","pdf_url":"https://academic.oup.com/nar/advance-article-pdf/doi/10.1093/nar/gkad391/50398618/gkad391.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G8918366421","display_name":null,"funder_award_id":"58-5030-2-036","funder_id":"https://openalex.org/F4320332605","funder_display_name":"Agricultural Research Service"}],"funders":[{"id":"https://openalex.org/F4320306114","display_name":"U.S. Department of Agriculture","ror":"https://ror.org/01na82s61"},{"id":"https://openalex.org/F4320332605","display_name":"Agricultural Research Service","ror":"https://ror.org/02d2m2044"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4377087476.pdf"},"referenced_works_count":35,"referenced_works":["https://openalex.org/W2003902046","https://openalex.org/W2012986985","https://openalex.org/W2020134788","https://openalex.org/W2087064593","https://openalex.org/W2088015737","https://openalex.org/W2138531137","https://openalex.org/W2141292707","https://openalex.org/W2151397621","https://openalex.org/W2158804744","https://openalex.org/W2160763289","https://openalex.org/W2171500866","https://openalex.org/W2179444328","https://openalex.org/W2514453727","https://openalex.org/W2564933558","https://openalex.org/W2597208441","https://openalex.org/W2768811744","https://openalex.org/W2899403800","https://openalex.org/W2953836633","https://openalex.org/W3044508150","https://openalex.org/W3109342845","https://openalex.org/W3159728495","https://openalex.org/W3213085595","https://openalex.org/W3213580375","https://openalex.org/W4205768821","https://openalex.org/W4214514396","https://openalex.org/W4220789952","https://openalex.org/W4225482312","https://openalex.org/W4240302460","https://openalex.org/W4245668478","https://openalex.org/W4309999671","https://openalex.org/W4318754259","https://openalex.org/W4319310735","https://openalex.org/W4366224338","https://openalex.org/W6632862882","https://openalex.org/W6756044937"],"related_works":["https://openalex.org/W189065216","https://openalex.org/W1603543036","https://openalex.org/W2521866209","https://openalex.org/W3023271652","https://openalex.org/W2101115907","https://openalex.org/W119390381","https://openalex.org/W2171769070","https://openalex.org/W1976142521","https://openalex.org/W4383032973","https://openalex.org/W2127177817"],"abstract_inverted_index":{"The":[0],"Genome":[1,38,92],"Context":[2,39,93],"Viewer":[3,40,94],"is":[4],"a":[5],"web":[6],"application":[7],"for":[8],"identifying,":[9],"aligning,":[10],"and":[11,19,35,43,65,68,95,103],"visualizing":[12],"genomic":[13],"regions":[14,47],"based":[15],"on":[16],"their":[17],"micro":[18],"macrosyntenic":[20],"structures.":[21],"By":[22],"using":[23],"functional":[24,81],"elements":[25],"such":[26],"as":[27,30],"gene":[28],"annotations":[29],"the":[31,37,91],"unit":[32],"of":[33,90,105],"search":[34],"comparison,":[36],"can":[41,72],"compute":[42],"display":[44],"relationships":[45],"between":[46],"across":[48],"many":[49],"assemblies":[50],"from":[51],"federated":[52],"data":[53],"sources":[54],"in":[55],"real-time,":[56],"enabling":[57],"users":[58],"to":[59],"rapidly":[60],"explore":[61],"multiple":[62],"annotated":[63],"genomes":[64],"identify":[66],"divergence":[67],"structural":[69],"events":[70],"that":[71,99],"help":[73],"provide":[74],"insight":[75],"into":[76],"evolutionary":[77],"mechanisms":[78],"associated":[79],"with":[80],"consequences.":[82],"In":[83],"this":[84],"work,":[85],"we":[86],"introduce":[87],"version":[88],"2":[89],"highlight":[96],"new":[97],"features":[98],"enhance":[100],"usability,":[101],"performance,":[102],"ease":[104],"deployment.":[106]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":4}],"updated_date":"2026-03-11T14:59:36.786465","created_date":"2025-10-10T00:00:00"}