{"id":"https://openalex.org/W3038349626","doi":"https://doi.org/10.1186/s13015-021-00183-8","title":"Natural Family-Free Genomic Distance","display_name":"Natural Family-Free Genomic Distance","publication_year":2021,"publication_date":"2021-02-18","ids":{"openalex":"https://openalex.org/W3038349626","doi":"https://doi.org/10.1186/s13015-021-00183-8","mag":"3038349626","pmid":"https://pubmed.ncbi.nlm.nih.gov/33971908"},"language":"en","primary_location":{"id":"doi:10.1186/s13015-021-00183-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13015-021-00183-8","pdf_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/s13015-021-00183-8","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"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":"Algorithms for Molecular Biology","raw_type":"journal-article"},"type":"preprint","indexed_in":["arxiv","crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/s13015-021-00183-8","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5041224517","display_name":"Diego P. Rubert","orcid":"https://orcid.org/0000-0002-4131-7309"},"institutions":[{"id":"https://openalex.org/I122558511","display_name":"Universidade Federal de Mato Grosso do Sul","ror":"https://ror.org/0366d2847","country_code":"BR","type":"education","lineage":["https://openalex.org/I122558511"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Diego P. Rubert","raw_affiliation_strings":["Universidade Federal de Mato Grosso do Sul","Federal University of Mato Grosso Do Sul"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universidade Federal de Mato Grosso do Sul","institution_ids":[]},{"raw_affiliation_string":"Federal University of Mato Grosso Do Sul","institution_ids":["https://openalex.org/I122558511"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029158906","display_name":"F\u00e1bio V. Martinez","orcid":"https://orcid.org/0000-0001-6809-3547"},"institutions":[{"id":"https://openalex.org/I122558511","display_name":"Universidade Federal de Mato Grosso do Sul","ror":"https://ror.org/0366d2847","country_code":"BR","type":"education","lineage":["https://openalex.org/I122558511"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"F\u00e1bio V. Martinez","raw_affiliation_strings":["Universidade Federal de Mato Grosso do Sul","Federal University of Mato Grosso Do Sul"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universidade Federal de Mato Grosso do Sul","institution_ids":[]},{"raw_affiliation_string":"Federal University of Mato Grosso Do Sul","institution_ids":["https://openalex.org/I122558511"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5033265897","display_name":"Mar\u00edlia D. V. Braga","orcid":"https://orcid.org/0000-0002-4092-2646"},"institutions":[{"id":"https://openalex.org/I20121455","display_name":"Bielefeld University","ror":"https://ror.org/02hpadn98","country_code":"DE","type":"education","lineage":["https://openalex.org/I20121455"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Mar\u00edlia Braga","raw_affiliation_strings":["Bielefeld University: Universitat Bielefeld","[Bielefeld University]"],"raw_orcid":"https://orcid.org/0000-0002-4092-2646","affiliations":[{"raw_affiliation_string":"Bielefeld University: Universitat Bielefeld","institution_ids":[]},{"raw_affiliation_string":"[Bielefeld University]","institution_ids":["https://openalex.org/I20121455"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":1490,"currency":"GBP","value_usd":1827},"apc_paid":{"value":1490,"currency":"GBP","value_usd":1827},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.00338871,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"16","issue":"1","first_page":"4","last_page":"4"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13664","display_name":"Genome Rearrangement Algorithms","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T13664","display_name":"Genome Rearrangement Algorithms","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":9.999999747378752e-05,"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/T11269","display_name":"Algorithms and Data Compression","score":0.0,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.760696291923523},{"id":"https://openalex.org/keywords/computation","display_name":"Computation","score":0.6915255784988403},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4672076106071472},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4506256878376007},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.44934141635894775},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4208880364894867},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.41412490606307983},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.41031134128570557},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.31893783807754517},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3028656840324402},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.28030285239219666}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.760696291923523},{"id":"https://openalex.org/C45374587","wikidata":"https://www.wikidata.org/wiki/Q12525525","display_name":"Computation","level":2,"score":0.6915255784988403},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4672076106071472},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4506256878376007},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.44934141635894775},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4208880364894867},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.41412490606307983},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.41031134128570557},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.31893783807754517},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3028656840324402},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.28030285239219666}],"mesh":[],"locations_count":14,"locations":[{"id":"doi:10.1186/s13015-021-00183-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13015-021-00183-8","pdf_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/s13015-021-00183-8","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"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":"Algorithms for Molecular Biology","raw_type":"journal-article"},{"id":"doi:10.21203/rs.3.rs-198423/v1","is_oa":true,"landing_page_url":"https://doi.org/10.21203/rs.3.rs-198423/v1","pdf_url":"https://www.researchsquare.com/article/rs-198423/latest.pdf","source":{"id":"https://openalex.org/S4306525896","display_name":"Research Square","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","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"Research Square","raw_type":"posted-content"},{"id":"pmid:33971908","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33971908","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":"Algorithms for molecular biology : AMB","raw_type":null},{"id":"pmh:oai:arXiv.org:2007.03556","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2007.03556","pdf_url":"https://arxiv.org/pdf/2007.03556","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"text"},{"id":"mag:3038349626","is_oa":true,"landing_page_url":"https://arxiv.org/pdf/2007.03556v2","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"arXiv (Cornell University)","raw_type":null},{"id":"pmh:oai:doaj.org/article:d286cf411eee4526b09bcaca19587e86","is_oa":true,"landing_page_url":"https://doaj.org/article/d286cf411eee4526b09bcaca19587e86","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":"Algorithms for Molecular Biology, Vol 16, Iss 1, Pp 1-16 (2021)","raw_type":"article"},{"id":"pmh:oai:drops-oai.dagstuhl.de:12792","is_oa":true,"landing_page_url":"https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2020.3","pdf_url":null,"source":{"id":"https://openalex.org/S4377196569","display_name":"DROPS (Schloss Dagstuhl \u2013 Leibniz Center for Informatics)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2799853480","host_organization_name":"Schloss Dagstuhl \u2013 Leibniz Center for Informatics","host_organization_lineage":["https://openalex.org/I2799853480"],"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":"","raw_type":"InProceedings"},{"id":"pmh:oai:pub.uni-bielefeld.de:2954832","is_oa":true,"landing_page_url":"https://pub.uni-bielefeld.de/record/2954832","pdf_url":null,"source":{"id":"https://openalex.org/S4306401670","display_name":"PUB \u2013 Publications at Bielefeld University (Bielefeld University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I20121455","host_organization_name":"Bielefeld University","host_organization_lineage":["https://openalex.org/I20121455"],"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":"","raw_type":"http://purl.org/coar/resource_type/c_6501"},{"id":"pmh:oai:pub.uni-bielefeld.de:2965072","is_oa":true,"landing_page_url":"https://nbn-resolving.org/urn:nbn:de:0070-pub-29650727","pdf_url":null,"source":{"id":"https://openalex.org/S4306401670","display_name":"PUB \u2013 Publications at Bielefeld University (Bielefeld University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I20121455","host_organization_name":"Bielefeld University","host_organization_lineage":["https://openalex.org/I20121455"],"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":"","raw_type":"http://purl.org/coar/resource_type/c_5794"},{"id":"pmh:oai:pubmedcentral.nih.gov:8111734","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8111734","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Algorithms Mol Biol","raw_type":"Text"},{"id":"doi:10.48550/arxiv.2007.03556","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2007.03556","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"},{"id":"doi:10.4230/lipics.wabi.2020.3","is_oa":true,"landing_page_url":"https://doi.org/10.4230/lipics.wabi.2020.3","pdf_url":null,"source":{"id":"https://openalex.org/S7407052059","display_name":"Dagstuhl Research Online Publication Server","issn_l":null,"issn":[],"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","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":""},{"id":"doi:10.6084/m9.figshare.c.5419555","is_oa":true,"landing_page_url":"https://doi.org/10.6084/m9.figshare.c.5419555","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"},{"id":"doi:10.6084/m9.figshare.c.5419555.v1","is_oa":true,"landing_page_url":"https://doi.org/10.6084/m9.figshare.c.5419555.v1","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s13015-021-00183-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13015-021-00183-8","pdf_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/s13015-021-00183-8","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"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":"Algorithms for Molecular Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320323389","display_name":"Universit\u00e4t Bielefeld","ror":"https://ror.org/02hpadn98"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3038349626.pdf","grobid_xml":"https://content.openalex.org/works/W3038349626.grobid-xml"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W1481103812","https://openalex.org/W1491688952","https://openalex.org/W1494919299","https://openalex.org/W1958274537","https://openalex.org/W1986644389","https://openalex.org/W1996875758","https://openalex.org/W2008289995","https://openalex.org/W2016679861","https://openalex.org/W2095104721","https://openalex.org/W2096466922","https://openalex.org/W2097706568","https://openalex.org/W2099762535","https://openalex.org/W2100874222","https://openalex.org/W2115806022","https://openalex.org/W2130849966","https://openalex.org/W2135543062","https://openalex.org/W2139231345","https://openalex.org/W2141652419","https://openalex.org/W2149628296","https://openalex.org/W2165308125","https://openalex.org/W2593661024","https://openalex.org/W2604308930","https://openalex.org/W2769447976","https://openalex.org/W2799524357","https://openalex.org/W2952013840","https://openalex.org/W2955526764","https://openalex.org/W3023128033","https://openalex.org/W3105750359","https://openalex.org/W3120798773","https://openalex.org/W6780029133"],"related_works":["https://openalex.org/W3082723548","https://openalex.org/W2799788012","https://openalex.org/W1937999","https://openalex.org/W3023128033","https://openalex.org/W2016679861","https://openalex.org/W2941817316","https://openalex.org/W2095104721","https://openalex.org/W2464120797","https://openalex.org/W1584997445","https://openalex.org/W1851214189","https://openalex.org/W1989033359","https://openalex.org/W2888952821","https://openalex.org/W2804961397","https://openalex.org/W2787532231","https://openalex.org/W2009353698","https://openalex.org/W2895414798","https://openalex.org/W1525914985","https://openalex.org/W2030568492","https://openalex.org/W2542639067","https://openalex.org/W1491688952"],"abstract_inverted_index":{"BACKGROUND:":[0],"A":[1],"classical":[2],"problem":[3],"in":[4,34,63,74,82,151,154,215,245],"comparative":[5],"genomics":[6],"is":[7,14,92,140],"to":[8,22,60,69,156,200,221,224,284,297],"compute":[9,61,201],"the":[10,15,41,52,67,79,110,122,149,158,180,191,207,239,291,298,305,315],"rearrangement":[11,203],"distance,":[12,250],"that":[13,84,162,231,251],"minimum":[16],"number":[17,292,317],"of":[18,43,46,113,135,148,186,197,269,271,276,290,293,318,335,337,345],"large-scale":[19],"rearrangements":[20],"required":[21],"transform":[23],"a":[24,146,213,246,265,288,342],"given":[25,29,256],"genome":[26],"into":[27,49,253,261],"another":[28],"genome.":[30,76],"The":[31],"traditional":[32],"approaches":[33],"this":[35,176],"area":[36],"are":[37,58,219],"family-based,":[38],"i.e.,":[39],"require":[40],"classification":[42,260],"DNA":[44,136,195],"fragments":[45,196],"both":[47,198,225],"genomes":[48,114,199],"families.":[50],"Furthermore,":[51],"most":[53,72],"elementary":[54],"family-based":[55],"models,":[56],"which":[57,216],"able":[59],"distances":[62],"polynomial":[64],"time,":[65],"restrict":[66],"families":[68,88],"occur":[70],"at":[71],"once":[73],"each":[75,152],"In":[77,175,274,341],"contrast,":[78],"distance":[80,112],"computation":[81],"models":[83],"allow":[85],"multifamilies":[86],"(i.e.,":[87],"with":[89,115,314],"multiple":[90,319],"occurrences)":[91],"NP-hard.":[93],"Very":[94],"recently,":[95],"Bohnenk\u00e4mper":[96,309],"et":[97,310],"al.":[98,311],"(J":[99],"Comput":[100],"Biol":[101],"28:410-431,":[102],"2021)":[103],"proposed":[104],"an":[105,232],"ILP":[106,139,208,282],"formulation":[107],"for":[108,312],"computing":[109],"genomic":[111,249],"multifamilies,":[116],"allowing":[117],"structural":[118],"rearrangements,":[119],"represented":[120],"by":[121,287,308],"generic":[123],"double":[124],"cut":[125],"and":[126,130,133,211,227,263,331,339],"join":[127],"(DCJ)":[128],"operation,":[129],"content-modifying":[131],"insertions":[132],"deletions":[134],"segments.":[137],"This":[138],"very":[141],"efficient,":[142],"but":[143,328],"must":[144],"maximize":[145,238],"matching":[147],"genes":[150],"multifamily,":[153],"order":[155],"prevent":[157],"free":[159],"lunch":[160],"artifact":[161],"would":[163],"otherwise":[164],"let":[165],"empty":[166,169],"or":[167,333],"almost":[168],"matchings":[170,270],"give":[171],"smaller":[172],"distances.":[173],"RESULTS:":[174],"paper,":[177],"we":[178,350],"adopt":[179],"alternative":[181],"family-free":[182,248],"setting":[183],"that,":[184],"instead":[185],"family":[187],"classification,":[188],"simply":[189],"uses":[190],"pairwise":[192,217],"similarities":[193,218],"between":[194],"their":[202],"distance.":[204],"We":[205,321],"adapted":[206],"mentioned":[209],"above":[210],"developed":[212],"model":[214,242],"used":[220],"assign":[222],"weights":[223],"matched":[226],"unmatched":[228],"genes,":[229,257],"so":[230],"optimal":[233],"solution":[234],"does":[235],"not":[236,324],"necessarily":[237],"matching.":[240],"Our":[241],"then":[243],"results":[244],"natural":[247],"takes":[252],"consideration":[254],"all":[255],"without":[258],"prior":[259],"families,":[262],"has":[264],"search":[266,279],"space":[267],"composed":[268],"any":[272],"size.":[273],"spite":[275],"its":[277],"bigger":[278],"space,":[280],"our":[281],"seems":[283],"be":[285],"boosted":[286],"reduction":[289],"co-optimal":[294],"solutions":[295],"due":[296],"weights.":[299],"Indeed,":[300],"it":[301],"converged":[302],"faster":[303],"than":[304],"original":[306],"one":[307],"instances":[313],"same":[316],"connections.":[320],"can":[322],"handle":[323],"only":[325],"bacterial":[326],"genomes,":[327,349],"also":[329],"fungi":[330],"insects,":[332],"sets":[334],"chromosomes":[336],"mammals":[338],"plants.":[340],"comparison":[343],"study":[344],"six":[346],"fruit":[347],"fly":[348],"obtained":[351],"accurate":[352],"results.":[353]},"counts_by_year":[],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}