{"id":"https://openalex.org/W2111482719","doi":"https://doi.org/10.3390/a6030430","title":"Efficient in silico Chromosomal Representation of Populations via Indexing Ancestral Genomes","display_name":"Efficient in silico Chromosomal Representation of Populations via Indexing Ancestral Genomes","publication_year":2013,"publication_date":"2013-07-30","ids":{"openalex":"https://openalex.org/W2111482719","doi":"https://doi.org/10.3390/a6030430","mag":"2111482719"},"language":"en","primary_location":{"id":"doi:10.3390/a6030430","is_oa":true,"landing_page_url":"https://doi.org/10.3390/a6030430","pdf_url":"https://www.mdpi.com/1999-4893/6/3/430/pdf?version=1375168722","source":{"id":"https://openalex.org/S190629608","display_name":"Algorithms","issn_l":"1999-4893","issn":["1999-4893"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"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","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.mdpi.com/1999-4893/6/3/430/pdf?version=1375168722","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5054652878","display_name":"Niina Haiminen","orcid":"https://orcid.org/0000-0002-8663-1019"},"institutions":[{"id":"https://openalex.org/I1341412227","display_name":"IBM (United States)","ror":"https://ror.org/05hh8d621","country_code":"US","type":"company","lineage":["https://openalex.org/I1341412227"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Niina Haiminen","raw_affiliation_strings":["Computational Biology Center, IBM T. J. Watson Research, Yorktown Heights, NY 10598, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Biology Center, IBM T. J. Watson Research, Yorktown Heights, NY 10598, USA","institution_ids":["https://openalex.org/I1341412227"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068361263","display_name":"Filippo Utro","orcid":"https://orcid.org/0000-0003-3226-7642"},"institutions":[{"id":"https://openalex.org/I1341412227","display_name":"IBM (United States)","ror":"https://ror.org/05hh8d621","country_code":"US","type":"company","lineage":["https://openalex.org/I1341412227"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Filippo Utro","raw_affiliation_strings":["Computational Biology Center, IBM T. J. Watson Research, Yorktown Heights, NY 10598, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Biology Center, IBM T. J. Watson Research, Yorktown Heights, NY 10598, USA","institution_ids":["https://openalex.org/I1341412227"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030779249","display_name":"Claude Lebreton","orcid":null},"institutions":[{"id":"https://openalex.org/I902626582","display_name":"Limagrain (France)","ror":"https://ror.org/028q7hc55","country_code":"FR","type":"company","lineage":["https://openalex.org/I902626582"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Claude Lebreton","raw_affiliation_strings":["Limagrain Europe, Centre de Recherche de Chappes, CS 3911, Route d'Ennezat, Chappes 63720, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Limagrain Europe, Centre de Recherche de Chappes, CS 3911, Route d'Ennezat, Chappes 63720, France","institution_ids":["https://openalex.org/I902626582"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082235449","display_name":"Pascal Flament","orcid":"https://orcid.org/0000-0003-4774-9900"},"institutions":[{"id":"https://openalex.org/I902626582","display_name":"Limagrain (France)","ror":"https://ror.org/028q7hc55","country_code":"FR","type":"company","lineage":["https://openalex.org/I902626582"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Pascal Flament","raw_affiliation_strings":["Limagrain Europe, Centre de Recherche de Chappes, CS 3911, Route d'Ennezat, Chappes 63720, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Limagrain Europe, Centre de Recherche de Chappes, CS 3911, Route d'Ennezat, Chappes 63720, France","institution_ids":["https://openalex.org/I902626582"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073955267","display_name":"Zivan Karaman","orcid":"https://orcid.org/0000-0002-8933-4589"},"institutions":[{"id":"https://openalex.org/I902626582","display_name":"Limagrain (France)","ror":"https://ror.org/028q7hc55","country_code":"FR","type":"company","lineage":["https://openalex.org/I902626582"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Zivan Karaman","raw_affiliation_strings":["Limagrain Europe, Centre de Recherche de Chappes, CS 3911, Route d'Ennezat, Chappes 63720, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Limagrain Europe, Centre de Recherche de Chappes, CS 3911, Route d'Ennezat, Chappes 63720, France","institution_ids":["https://openalex.org/I902626582"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5025497346","display_name":"Laxmi Parida","orcid":"https://orcid.org/0000-0002-7872-5074"},"institutions":[{"id":"https://openalex.org/I1341412227","display_name":"IBM (United States)","ror":"https://ror.org/05hh8d621","country_code":"US","type":"company","lineage":["https://openalex.org/I1341412227"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Laxmi Parida","raw_affiliation_strings":["Computational Biology Center, IBM T. J. Watson Research, Yorktown Heights, NY 10598, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Biology Center, IBM T. J. Watson Research, Yorktown Heights, NY 10598, USA","institution_ids":["https://openalex.org/I1341412227"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5025497346"],"corresponding_institution_ids":["https://openalex.org/I1341412227"],"apc_list":{"value":1600,"currency":"CHF","value_usd":1930},"apc_paid":{"value":1600,"currency":"CHF","value_usd":1930},"fwci":1.4813,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":{"value":0.83432645,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"6","issue":"3","first_page":"430","last_page":"441"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11468","display_name":"Genetic Mapping and Diversity in Plants and Animals","score":0.9986000061035156,"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/T11468","display_name":"Genetic Mapping and Diversity in Plants and Animals","score":0.9986000061035156,"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":0.995199978351593,"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/T10594","display_name":"Genetic and phenotypic traits in livestock","score":0.9940999746322632,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6862022876739502},{"id":"https://openalex.org/keywords/search-engine-indexing","display_name":"Search engine indexing","score":0.6448229551315308},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.6353435516357422},{"id":"https://openalex.org/keywords/lagging","display_name":"Lagging","score":0.6158290505409241},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4916096329689026},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.4513883888721466},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.38383594155311584},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3665042519569397},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.28480327129364014},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.23535409569740295},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.13218942284584045},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.13146793842315674},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.12314733862876892}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6862022876739502},{"id":"https://openalex.org/C75165309","wikidata":"https://www.wikidata.org/wiki/Q2258979","display_name":"Search engine indexing","level":2,"score":0.6448229551315308},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.6353435516357422},{"id":"https://openalex.org/C2776962539","wikidata":"https://www.wikidata.org/wiki/Q6472078","display_name":"Lagging","level":2,"score":0.6158290505409241},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4916096329689026},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.4513883888721466},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.38383594155311584},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3665042519569397},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.28480327129364014},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.23535409569740295},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.13218942284584045},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13146793842315674},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.12314733862876892},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.3390/a6030430","is_oa":true,"landing_page_url":"https://doi.org/10.3390/a6030430","pdf_url":"https://www.mdpi.com/1999-4893/6/3/430/pdf?version=1375168722","source":{"id":"https://openalex.org/S190629608","display_name":"Algorithms","issn_l":"1999-4893","issn":["1999-4893"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"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","raw_type":"journal-article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.367.7826","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.367.7826","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.mdpi.com/1999-4893/6/3/430/pdf?y=1","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:3e96c22af885445ab5d34ea1053f1519","is_oa":true,"landing_page_url":"https://doaj.org/article/3e96c22af885445ab5d34ea1053f1519","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, Vol 6, Iss 3, Pp 430-441 (2013)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.3390/a6030430","is_oa":true,"landing_page_url":"https://doi.org/10.3390/a6030430","pdf_url":"https://www.mdpi.com/1999-4893/6/3/430/pdf?version=1375168722","source":{"id":"https://openalex.org/S190629608","display_name":"Algorithms","issn_l":"1999-4893","issn":["1999-4893"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"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","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Life in Land","score":0.41999998688697815,"id":"https://metadata.un.org/sdg/15"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2111482719.pdf","grobid_xml":"https://content.openalex.org/works/W2111482719.grobid-xml"},"referenced_works_count":17,"referenced_works":["https://openalex.org/W588889269","https://openalex.org/W1491459594","https://openalex.org/W1502341912","https://openalex.org/W1577941315","https://openalex.org/W1847694100","https://openalex.org/W1928998639","https://openalex.org/W1982401967","https://openalex.org/W1998699939","https://openalex.org/W2089566450","https://openalex.org/W2091705028","https://openalex.org/W2117467648","https://openalex.org/W2127840950","https://openalex.org/W2130434665","https://openalex.org/W2135046866","https://openalex.org/W2161644980","https://openalex.org/W2171250718","https://openalex.org/W6638830447"],"related_works":["https://openalex.org/W2135562825","https://openalex.org/W3145783610","https://openalex.org/W2354181859","https://openalex.org/W2757096358","https://openalex.org/W2472614530","https://openalex.org/W2375646802","https://openalex.org/W2052668055","https://openalex.org/W2162038069","https://openalex.org/W627568556","https://openalex.org/W2358087883"],"abstract_inverted_index":{"One":[0],"of":[1,19,32,66,78,82,84,100,109],"the":[2,16,25,69],"major":[3],"challenges":[4],"in":[5,41],"handling":[6,42],"realistic":[7,60,117],"forward":[8,72],"simulations":[9,92],"for":[10,55],"plant":[11],"and":[12,57,73,103],"animal":[13],"breeding":[14,118],"is":[15,71],"sheer":[17],"number":[18],"markers.":[20],"Due":[21],"to":[22,34,76],"advancing":[23],"technologies,":[24],"requirement":[26],"has":[27],"quickly":[28],"grown":[29],"from":[30],"hundreds":[31,77,81],"markers":[33,112],"millions.":[35],"Most":[36],"simulators":[37],"are":[38],"lagging":[39],"behind":[40],"these":[43],"sizes,":[44],"since":[45],"they":[46],"do":[47],"not":[48],"scale":[49],"well.":[50],"We":[51,89],"present":[52],"a":[53],"scheme":[54],"representing":[56],"manipulating":[58],"such":[59],"size":[61],"genomes,":[62],"without":[63],"any":[64],"loss":[65],"information.":[67],"Usually,":[68],"simulation":[70],"over":[74],"tens":[75],"generations":[79],"with":[80],"thousands":[83],"individuals":[85],"at":[86,105],"each":[87],"generation.":[88],"demonstrate":[90],"through":[91],"that":[93],"our":[94],"representation":[95],"can":[96],"be":[97],"two":[98,107],"orders":[99,108],"magnitude":[101,110],"faster":[102],"handle":[104],"least":[106],"more":[111],"than":[113],"existing":[114],"software":[115],"on":[116],"scenarios.":[119]},"counts_by_year":[{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":2}],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2025-10-10T00:00:00"}
