{"id":"https://openalex.org/W4402894605","doi":"https://doi.org/10.3389/fbinf.2024.1397036","title":"Pangenome comparison via ED strings","display_name":"Pangenome comparison via ED strings","publication_year":2024,"publication_date":"2024-09-26","ids":{"openalex":"https://openalex.org/W4402894605","doi":"https://doi.org/10.3389/fbinf.2024.1397036","pmid":"https://pubmed.ncbi.nlm.nih.gov/39391331"},"language":"en","primary_location":{"id":"doi:10.3389/fbinf.2024.1397036","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2024.1397036","pdf_url":null,"source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.3389/fbinf.2024.1397036","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5057312811","display_name":"Est\u00e9ban Gabory","orcid":"https://orcid.org/0000-0002-9897-1512"},"institutions":[{"id":"https://openalex.org/I1341640284","display_name":"Centrum Wiskunde & Informatica","ror":"https://ror.org/00x7ekv49","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1341640284","https://openalex.org/I2800991832"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Esteban Gabory","raw_affiliation_strings":["Centrum Wiskunde & Informatica, Amsterdam, Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centrum Wiskunde & Informatica, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I1341640284"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059393743","display_name":"Moses Njagi Mwaniki","orcid":"https://orcid.org/0000-0002-4858-2375"},"institutions":[{"id":"https://openalex.org/I108290504","display_name":"University of Pisa","ror":"https://ror.org/03ad39j10","country_code":"IT","type":"education","lineage":["https://openalex.org/I108290504"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Moses Njagi Mwaniki","raw_affiliation_strings":["Department of Computer Science, University of Pisa, Pisa, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Pisa, Pisa, Italy","institution_ids":["https://openalex.org/I108290504"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081785647","display_name":"Nadia Pisanti","orcid":"https://orcid.org/0000-0003-3915-7665"},"institutions":[{"id":"https://openalex.org/I108290504","display_name":"University of Pisa","ror":"https://ror.org/03ad39j10","country_code":"IT","type":"education","lineage":["https://openalex.org/I108290504"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Nadia Pisanti","raw_affiliation_strings":["Department of Computer Science, University of Pisa, Pisa, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Pisa, Pisa, Italy","institution_ids":["https://openalex.org/I108290504"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051275317","display_name":"Solon P. Pissis","orcid":"https://orcid.org/0000-0002-1445-1932"},"institutions":[{"id":"https://openalex.org/I1341640284","display_name":"Centrum Wiskunde & Informatica","ror":"https://ror.org/00x7ekv49","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1341640284","https://openalex.org/I2800991832"]},{"id":"https://openalex.org/I865915315","display_name":"Vrije Universiteit Amsterdam","ror":"https://ror.org/008xxew50","country_code":"NL","type":"education","lineage":["https://openalex.org/I865915315"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Solon P. Pissis","raw_affiliation_strings":["Centrum Wiskunde & Informatica, Amsterdam, Netherlands","Department of Computer Science, Vrije Universiteit, Amsterdam, Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centrum Wiskunde & Informatica, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I1341640284"]},{"raw_affiliation_string":"Department of Computer Science, Vrije Universiteit, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I865915315"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082711976","display_name":"Jakub Radoszewski","orcid":"https://orcid.org/0000-0002-0067-6401"},"institutions":[{"id":"https://openalex.org/I4654613","display_name":"University of Warsaw","ror":"https://ror.org/039bjqg32","country_code":"PL","type":"education","lineage":["https://openalex.org/I4654613"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Jakub Radoszewski","raw_affiliation_strings":["Institute of Informatics, University of Warsaw, Warsaw, Poland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Informatics, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029963514","display_name":"Michelle Sweering","orcid":"https://orcid.org/0000-0003-1200-6015"},"institutions":[{"id":"https://openalex.org/I1341640284","display_name":"Centrum Wiskunde & Informatica","ror":"https://ror.org/00x7ekv49","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1341640284","https://openalex.org/I2800991832"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Michelle Sweering","raw_affiliation_strings":["Centrum Wiskunde & Informatica, Amsterdam, Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centrum Wiskunde & Informatica, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I1341640284"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083139616","display_name":"Wiktor Zuba","orcid":"https://orcid.org/0000-0002-1988-3507"},"institutions":[{"id":"https://openalex.org/I1341640284","display_name":"Centrum Wiskunde & Informatica","ror":"https://ror.org/00x7ekv49","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1341640284","https://openalex.org/I2800991832"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Wiktor Zuba","raw_affiliation_strings":["Centrum Wiskunde & Informatica, Amsterdam, Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centrum Wiskunde & Informatica, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I1341640284"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5081785647"],"corresponding_institution_ids":["https://openalex.org/I108290504"],"apc_list":{"value":1900,"currency":"USD","value_usd":1900},"apc_paid":{"value":1900,"currency":"USD","value_usd":1900},"fwci":1.1042,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.7739768,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"4","issue":null,"first_page":"1397036","last_page":"1397036"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.5884000062942505,"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":0.5884000062942505,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.0714000016450882,"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":0.061799999326467514,"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/intersection","display_name":"Intersection (aeronautics)","score":0.5594877004623413},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5290343165397644},{"id":"https://openalex.org/keywords/string","display_name":"String (physics)","score":0.46599069237709045},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.46225282549858093},{"id":"https://openalex.org/keywords/matching","display_name":"Matching (statistics)","score":0.45148593187332153},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.42584866285324097},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.3393526077270508},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3326012194156647},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3236660361289978},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.10080775618553162}],"concepts":[{"id":"https://openalex.org/C64543145","wikidata":"https://www.wikidata.org/wiki/Q162942","display_name":"Intersection (aeronautics)","level":2,"score":0.5594877004623413},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5290343165397644},{"id":"https://openalex.org/C157486923","wikidata":"https://www.wikidata.org/wiki/Q1376436","display_name":"String (physics)","level":2,"score":0.46599069237709045},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.46225282549858093},{"id":"https://openalex.org/C165064840","wikidata":"https://www.wikidata.org/wiki/Q1321061","display_name":"Matching (statistics)","level":2,"score":0.45148593187332153},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.42584866285324097},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.3393526077270508},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3326012194156647},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3236660361289978},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.10080775618553162},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0},{"id":"https://openalex.org/C146978453","wikidata":"https://www.wikidata.org/wiki/Q3798668","display_name":"Aerospace engineering","level":1,"score":0.0},{"id":"https://openalex.org/C37914503","wikidata":"https://www.wikidata.org/wiki/Q156495","display_name":"Mathematical physics","level":1,"score":0.0}],"mesh":[],"locations_count":7,"locations":[{"id":"doi:10.3389/fbinf.2024.1397036","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2024.1397036","pdf_url":null,"source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:39391331","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39391331","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":"Frontiers in bioinformatics","raw_type":null},{"id":"pmh:oai:research.vu.nl:openaire_cris_publications/2c686e27-baf4-421d-966d-22335d2d84ca","is_oa":true,"landing_page_url":"https://research.vu.nl/en/publications/2c686e27-baf4-421d-966d-22335d2d84ca","pdf_url":null,"source":{"id":"https://openalex.org/S4306401107","display_name":"VU Research Portal","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I865915315","host_organization_name":"Vrije Universiteit Amsterdam","host_organization_lineage":["https://openalex.org/I865915315"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Gabory, E, Mwaniki, M N, Pisanti, N, Pissis, S P, Radoszewski, J, Sweering, M & Zuba, W 2024, 'Pangenome comparison via ED strings', Frontiers in Bioinformatics, vol. 4, 1397036, pp. 1-15. https://doi.org/10.3389/fbinf.2024.1397036","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:pubmedcentral.nih.gov:11464492","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11464492","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11464492/pdf/fbinf-04-1397036.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":"Front Bioinform","raw_type":"Text"},{"id":"pmh:oai:arpi.unipi.it:11568/1285407","is_oa":false,"landing_page_url":"https://hdl.handle.net/11568/1285407","pdf_url":null,"source":{"id":"https://openalex.org/S4377196265","display_name":"CINECA IRIS Institutial research information system (University of Pisa)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I108290504","host_organization_name":"University of Pisa","host_organization_lineage":["https://openalex.org/I108290504"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doaj.org/article:0fbb0868164048a0936e75501aa9841c","is_oa":true,"landing_page_url":"https://doaj.org/article/0fbb0868164048a0936e75501aa9841c","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Frontiers in Bioinformatics, Vol 4 (2024)","raw_type":"article"},{"id":"pmh:oai:research.vu.nl:publications/2c686e27-baf4-421d-966d-22335d2d84ca","is_oa":true,"landing_page_url":"https://hdl.handle.net/1871.1/2c686e27-baf4-421d-966d-22335d2d84ca","pdf_url":null,"source":{"id":"https://openalex.org/S4306401107","display_name":"VU Research Portal","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I865915315","host_organization_name":"Vrije Universiteit Amsterdam","host_organization_lineage":["https://openalex.org/I865915315"],"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":"Gabory, E, Mwaniki, M N, Pisanti, N, Pissis, S P, Radoszewski, J, Sweering, M & Zuba, W 2024, 'Pangenome comparison via ED strings', Frontiers in Bioinformatics, vol. 4, 1397036, pp. 1-15. https://doi.org/10.3389/fbinf.2024.1397036","raw_type":"info:eu-repo/semantics/publishedVersion"}],"best_oa_location":{"id":"doi:10.3389/fbinf.2024.1397036","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2024.1397036","pdf_url":null,"source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2402485166","display_name":null,"funder_award_id":"872539 956229 101034253","funder_id":"https://openalex.org/F4320335254","funder_display_name":"Horizon 2020"},{"id":"https://openalex.org/G2913163608","display_name":null,"funder_award_id":"YRB97K","funder_id":"https://openalex.org/F5497039910","funder_display_name":"Ministero dell'Istruzione e del Merito"}],"funders":[{"id":"https://openalex.org/F4320335254","display_name":"Horizon 2020","ror":null},{"id":"https://openalex.org/F5497039910","display_name":"Ministero dell'Istruzione e del Merito","ror":"https://ror.org/01ehyh486"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":51,"referenced_works":["https://openalex.org/W938539187","https://openalex.org/W1830109290","https://openalex.org/W1961096930","https://openalex.org/W1971239653","https://openalex.org/W1987638846","https://openalex.org/W2049796549","https://openalex.org/W2066846592","https://openalex.org/W2081143975","https://openalex.org/W2112777598","https://openalex.org/W2120771433","https://openalex.org/W2132022337","https://openalex.org/W2161080683","https://openalex.org/W2292149143","https://openalex.org/W2339926834","https://openalex.org/W2472873926","https://openalex.org/W2603734366","https://openalex.org/W2623355312","https://openalex.org/W2738925124","https://openalex.org/W2753393840","https://openalex.org/W2809441573","https://openalex.org/W2888300707","https://openalex.org/W2950122868","https://openalex.org/W2952045272","https://openalex.org/W2952366981","https://openalex.org/W2952746707","https://openalex.org/W2968539773","https://openalex.org/W3000725438","https://openalex.org/W3043054601","https://openalex.org/W3088400220","https://openalex.org/W3091142854","https://openalex.org/W3092652421","https://openalex.org/W3106484143","https://openalex.org/W3140320676","https://openalex.org/W3158236668","https://openalex.org/W4206067192","https://openalex.org/W4210743444","https://openalex.org/W4220680041","https://openalex.org/W4310552159","https://openalex.org/W4327590906","https://openalex.org/W4376133202","https://openalex.org/W4376224197","https://openalex.org/W6666142518","https://openalex.org/W6738279291","https://openalex.org/W6752489468","https://openalex.org/W6752925130","https://openalex.org/W6753157099","https://openalex.org/W6762351989","https://openalex.org/W6763119210","https://openalex.org/W6838487094","https://openalex.org/W6848721601","https://openalex.org/W6871054495"],"related_works":["https://openalex.org/W2348909947","https://openalex.org/W4292672442","https://openalex.org/W2362101859","https://openalex.org/W2791431590","https://openalex.org/W2941610985","https://openalex.org/W4235810826","https://openalex.org/W3000105423","https://openalex.org/W2350688482","https://openalex.org/W2122135111","https://openalex.org/W2053575972"],"abstract_inverted_index":{"Introduction:":[0],"An":[1],"elastic-degenerate":[2],"(ED)":[3],"string":[4],"is":[5,120,160],"a":[6,18,36,46,50,64,78,145],"sequence":[7,42],"of":[8,10,30,52,67,104,127,149],"sets":[9],"strings.":[11,27,70],"It":[12],"can":[13],"also":[14,73],"be":[15,56,61],"seen":[16],"as":[17,35,63,77],"directed":[19],"acyclic":[20],"graph":[21,107,119],"whose":[22],"edges":[23],"are":[24],"labeled":[25],"by":[26,122,157],"The":[28],"notion":[29],"ED":[31,69],"strings":[32],"was":[33],"introduced":[34],"simple":[37],"alternative":[38],"to":[39,55,60,124,143],"variation":[40],"and":[41,84,88,93,137],"graphs":[43],"for":[44,81,98],"representing":[45],"pangenome,":[47],"that":[48,116,153],"is,":[49],"collection":[51],"genomic":[53],"sequences":[54],"analyzed":[57],"jointly":[58],"or":[59],"used":[62,133],"reference.":[65],"Methods:":[66],"two":[68],"Results:":[71],"We":[72],"implemented":[74],"our":[75,138,158],"methods":[76],"software":[79],"tool":[80],"pangenome":[82],"comparison":[83],"evaluated":[85],"their":[86],"efficiency":[87],"effectiveness":[89],"using":[90],"both":[91],"synthetic":[92],"real":[94,134],"datasets.":[95],"Discussion:":[96],"As":[97],"efficiency,":[99],"we":[100,132],"compare":[101],"the":[102,105,110,117,154,164],"runtime":[103],"intersection":[106,118],"method":[108,159],"against":[109],"classic":[111],"product":[112],"automaton":[113],"construction":[114],"showing":[115,130],"faster":[121],"up":[123],"one":[125],"order":[126],"magnitude.":[128],"For":[129],"effectiveness,":[131],"SARS-CoV-2":[135],"datasets":[136],"matching":[139],"statistics":[140],"similarity":[141],"measure":[142],"reproduce":[144],"well-established":[146],"clade":[147],"classification":[148,155],"SARS-CoV-2,":[150],"thus":[151],"demonstrating":[152],"obtained":[156],"in":[161],"accordance":[162],"with":[163],"existing":[165],"one.":[166]},"counts_by_year":[{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":1}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}
