{"id":"https://openalex.org/W2552354420","doi":"https://doi.org/10.1186/s12859-016-1264-6","title":"Genome rearrangements with indels in intergenes restrict the scenario space","display_name":"Genome rearrangements with indels in intergenes restrict the scenario space","publication_year":2016,"publication_date":"2016-11-01","ids":{"openalex":"https://openalex.org/W2552354420","doi":"https://doi.org/10.1186/s12859-016-1264-6","mag":"2552354420","pmid":"https://pubmed.ncbi.nlm.nih.gov/28185582"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-016-1264-6","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-016-1264-6","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-016-1264-6","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/track/pdf/10.1186/s12859-016-1264-6","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5017247640","display_name":"Laurent Bulteau","orcid":"https://orcid.org/0000-0003-1645-9345"},"institutions":[{"id":"https://openalex.org/I4210152518","display_name":"Laboratoire d'Informatique Gaspard-Monge","ror":"https://ror.org/04t50yk91","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I142631665","https://openalex.org/I4210145102","https://openalex.org/I4210152518","https://openalex.org/I4210154111","https://openalex.org/I4210159245"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Laurent Bulteau","raw_affiliation_strings":["Laboratoire d'Informatique Gaspard Monge, CNRS UMR 8049, Universit\u00e9 Paris-Est, 5 Bd Descartes, Marne-la-Vall\u00e9e, 77454, France. laurent.bulteau@u-pem.fr","Laboratoire d'Informatique Gaspard-Monge"],"affiliations":[{"raw_affiliation_string":"Laboratoire d'Informatique Gaspard Monge, CNRS UMR 8049, Universit\u00e9 Paris-Est, 5 Bd Descartes, Marne-la-Vall\u00e9e, 77454, France. laurent.bulteau@u-pem.fr","institution_ids":[]},{"raw_affiliation_string":"Laboratoire d'Informatique Gaspard-Monge","institution_ids":["https://openalex.org/I4210152518"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048361747","display_name":"Guillaume Fertin","orcid":"https://orcid.org/0000-0002-8251-2012"},"institutions":[{"id":"https://openalex.org/I97188460","display_name":"Nantes Universit\u00e9","ror":"https://ror.org/03gnr7b55","country_code":"FR","type":"education","lineage":["https://openalex.org/I97188460"]},{"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/I4210165258","display_name":"Laboratoire d'informatique de Nantes Atlantique","ror":"https://ror.org/05487pd16","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I4210127572","https://openalex.org/I4210159245","https://openalex.org/I4210165258","https://openalex.org/I97188460"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Guillaume Fertin","raw_affiliation_strings":["LINA UMR CNRS 6241, Universit\u00e9 de Nantes, 2 rue de la Houssini\u00e8re, Nantes, 44322, France","Laboratoire d'Informatique de Nantes Atlantique"],"affiliations":[{"raw_affiliation_string":"LINA UMR CNRS 6241, Universit\u00e9 de Nantes, 2 rue de la Houssini\u00e8re, Nantes, 44322, France","institution_ids":["https://openalex.org/I97188460","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Laboratoire d'Informatique de Nantes Atlantique","institution_ids":["https://openalex.org/I4210165258"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5026210731","display_name":"\u00c9ric Tannier","orcid":"https://orcid.org/0000-0002-3681-7536"},"institutions":[{"id":"https://openalex.org/I4210135640","display_name":"Laboratoire de Biom\u00e9trie et Biologie Evolutive","ror":"https://ror.org/03skt0t88","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I203339264","https://openalex.org/I4210100596","https://openalex.org/I4210107625","https://openalex.org/I4210135640"]},{"id":"https://openalex.org/I4210115519","display_name":"Centre de Recherche en Informatique","ror":"https://ror.org/020cdve92","country_code":"FR","type":"facility","lineage":["https://openalex.org/I190752583","https://openalex.org/I2746051580","https://openalex.org/I4210091621","https://openalex.org/I4210115519","https://openalex.org/I70768539"]},{"id":"https://openalex.org/I4210101348","display_name":"Centre Inria de l'Universit\u00e9 Grenoble Alpes","ror":"https://ror.org/00n8d6z93","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1326498283","https://openalex.org/I4210101348"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Eric Tannier","raw_affiliation_strings":["Institut National de Recherche en Informatique et en Automatique (INRIA) Rh\u00f4ne-Alpes, 655 avenue de l'Europe, Montbonnot-Saint-Martin, 38330, France","Laboratoire de Biom\u00e9trie et Biologie \u00c9volutive (LBBE), 43 boulevard du 11 novembre 1918, Villeurbanne, 69622, France","Artificial Evolution and Computational Biology","Bioinformatique, phylog\u00e9nie et g\u00e9nomique \u00e9volutive"],"affiliations":[{"raw_affiliation_string":"Institut National de Recherche en Informatique et en Automatique (INRIA) Rh\u00f4ne-Alpes, 655 avenue de l'Europe, Montbonnot-Saint-Martin, 38330, France","institution_ids":["https://openalex.org/I4210101348","https://openalex.org/I4210115519"]},{"raw_affiliation_string":"Laboratoire de Biom\u00e9trie et Biologie \u00c9volutive (LBBE), 43 boulevard du 11 novembre 1918, Villeurbanne, 69622, France","institution_ids":["https://openalex.org/I4210135640"]},{"raw_affiliation_string":"Artificial Evolution and Computational Biology","institution_ids":[]},{"raw_affiliation_string":"Bioinformatique, phylog\u00e9nie et g\u00e9nomique \u00e9volutive","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5017247640"],"corresponding_institution_ids":["https://openalex.org/I4210152518"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":2.7035,"has_fulltext":true,"cited_by_count":28,"citation_normalized_percentile":{"value":0.90705704,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"17","issue":"S14","first_page":"426","last_page":"426"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13664","display_name":"Genome Rearrangement Algorithms","score":0.9998999834060669,"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":0.9998999834060669,"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":0.9861000180244446,"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":0.9686999917030334,"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/indel","display_name":"Indel","score":0.8874646425247192},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5805786848068237},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5537718534469604},{"id":"https://openalex.org/keywords/space","display_name":"Space (punctuation)","score":0.4929788112640381},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.41459327936172485},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.33257371187210083},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.32197487354278564},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.24056753516197205},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1708241105079651},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.08487176895141602}],"concepts":[{"id":"https://openalex.org/C119054055","wikidata":"https://www.wikidata.org/wiki/Q1576681","display_name":"Indel","level":5,"score":0.8874646425247192},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5805786848068237},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5537718534469604},{"id":"https://openalex.org/C2778572836","wikidata":"https://www.wikidata.org/wiki/Q380933","display_name":"Space (punctuation)","level":2,"score":0.4929788112640381},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.41459327936172485},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.33257371187210083},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.32197487354278564},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.24056753516197205},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1708241105079651},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08487176895141602},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.0},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015321","descriptor_name":"Gene Rearrangement","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015321","descriptor_name":"Gene Rearrangement","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015321","descriptor_name":"Gene Rearrangement","qualifier_ui":"Q000235","qualifier_name":"genetics","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},{"descriptor_ui":"D054643","descriptor_name":"INDEL Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054643","descriptor_name":"INDEL Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054643","descriptor_name":"INDEL Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-016-1264-6","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-016-1264-6","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-016-1264-6","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:28185582","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28185582","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:HAL:hal-01396842v1","is_oa":true,"landing_page_url":"https://hal.science/hal-01396842","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-016-1264-6","raw_type":"Journal articles"},{"id":"pmh:oai:pubmedcentral.nih.gov:5123244","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5123244","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-016-1264-6","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-016-1264-6","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-016-1264-6","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":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2552354420.pdf","grobid_xml":"https://content.openalex.org/works/W2552354420.grobid-xml"},"referenced_works_count":13,"referenced_works":["https://openalex.org/W74509308","https://openalex.org/W182917131","https://openalex.org/W2009353698","https://openalex.org/W2029878366","https://openalex.org/W2057603146","https://openalex.org/W2095867210","https://openalex.org/W2097103726","https://openalex.org/W2130078304","https://openalex.org/W2149628296","https://openalex.org/W2248589095","https://openalex.org/W2367820173","https://openalex.org/W2464120797","https://openalex.org/W4213205621"],"related_works":["https://openalex.org/W2033001683","https://openalex.org/W2167094946","https://openalex.org/W4387460329","https://openalex.org/W2046457574","https://openalex.org/W1949458596","https://openalex.org/W3144677376","https://openalex.org/W32785519","https://openalex.org/W4382398022","https://openalex.org/W4240983354","https://openalex.org/W2969666262"],"abstract_inverted_index":{"We":[0],"show":[1,21],"that":[2,22],"there":[3],"is":[4],"a":[5],"valuable":[6],"information":[7],"in":[8],"the":[9,13,26,32],"intergene":[10,45],"sizes":[11],"concerning":[12],"rearrangement":[14],"scenario":[15],"itself.":[16],"On":[17],"simulated":[18],"data":[19],"we":[20],"statistical":[23],"properties":[24],"of":[25],"inferred":[27],"scenarios":[28,40],"are":[29],"closer":[30],"to":[31],"true":[33],"ones":[34],"than":[35],"DCJ":[36],"only":[37],"scenarios,":[38],"i.e.":[39],"which":[41],"do":[42],"not":[43],"handle":[44],"sizes.":[46]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":2}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}
