{"id":"https://openalex.org/W4399363678","doi":"https://doi.org/10.1093/bib/bbae263","title":"Efficient SARS-CoV-2 variant detection and monitoring with Spike Screen next-generation sequencing","display_name":"Efficient SARS-CoV-2 variant detection and monitoring with Spike Screen next-generation sequencing","publication_year":2024,"publication_date":"2024-05-23","ids":{"openalex":"https://openalex.org/W4399363678","doi":"https://doi.org/10.1093/bib/bbae263","pmid":"https://pubmed.ncbi.nlm.nih.gov/38833323"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbae263","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae263","pdf_url":"https://academic.oup.com/bib/article-pdf/25/4/bbae263/58084554/bbae263.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/25/4/bbae263/58084554/bbae263.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5058895573","display_name":"Alen Sulji\u010d","orcid":"https://orcid.org/0000-0002-4596-7931"},"institutions":[{"id":"https://openalex.org/I153976015","display_name":"University of Ljubljana","ror":"https://ror.org/05njb9z20","country_code":"SI","type":"education","lineage":["https://openalex.org/I153976015"]},{"id":"https://openalex.org/I3019592416","display_name":"Institute of Oncology Ljubljana","ror":"https://ror.org/00y5zsg21","country_code":"SI","type":"facility","lineage":["https://openalex.org/I3019592416"]}],"countries":["SI"],"is_corresponding":false,"raw_author_name":"Alen Sulji\u010d","raw_affiliation_strings":["Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia"],"raw_orcid":"https://orcid.org/0000-0002-4596-7931","affiliations":[{"raw_affiliation_string":"Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I3019592416"]},{"raw_affiliation_string":"University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039873606","display_name":"Toma\u017e Mark Zorec","orcid":"https://orcid.org/0000-0001-8191-0994"},"institutions":[{"id":"https://openalex.org/I153976015","display_name":"University of Ljubljana","ror":"https://ror.org/05njb9z20","country_code":"SI","type":"education","lineage":["https://openalex.org/I153976015"]},{"id":"https://openalex.org/I3019592416","display_name":"Institute of Oncology Ljubljana","ror":"https://ror.org/00y5zsg21","country_code":"SI","type":"facility","lineage":["https://openalex.org/I3019592416"]}],"countries":["SI"],"is_corresponding":false,"raw_author_name":"Toma\u017e Mark Zorec","raw_affiliation_strings":["Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I3019592416"]},{"raw_affiliation_string":"University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074916584","display_name":"Samo Zakotnik","orcid":"https://orcid.org/0000-0002-0478-2009"},"institutions":[{"id":"https://openalex.org/I153976015","display_name":"University of Ljubljana","ror":"https://ror.org/05njb9z20","country_code":"SI","type":"education","lineage":["https://openalex.org/I153976015"]},{"id":"https://openalex.org/I3019592416","display_name":"Institute of Oncology Ljubljana","ror":"https://ror.org/00y5zsg21","country_code":"SI","type":"facility","lineage":["https://openalex.org/I3019592416"]}],"countries":["SI"],"is_corresponding":false,"raw_author_name":"Samo Zakotnik","raw_affiliation_strings":["Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I3019592416"]},{"raw_affiliation_string":"University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056644646","display_name":"Doroteja Vlaj","orcid":null},"institutions":[{"id":"https://openalex.org/I153976015","display_name":"University of Ljubljana","ror":"https://ror.org/05njb9z20","country_code":"SI","type":"education","lineage":["https://openalex.org/I153976015"]},{"id":"https://openalex.org/I3019592416","display_name":"Institute of Oncology Ljubljana","ror":"https://ror.org/00y5zsg21","country_code":"SI","type":"facility","lineage":["https://openalex.org/I3019592416"]}],"countries":["SI"],"is_corresponding":false,"raw_author_name":"Doroteja Vlaj","raw_affiliation_strings":["Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I3019592416"]},{"raw_affiliation_string":"University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056379783","display_name":"Rok Kogoj","orcid":"https://orcid.org/0000-0002-8999-4923"},"institutions":[{"id":"https://openalex.org/I153976015","display_name":"University of Ljubljana","ror":"https://ror.org/05njb9z20","country_code":"SI","type":"education","lineage":["https://openalex.org/I153976015"]},{"id":"https://openalex.org/I3019592416","display_name":"Institute of Oncology Ljubljana","ror":"https://ror.org/00y5zsg21","country_code":"SI","type":"facility","lineage":["https://openalex.org/I3019592416"]}],"countries":["SI"],"is_corresponding":false,"raw_author_name":"Rok Kogoj","raw_affiliation_strings":["Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I3019592416"]},{"raw_affiliation_string":"University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000301078","display_name":"Nata\u0161a Knap","orcid":"https://orcid.org/0000-0002-8068-7302"},"institutions":[{"id":"https://openalex.org/I153976015","display_name":"University of Ljubljana","ror":"https://ror.org/05njb9z20","country_code":"SI","type":"education","lineage":["https://openalex.org/I153976015"]},{"id":"https://openalex.org/I3019592416","display_name":"Institute of Oncology Ljubljana","ror":"https://ror.org/00y5zsg21","country_code":"SI","type":"facility","lineage":["https://openalex.org/I3019592416"]}],"countries":["SI"],"is_corresponding":false,"raw_author_name":"Nata\u0161a Knap","raw_affiliation_strings":["Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I3019592416"]},{"raw_affiliation_string":"University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020417989","display_name":"Miroslav Petrovec","orcid":"https://orcid.org/0000-0001-8498-7786"},"institutions":[{"id":"https://openalex.org/I153976015","display_name":"University of Ljubljana","ror":"https://ror.org/05njb9z20","country_code":"SI","type":"education","lineage":["https://openalex.org/I153976015"]},{"id":"https://openalex.org/I3019592416","display_name":"Institute of Oncology Ljubljana","ror":"https://ror.org/00y5zsg21","country_code":"SI","type":"facility","lineage":["https://openalex.org/I3019592416"]}],"countries":["SI"],"is_corresponding":false,"raw_author_name":"Miroslav Petrovec","raw_affiliation_strings":["Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I3019592416"]},{"raw_affiliation_string":"University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062790218","display_name":"Mario Poljak","orcid":"https://orcid.org/0000-0002-3216-7564"},"institutions":[{"id":"https://openalex.org/I153976015","display_name":"University of Ljubljana","ror":"https://ror.org/05njb9z20","country_code":"SI","type":"education","lineage":["https://openalex.org/I153976015"]},{"id":"https://openalex.org/I3019592416","display_name":"Institute of Oncology Ljubljana","ror":"https://ror.org/00y5zsg21","country_code":"SI","type":"facility","lineage":["https://openalex.org/I3019592416"]}],"countries":["SI"],"is_corresponding":false,"raw_author_name":"Mario Poljak","raw_affiliation_strings":["Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I3019592416"]},{"raw_affiliation_string":"University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016870773","display_name":"Tatjana Av\u0161i\u010d\u2010\u017dupanc","orcid":"https://orcid.org/0000-0001-6243-0688"},"institutions":[{"id":"https://openalex.org/I153976015","display_name":"University of Ljubljana","ror":"https://ror.org/05njb9z20","country_code":"SI","type":"education","lineage":["https://openalex.org/I153976015"]},{"id":"https://openalex.org/I3019592416","display_name":"Institute of Oncology Ljubljana","ror":"https://ror.org/00y5zsg21","country_code":"SI","type":"facility","lineage":["https://openalex.org/I3019592416"]}],"countries":["SI"],"is_corresponding":false,"raw_author_name":"Tatjana Av\u0161i\u010d-\u017dupanc","raw_affiliation_strings":["Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I3019592416"]},{"raw_affiliation_string":"University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5053527974","display_name":"Mi\u0161a Korva","orcid":"https://orcid.org/0000-0003-1501-1004"},"institutions":[{"id":"https://openalex.org/I153976015","display_name":"University of Ljubljana","ror":"https://ror.org/05njb9z20","country_code":"SI","type":"education","lineage":["https://openalex.org/I153976015"]},{"id":"https://openalex.org/I3019592416","display_name":"Institute of Oncology Ljubljana","ror":"https://ror.org/00y5zsg21","country_code":"SI","type":"facility","lineage":["https://openalex.org/I3019592416"]}],"countries":["SI"],"is_corresponding":true,"raw_author_name":"Mi\u0161a Korva","raw_affiliation_strings":["Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia"],"raw_orcid":"https://orcid.org/0000-0003-1501-1004","affiliations":[{"raw_affiliation_string":"Institute of Microbiology and Immunology , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I3019592416"]},{"raw_affiliation_string":"University of Ljubljana , Faculty of Medicine, , Zalo\u0161ka cesta 4, 1000 Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5053527974"],"corresponding_institution_ids":["https://openalex.org/I153976015","https://openalex.org/I3019592416"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":0.9692,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.7359482,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"25","issue":"4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10118","display_name":"SARS-CoV-2 and COVID-19 Research","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T10118","display_name":"SARS-CoV-2 and COVID-19 Research","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10878","display_name":"CRISPR and Genetic Engineering","score":0.996999979019165,"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/T11754","display_name":"SARS-CoV-2 detection and testing","score":0.9944999814033508,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5918086767196655},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5663008093833923},{"id":"https://openalex.org/keywords/pooling","display_name":"Pooling","score":0.5661768913269043},{"id":"https://openalex.org/keywords/spike","display_name":"Spike (software development)","score":0.5588675737380981},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.5422088503837585},{"id":"https://openalex.org/keywords/severe-acute-respiratory-syndrome-coronavirus-2","display_name":"Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)","score":0.4998652935028076},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.48692381381988525},{"id":"https://openalex.org/keywords/whole-genome-sequencing","display_name":"Whole genome sequencing","score":0.4837605953216553},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.47545525431632996},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.44944384694099426},{"id":"https://openalex.org/keywords/coronavirus-disease-2019","display_name":"Coronavirus disease 2019 (COVID-19)","score":0.4013727009296417},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.32205379009246826},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.23382219672203064},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.17972558736801147},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.09814909100532532}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5918086767196655},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5663008093833923},{"id":"https://openalex.org/C70437156","wikidata":"https://www.wikidata.org/wiki/Q7228652","display_name":"Pooling","level":2,"score":0.5661768913269043},{"id":"https://openalex.org/C2781390188","wikidata":"https://www.wikidata.org/wiki/Q25203449","display_name":"Spike (software development)","level":2,"score":0.5588675737380981},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.5422088503837585},{"id":"https://openalex.org/C3007834351","wikidata":"https://www.wikidata.org/wiki/Q82069695","display_name":"Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)","level":5,"score":0.4998652935028076},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.48692381381988525},{"id":"https://openalex.org/C24432333","wikidata":"https://www.wikidata.org/wiki/Q2068526","display_name":"Whole genome sequencing","level":4,"score":0.4837605953216553},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.47545525431632996},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.44944384694099426},{"id":"https://openalex.org/C3008058167","wikidata":"https://www.wikidata.org/wiki/Q84263196","display_name":"Coronavirus disease 2019 (COVID-19)","level":4,"score":0.4013727009296417},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.32205379009246826},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.23382219672203064},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.17972558736801147},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.09814909100532532},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.0},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.0},{"id":"https://openalex.org/C99454951","wikidata":"https://www.wikidata.org/wiki/Q932068","display_name":"Environmental health","level":1,"score":0.0},{"id":"https://openalex.org/C524204448","wikidata":"https://www.wikidata.org/wiki/Q788926","display_name":"Infectious disease (medical specialty)","level":3,"score":0.0},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":true},{"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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016679","descriptor_name":"Genome, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016679","descriptor_name":"Genome, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016679","descriptor_name":"Genome, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016679","descriptor_name":"Genome, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016679","descriptor_name":"Genome, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017524","descriptor_name":"Slovenia","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":false},{"descriptor_ui":"D017524","descriptor_name":"Slovenia","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":false},{"descriptor_ui":"D017524","descriptor_name":"Slovenia","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":false},{"descriptor_ui":"D017524","descriptor_name":"Slovenia","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":false},{"descriptor_ui":"D017524","descriptor_name":"Slovenia","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1093/bib/bbae263","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae263","pdf_url":"https://academic.oup.com/bib/article-pdf/25/4/bbae263/58084554/bbae263.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:38833323","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38833323","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:d.cobiss.net/repository/si:199443203","is_oa":false,"landing_page_url":"https://plus.cobiss.net/cobiss/si/en/bib/199443203","pdf_url":null,"source":{"id":"https://openalex.org/S7407055177","display_name":"dCOBISS.SI Digital Repository","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"COBISS-ID: 3210260","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:11149657","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11149657","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11149657/pdf/bbae263.pdf","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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"},{"id":"pmh:oai:repozitorij.uni-lj.si:IzpisGradiva.php?id=182106","is_oa":true,"landing_page_url":"https://repozitorij.uni-lj.si/IzpisGradiva.php?id=182106","pdf_url":null,"source":{"id":"https://openalex.org/S4377196268","display_name":"Repository of the University of Ljubljana (University of Ljubljana)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I153976015","host_organization_name":"University of Ljubljana","host_organization_lineage":["https://openalex.org/I153976015"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ISSN: 1477-4054","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bib/bbae263","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae263","pdf_url":"https://academic.oup.com/bib/article-pdf/25/4/bbae263/58084554/bbae263.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":[{"display_name":"Good health and well-being","score":0.7599999904632568,"id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G4097513397","display_name":"European Virus Archive GLOBAL","funder_award_id":"871029","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G6122222817","display_name":null,"funder_award_id":"COVID-19","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G7842005466","display_name":null,"funder_award_id":"Horizon 2020","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"}],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320324592","display_name":"Univerza v Ljubljani","ror":"https://ror.org/05njb9z20"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4399363678.pdf"},"referenced_works_count":45,"referenced_works":["https://openalex.org/W1950607980","https://openalex.org/W2103441770","https://openalex.org/W2106578986","https://openalex.org/W2118545611","https://openalex.org/W2184614800","https://openalex.org/W2767318416","https://openalex.org/W2888412319","https://openalex.org/W2902664755","https://openalex.org/W2909483606","https://openalex.org/W2952946229","https://openalex.org/W3009335299","https://openalex.org/W3015221790","https://openalex.org/W3043124965","https://openalex.org/W3046843764","https://openalex.org/W3131055609","https://openalex.org/W3131982567","https://openalex.org/W3162952890","https://openalex.org/W3165479483","https://openalex.org/W3180160398","https://openalex.org/W3198449348","https://openalex.org/W3205599432","https://openalex.org/W3212130634","https://openalex.org/W4200429845","https://openalex.org/W4210418782","https://openalex.org/W4221092123","https://openalex.org/W4223897534","https://openalex.org/W4226027283","https://openalex.org/W4283577299","https://openalex.org/W4283654132","https://openalex.org/W4285730114","https://openalex.org/W4285730961","https://openalex.org/W4296897152","https://openalex.org/W4300863046","https://openalex.org/W4308205086","https://openalex.org/W4309338001","https://openalex.org/W4311832142","https://openalex.org/W4317212025","https://openalex.org/W4319303789","https://openalex.org/W4319984406","https://openalex.org/W4321611793","https://openalex.org/W4367056632","https://openalex.org/W4387701156","https://openalex.org/W4391280459","https://openalex.org/W6640708147","https://openalex.org/W6848776366"],"related_works":["https://openalex.org/W2953234277","https://openalex.org/W2626256601","https://openalex.org/W147410782","https://openalex.org/W2900413183","https://openalex.org/W4390975304","https://openalex.org/W3022252430","https://openalex.org/W4287804464","https://openalex.org/W3103989898","https://openalex.org/W3211292372","https://openalex.org/W803346624"],"abstract_inverted_index":{"The":[0,153,203],"emergence":[1],"and":[2,18,71,86,105,121,130,143,190,194,199,229,239],"rapid":[3,230],"spread":[4,46],"of":[5,47,115,127,132,147,160,219,232],"SARS-CoV-2":[6,107],"prompted":[7],"the":[8,20,28,34,45,145,150,236],"global":[9],"community":[10],"to":[11,15,37,41,44,54,118,165,212],"identify":[12],"innovative":[13],"approaches":[14],"diagnose":[16],"infection":[17],"sequence":[19],"viral":[21],"genome":[22,61],"because":[23],"at":[24,149,235],"several":[25],"points":[26],"in":[27,111,140,182,221],"pandemic":[29],"positive":[30],"case":[31],"numbers":[32],"exceeded":[33],"laboratory":[35],"capacity":[36,226],"characterize":[38],"sufficient":[39],"samples":[40,180,220],"adequately":[42],"respond":[43],"emerging":[48],"variants.":[49],"From":[50],"week":[51,55,187,191,196,200],"10,":[52],"2020,":[53,189],"13,":[56],"2023,":[57],"Slovenian":[58],"routine":[59],"complete":[60,69],"sequencing":[62,94,225],"(CGS)":[63],"surveillance":[64,97],"network":[65],"yielded":[66],"41":[67],"537":[68],"genomes":[70],"revealed":[72],"a":[73,91,243],"typical":[74],"molecular":[75],"epidemiology":[76],"with":[77,113,175,223],"early":[78],"lineages":[79],"gradually":[80],"being":[81],"replaced":[82],"by":[83,168],"Alpha,":[84],"Delta,":[85],"finally":[87],"Omicron.":[88],"We":[89],"developed":[90],"targeted":[92],"next-generation":[93],"based":[95],"variant":[96,126,131],"strategy":[98,154],"dubbed":[99],"Spike":[100,123,170,207],"Screen":[101,124,171,208],"through":[102,227],"sample":[103,141],"pooling":[104],"selective":[106],"spike":[108],"gene":[109],"amplification":[110],"conjunction":[112],"CGS":[114,173],"individual":[116],"cases":[117],"increase":[119],"throughput":[120],"cost-effectiveness.":[122],"identifies":[125],"concern":[128],"(VOC)":[129],"interest":[133],"(VOI)":[134],"signature":[135],"mutations,":[136],"analyses":[137],"their":[138,166],"frequencies":[139],"pools,":[142],"calculates":[144],"number":[146],"VOCs/VOIs":[148],"population":[151,237],"level.":[152],"was":[155],"successfully":[156],"applied":[157,211],"for":[158,245],"detection":[159,231],"specific":[161],"VOC/VOI":[162,214],"mutations":[163,215],"prior":[164],"confirmation":[167],"CGS.":[169],"complemented":[172],"efforts":[174],"an":[176],"additional":[177],"22":[178],"897":[179],"sequenced":[181],"two":[183],"time":[184],"periods:":[185],"between":[186,195],"42,":[188],"24,":[192],"2021,":[193,198],"37,":[197],"2,":[201],"2022.":[202],"results":[204],"showed":[205],"that":[206],"can":[209,240],"be":[210],"monitor":[213],"among":[216],"large":[217],"volumes":[218],"settings":[222],"limited":[224],"reliable":[228],"novel":[233],"variants":[234],"level":[238],"serve":[241],"as":[242],"basis":[244],"public":[246],"health":[247],"policy":[248],"planning.":[249]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1}],"updated_date":"2026-07-10T07:45:09.275182","created_date":"2025-10-10T00:00:00"}
