{"id":"https://openalex.org/W4392298248","doi":"https://doi.org/10.1186/s12859-024-05700-1","title":"CNCA aligns small annotated genomes","display_name":"CNCA aligns small annotated genomes","publication_year":2024,"publication_date":"2024-02-29","ids":{"openalex":"https://openalex.org/W4392298248","doi":"https://doi.org/10.1186/s12859-024-05700-1","pmid":"https://pubmed.ncbi.nlm.nih.gov/38424511"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-024-05700-1","is_oa":true,"landing_page_url":"http://dx.doi.org/10.1186/s12859-024-05700-1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-024-05700-1","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-024-05700-1","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5030849384","display_name":"Jean-No\u00ebl Lorenzi","orcid":"https://orcid.org/0000-0002-4520-1266"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I4210091437","display_name":"Sorbonne Paris Cit\u00e9","ror":"https://ror.org/001z21q04","country_code":"FR","type":"other","lineage":["https://openalex.org/I4210091437"]},{"id":"https://openalex.org/I4210113621","display_name":"Centre Interdisciplinaire de Recherche en Biologie","ror":"https://ror.org/01mvzn566","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I187986737","https://openalex.org/I4210096427","https://openalex.org/I4210113621"]},{"id":"https://openalex.org/I4210113761","display_name":"Institut Jacques Monod","ror":"https://ror.org/02c5gc203","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I204730241","https://openalex.org/I4210096427","https://openalex.org/I4210113761"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Jean-No\u00ebl Lorenzi","raw_affiliation_strings":["CNRS, Institut Jacques Monod, 75013, Paris, France. jean-noel.lorenzi@ijm.fr","SMILE Group, Center for Interdisciplinary Research in Biology (CIRB), Coll\u00e8ge de France, 75006, Paris, France. jean-noel.lorenzi@ijm.fr","Universit\u00e9 Paris Cit\u00e9, Paris, France. jean-noel.lorenzi@ijm.fr","Universit\u00e9 Paris Cit\u00e9, Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CNRS, Institut Jacques Monod, 75013, Paris, France. jean-noel.lorenzi@ijm.fr","institution_ids":["https://openalex.org/I4210113761","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"SMILE Group, Center for Interdisciplinary Research in Biology (CIRB), Coll\u00e8ge de France, 75006, Paris, France. jean-noel.lorenzi@ijm.fr","institution_ids":["https://openalex.org/I4210113621"]},{"raw_affiliation_string":"Universit\u00e9 Paris Cit\u00e9, Paris, France. jean-noel.lorenzi@ijm.fr","institution_ids":["https://openalex.org/I204730241","https://openalex.org/I4210091437"]},{"raw_affiliation_string":"Universit\u00e9 Paris Cit\u00e9, Paris, France","institution_ids":["https://openalex.org/I204730241"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091058563","display_name":"Fran\u00e7ois Graner","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I4210127056","display_name":"Laboratoire Mati\u00e8re et Syst\u00e8mes Complexes","ror":"https://ror.org/032w6q449","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I204730241","https://openalex.org/I4210095849","https://openalex.org/I4210127056"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Fran\u00e7ois Graner","raw_affiliation_strings":["CNRS, Mati\u00e8re Et Syst\u00e8mes Complexes, 75013, Paris, France","Universit\u00e9 Paris Cit\u00e9, Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CNRS, Mati\u00e8re Et Syst\u00e8mes Complexes, 75013, Paris, France","institution_ids":["https://openalex.org/I4210127056","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Universit\u00e9 Paris Cit\u00e9, Paris, France","institution_ids":["https://openalex.org/I204730241"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085752599","display_name":"Virginie Courtier\u2010Orgogozo","orcid":"https://orcid.org/0000-0002-9297-9230"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I4210113761","display_name":"Institut Jacques Monod","ror":"https://ror.org/02c5gc203","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I204730241","https://openalex.org/I4210096427","https://openalex.org/I4210113761"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Virginie Courtier-Orgogozo","raw_affiliation_strings":["CNRS, Institut Jacques Monod, 75013, Paris, France","Universit\u00e9 Paris Cit\u00e9, Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CNRS, Institut Jacques Monod, 75013, Paris, France","institution_ids":["https://openalex.org/I4210113761","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Universit\u00e9 Paris Cit\u00e9, Paris, France","institution_ids":["https://openalex.org/I204730241"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5010599097","display_name":"Guillaume Achaz","orcid":"https://orcid.org/0000-0003-4514-5935"},"institutions":[{"id":"https://openalex.org/I187986737","display_name":"Coll\u00e8ge de France","ror":"https://ror.org/04ex24z53","country_code":"FR","type":"education","lineage":["https://openalex.org/I187986737"]},{"id":"https://openalex.org/I4210113621","display_name":"Centre Interdisciplinaire de Recherche en Biologie","ror":"https://ror.org/01mvzn566","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I187986737","https://openalex.org/I4210096427","https://openalex.org/I4210113621"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Guillaume Achaz","raw_affiliation_strings":["SMILE Group, Center for Interdisciplinary Research in Biology (CIRB), Coll\u00e8ge de France, 75006, Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"SMILE Group, Center for Interdisciplinary Research in Biology (CIRB), Coll\u00e8ge de France, 75006, Paris, France","institution_ids":["https://openalex.org/I4210113621","https://openalex.org/I187986737"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5030849384"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I204730241","https://openalex.org/I4210091437","https://openalex.org/I4210113621","https://openalex.org/I4210113761"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.02388025,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"25","issue":"1","first_page":"89","last_page":"89"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.3253999948501587,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.3253999948501587,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.20919999480247498,"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/T12946","display_name":"Fractal and DNA sequence analysis","score":0.155799999833107,"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/genbank","display_name":"GenBank","score":0.7653599977493286},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6977553367614746},{"id":"https://openalex.org/keywords/multiple-sequence-alignment","display_name":"Multiple sequence alignment","score":0.6078895926475525},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5757690072059631},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.515284538269043},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.4794172942638397},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4759409427642822},{"id":"https://openalex.org/keywords/coding-region","display_name":"Coding region","score":0.47073614597320557},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.37351468205451965},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.32243597507476807},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.12370136380195618}],"concepts":[{"id":"https://openalex.org/C79029880","wikidata":"https://www.wikidata.org/wiki/Q901755","display_name":"GenBank","level":3,"score":0.7653599977493286},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6977553367614746},{"id":"https://openalex.org/C88031987","wikidata":"https://www.wikidata.org/wiki/Q1377767","display_name":"Multiple sequence alignment","level":5,"score":0.6078895926475525},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5757690072059631},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.515284538269043},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.4794172942638397},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4759409427642822},{"id":"https://openalex.org/C91779695","wikidata":"https://www.wikidata.org/wiki/Q3780824","display_name":"Coding region","level":3,"score":0.47073614597320557},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.37351468205451965},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.32243597507476807},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.12370136380195618}],"mesh":[{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1186/s12859-024-05700-1","is_oa":true,"landing_page_url":"http://dx.doi.org/10.1186/s12859-024-05700-1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-024-05700-1","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:38424511","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38424511","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:10905818","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10905818","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10905818/pdf/12859_2024_Article_5700.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","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:HAL:hal-04268598v2","is_oa":true,"landing_page_url":"https://hal.science/hal-04268598v2/document","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"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":"BMC Bioinformatics, 2024, 25 (1), pp.89. ⟨10.1186/s12859-024-05700-1⟩","raw_type":"Journal articles"},{"id":"pmh:oai:HAL:hal-04587208v1","is_oa":true,"landing_page_url":"https://u-paris.hal.science/hal-04587208","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"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":"ISSN: 1471-2105","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doaj.org/article:ace9c721d87c4923b2543bd3c4cd3250","is_oa":true,"landing_page_url":"https://doaj.org/article/ace9c721d87c4923b2543bd3c4cd3250","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 25, Iss 1, Pp 1-4 (2024)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s12859-024-05700-1","is_oa":true,"landing_page_url":"http://dx.doi.org/10.1186/s12859-024-05700-1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-024-05700-1","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2994974975","display_name":null,"funder_award_id":"18-IDEX-0001","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G3221280478","display_name":"Determinants de l'Identit\u00e9 : de la mol\u00e9cule \u00e0 l'individu","funder_award_id":"ANR-11-LABX-0071","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G6876561401","display_name":null,"funder_award_id":"ANR-18","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G8538166538","display_name":"Universit\u00e9 de Paris","funder_award_id":"ANR-18-IDEX-0001","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4392298248.pdf","grobid_xml":"https://content.openalex.org/works/W4392298248.grobid-xml"},"referenced_works_count":11,"referenced_works":["https://openalex.org/W1881907338","https://openalex.org/W1963957860","https://openalex.org/W1984814148","https://openalex.org/W1988652743","https://openalex.org/W2046183549","https://openalex.org/W2129775611","https://openalex.org/W2136872570","https://openalex.org/W2594397242","https://openalex.org/W2792034759","https://openalex.org/W2888308804","https://openalex.org/W2949123151"],"related_works":["https://openalex.org/W2051969447","https://openalex.org/W2111937814","https://openalex.org/W4388309930","https://openalex.org/W2162923930","https://openalex.org/W1482324242","https://openalex.org/W2357622017","https://openalex.org/W2133116680","https://openalex.org/W2091678889","https://openalex.org/W2029514038","https://openalex.org/W2149492307"],"abstract_inverted_index":{"BACKGROUND:":[0],"To":[1,53],"explore":[2],"the":[3,23,26,29,72,100,110,135],"evolutionary":[4],"history":[5],"of":[6,25,28,32,41,68,74,145],"sequences,":[7],"a":[8,12,79,91],"sequence":[9,102],"alignment":[10,40,93,108,112],"is":[11,20,57,78,95,138],"first":[13],"and":[14,17,50,113,152],"necessary":[15],"step,":[16],"its":[18],"quality":[19],"crucial.":[21],"In":[22],"context":[24],"study":[27],"proximal":[30],"origins":[31],"SARS-CoV-2":[33,46],"coronavirus,":[34],"we":[35],"wanted":[36],"to":[37,45,64,120,128],"construct":[38,65],"an":[39],"genomes":[42,85,147],"closely":[43,122],"related":[44,123],"using":[47],"both":[48,150],"coding":[49,151],"non-coding":[51,153,166],"sequences.":[52,154],"our":[54],"knowledge,":[55],"there":[56],"no":[58,115],"tool":[59,81],"that":[60,82,94],"can":[61],"be":[62],"used":[63],"this":[66],"type":[67],"alignment,":[69],"which":[70,134],"motivated":[71],"creation":[73],"CNCA.":[75],"RESULTS:":[76],"CNCA":[77,117,141],"web":[80],"aligns":[83],"annotated":[84],"from":[86],"GenBank":[87],"files.":[88],"It":[89],"generates":[90],"nucleotide":[92,107],"then":[96],"updated":[97],"based":[98],"on":[99],"protein":[101,111],"alignment.":[103],"The":[104],"output":[105],"final":[106],"matches":[109],"guarantees":[114],"frameshift.":[116],"was":[118],"designed":[119],"align":[121],"small":[124,146],"genome":[125],"sequences":[126],"up":[127],"50":[129],"kb":[130],"(typically":[131],"viruses)":[132],"for":[133],"gene":[136],"order":[137],"conserved.":[139],"CONCLUSIONS:":[140],"constructs":[142],"multiple":[143],"alignments":[144],"by":[148],"integrating":[149],"This":[155],"preserves":[156],"regions":[157],"traditionally":[158],"ignored":[159],"in":[160],"conventional":[161],"back-translation":[162],"methods,":[163],"such":[164],"as":[165],"regions.":[167]},"counts_by_year":[],"updated_date":"2026-06-22T08:00:12.763002","created_date":"2025-10-10T00:00:00"}