{"id":"https://openalex.org/W1528911722","doi":"https://doi.org/10.1371/journal.pcbi.1005071","title":"Inference of Ancestral Recombination Graphs through Topological Data Analysis","display_name":"Inference of Ancestral Recombination Graphs through Topological Data Analysis","publication_year":2016,"publication_date":"2016-08-17","ids":{"openalex":"https://openalex.org/W1528911722","doi":"https://doi.org/10.1371/journal.pcbi.1005071","mag":"1528911722","pmid":"https://pubmed.ncbi.nlm.nih.gov/27532298"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1005071","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1005071","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005071&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["arxiv","crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005071&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5055994495","display_name":"Pablo G. C\u00e1mara","orcid":"https://orcid.org/0000-0001-6822-3604"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Pablo G. C\u00e1mara","raw_affiliation_strings":["Department of Systems Biology and Department of Biomedical Informatics, Columbia University College of Physicians and Surgeons, New York, New York, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Systems Biology and Department of Biomedical Informatics, Columbia University College of Physicians and Surgeons, New York, New York, United States of America","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089778846","display_name":"Arnold J. Levine","orcid":"https://orcid.org/0000-0002-1871-6387"},"institutions":[{"id":"https://openalex.org/I4210155419","display_name":"Center for Systems Biology","ror":"https://ror.org/05r3dyn47","country_code":"US","type":"facility","lineage":["https://openalex.org/I136199984","https://openalex.org/I4210087915","https://openalex.org/I4210155419","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I40036882","display_name":"Institute for Advanced Study","ror":"https://ror.org/00f809463","country_code":"US","type":"facility","lineage":["https://openalex.org/I40036882"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Arnold J. Levine","raw_affiliation_strings":["The Simons Center for Systems Biology, Institute for Advanced Study, Princeton, New Jersey, United States of America"],"affiliations":[{"raw_affiliation_string":"The Simons Center for Systems Biology, Institute for Advanced Study, Princeton, New Jersey, United States of America","institution_ids":["https://openalex.org/I40036882","https://openalex.org/I4210155419"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056128255","display_name":"Ra\u00fal Rabad\u00e1n","orcid":"https://orcid.org/0000-0001-7946-9255"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Ra\u00fal Rabad\u00e1n","raw_affiliation_strings":["Department of Systems Biology and Department of Biomedical Informatics, Columbia University College of Physicians and Surgeons, New York, New York, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Systems Biology and Department of Biomedical Informatics, Columbia University College of Physicians and Surgeons, New York, New York, United States of America","institution_ids":["https://openalex.org/I78577930"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5055994495","https://openalex.org/A5056128255"],"corresponding_institution_ids":["https://openalex.org/I78577930"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":8.266,"has_fulltext":true,"cited_by_count":75,"citation_normalized_percentile":{"value":0.97574353,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"12","issue":"8","first_page":"e1005071","last_page":"e1005071"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12536","display_name":"Topological and Geometric Data Analysis","score":0.9710000157356262,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T12536","display_name":"Topological and Geometric Data Analysis","score":0.9710000157356262,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9538999795913696,"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":0.9484000205993652,"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/recombination","display_name":"Recombination","score":0.6834535002708435},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.5798479318618774},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5755469799041748},{"id":"https://openalex.org/keywords/phylogenetic-network","display_name":"Phylogenetic network","score":0.5437087416648865},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5208418965339661},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.5106945633888245},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.506583571434021},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.4850856363773346},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.42119863629341125},{"id":"https://openalex.org/keywords/reassortment","display_name":"Reassortment","score":0.4181072413921356},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.36813390254974365},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.2936052083969116},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.27340877056121826},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.16016170382499695},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.14409968256950378}],"concepts":[{"id":"https://openalex.org/C156695909","wikidata":"https://www.wikidata.org/wiki/Q3373825","display_name":"Recombination","level":3,"score":0.6834535002708435},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.5798479318618774},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5755469799041748},{"id":"https://openalex.org/C26619641","wikidata":"https://www.wikidata.org/wiki/Q3142246","display_name":"Phylogenetic network","level":4,"score":0.5437087416648865},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5208418965339661},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.5106945633888245},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.506583571434021},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.4850856363773346},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.42119863629341125},{"id":"https://openalex.org/C16154277","wikidata":"https://www.wikidata.org/wiki/Q2004399","display_name":"Reassortment","level":5,"score":0.4181072413921356},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.36813390254974365},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.2936052083969116},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.27340877056121826},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.16016170382499695},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.14409968256950378},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.0},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.0},{"id":"https://openalex.org/C3008058167","wikidata":"https://www.wikidata.org/wiki/Q84263196","display_name":"Coronavirus disease 2019 (COVID-19)","level":4,"score":0.0},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0},{"id":"https://openalex.org/C524204448","wikidata":"https://www.wikidata.org/wiki/Q788926","display_name":"Infectious disease (medical specialty)","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","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":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","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":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011995","descriptor_name":"Recombination, Genetic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011995","descriptor_name":"Recombination, Genetic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011995","descriptor_name":"Recombination, Genetic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D022761","descriptor_name":"Gene Transfer, Horizontal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D022761","descriptor_name":"Gene Transfer, Horizontal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D022761","descriptor_name":"Gene Transfer, Horizontal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D046369","descriptor_name":"Finches","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D046369","descriptor_name":"Finches","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D046369","descriptor_name":"Finches","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.1371/journal.pcbi.1005071","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1005071","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005071&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:27532298","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27532298","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:arXiv.org:1505.05815","is_oa":true,"landing_page_url":"http://arxiv.org/abs/1505.05815","pdf_url":"https://arxiv.org/pdf/1505.05815","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":null,"raw_type":"text"},{"id":"pmh:oai:academiccommons.columbia.edu:10.7916/D8416X93","is_oa":false,"landing_page_url":"https://doi.org/10.7916/D8416X93","pdf_url":null,"source":{"id":"https://openalex.org/S4306402601","display_name":"Columbia Academic Commons (Columbia University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I78577930","host_organization_name":"Columbia University","host_organization_lineage":["https://openalex.org/I78577930"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Articles"},{"id":"pmh:oai:doaj.org/article:d47311fc260a4892a5afcbaeafccfa46","is_oa":true,"landing_page_url":"https://doaj.org/article/d47311fc260a4892a5afcbaeafccfa46","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-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 12, Iss 8, p e1005071 (2016)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4988722","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4988722","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":"PLoS Comput Biol","raw_type":"Text"},{"id":"doi:10.7916/d8416x93","is_oa":true,"landing_page_url":"https://doi.org/10.7916/d8416x93","pdf_url":null,"source":{"id":"https://openalex.org/S4306402601","display_name":"Columbia Academic Commons (Columbia University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I78577930","host_organization_name":"Columbia University","host_organization_lineage":["https://openalex.org/I78577930"],"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-journal"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1005071","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1005071","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005071&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15","score":0.5299999713897705}],"awards":[{"id":"https://openalex.org/G2562913976","display_name":null,"funder_award_id":"NIGMS R01-GM117591","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2864846493","display_name":null,"funder_award_id":"U54 CA193313","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3497591915","display_name":null,"funder_award_id":"(NIH)","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4359693134","display_name":null,"funder_award_id":"NIGMS","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G676086228","display_name":null,"funder_award_id":"R01-GM117591","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8927726327","display_name":null,"funder_award_id":"U54 CA193313","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1528911722.pdf","grobid_xml":"https://content.openalex.org/works/W1528911722.grobid-xml"},"referenced_works_count":80,"referenced_works":["https://openalex.org/W114397555","https://openalex.org/W1493919779","https://openalex.org/W1503883746","https://openalex.org/W1533415092","https://openalex.org/W1600112846","https://openalex.org/W1669459870","https://openalex.org/W1720075457","https://openalex.org/W1730861791","https://openalex.org/W1830906757","https://openalex.org/W1834060250","https://openalex.org/W1865471261","https://openalex.org/W1964853169","https://openalex.org/W1979900996","https://openalex.org/W1982088425","https://openalex.org/W1982901388","https://openalex.org/W1991566301","https://openalex.org/W1996222640","https://openalex.org/W2008712670","https://openalex.org/W2009873257","https://openalex.org/W2015022780","https://openalex.org/W2017219759","https://openalex.org/W2019956985","https://openalex.org/W2021744990","https://openalex.org/W2037613900","https://openalex.org/W2042210471","https://openalex.org/W2054547415","https://openalex.org/W2055298722","https://openalex.org/W2070534356","https://openalex.org/W2071391326","https://openalex.org/W2075371279","https://openalex.org/W2082118300","https://openalex.org/W2086155561","https://openalex.org/W2089859322","https://openalex.org/W2091427225","https://openalex.org/W2096420865","https://openalex.org/W2096736341","https://openalex.org/W2096791516","https://openalex.org/W2097276024","https://openalex.org/W2098558111","https://openalex.org/W2100935052","https://openalex.org/W2103441770","https://openalex.org/W2104549677","https://openalex.org/W2107385756","https://openalex.org/W2107916366","https://openalex.org/W2109261977","https://openalex.org/W2109816625","https://openalex.org/W2110570734","https://openalex.org/W2112400707","https://openalex.org/W2116652744","https://openalex.org/W2119180969","https://openalex.org/W2122010307","https://openalex.org/W2122176707","https://openalex.org/W2123233911","https://openalex.org/W2123979496","https://openalex.org/W2125359798","https://openalex.org/W2127230663","https://openalex.org/W2134599124","https://openalex.org/W2135713257","https://openalex.org/W2137706757","https://openalex.org/W2138952930","https://openalex.org/W2144044408","https://openalex.org/W2147619435","https://openalex.org/W2148274789","https://openalex.org/W2165460636","https://openalex.org/W2166123725","https://openalex.org/W2168133698","https://openalex.org/W2168909179","https://openalex.org/W2413735606","https://openalex.org/W2484986946","https://openalex.org/W2492168822","https://openalex.org/W2495936238","https://openalex.org/W3013843370","https://openalex.org/W3040586665","https://openalex.org/W4235375376","https://openalex.org/W4239871258","https://openalex.org/W4243187486","https://openalex.org/W4254268221","https://openalex.org/W6604628793","https://openalex.org/W6715546699","https://openalex.org/W6780011183"],"related_works":["https://openalex.org/W4254268221","https://openalex.org/W2038264393","https://openalex.org/W147282674","https://openalex.org/W2096085713","https://openalex.org/W2112400707","https://openalex.org/W2101991559","https://openalex.org/W4300585845","https://openalex.org/W2152997891","https://openalex.org/W2951248153","https://openalex.org/W2840568513"],"abstract_inverted_index":{"The":[0],"recent":[1],"explosion":[2],"of":[3,33,47,55,95,119,143,151,154,167],"genomic":[4,165],"data":[5],"has":[6],"underscored":[7],"the":[8,53,61,114,160,164,199],"need":[9],"for":[10,90,127],"interpretable":[11],"and":[12,22,27,74,108,117,129,132,145,156,162,179,193],"comprehensive":[13],"analyses":[14],"that":[15,37,70,111,137],"can":[16,112,138,146],"capture":[17,113],"complex":[18],"phylogenetic":[19],"relationships":[20],"within":[21],"across":[23,77],"species.":[24],"Recombination,":[25],"reassortment":[26],"horizontal":[28,194],"gene":[29],"transfer":[30],"constitute":[31],"examples":[32],"pervasive":[34],"biological":[35],"phenomena":[36],"cannot":[38],"be":[39,139,147],"captured":[40],"by":[41],"tree-like":[42],"representations.":[43],"Starting":[44],"from":[45],"hundreds":[46,142],"genomes,":[48],"we":[49],"are":[50,82],"interested":[51],"in":[52,149,173,196],"reconstruction":[54],"potential":[56,68],"evolutionary":[57],"histories":[58,69,153],"leading":[59],"to":[60,85,141,182],"observed":[62],"data.":[63],"Ancestral":[64],"recombination":[65,73,157],"graphs":[66],"represent":[67],"explicitly":[71],"accommodate":[72],"mutation":[75,155],"events":[76],"orthologous":[78],"genomes.":[79,96],"However,":[80],"they":[81],"computationally":[83],"costly":[84],"reconstruct,":[86],"usually":[87],"being":[88],"infeasible":[89],"more":[91],"than":[92],"few":[93],"tens":[94],"Recently,":[97],"Topological":[98],"Data":[99],"Analysis":[100],"(TDA)":[101],"methods":[102,110],"have":[103],"been":[104],"proposed":[105],"as":[106],"robust":[107],"scalable":[109],"genetic":[115],"scale":[116],"frequency":[118],"recombination.":[120],"We":[121,169],"build":[122],"upon":[123],"previous":[124],"TDA":[125],"developments":[126],"detecting":[128],"quantifying":[130,159],"recombination,":[131,192],"present":[133],"a":[134,174],"novel":[135],"framework":[136,172],"applied":[140],"genomes":[144],"interpreted":[148],"terms":[150],"minimal":[152],"events,":[158],"scales":[161],"identifying":[163],"locations":[166],"recombinations.":[168],"implement":[170],"this":[171],"software":[175],"package,":[176],"called":[177],"TARGet,":[178],"apply":[180],"it":[181],"several":[183],"examples,":[184],"including":[185],"small":[186],"migration":[187],"between":[188],"different":[189],"populations,":[190],"human":[191],"evolution":[195],"finches":[197],"inhabiting":[198],"Gal\u00e1pagos":[200],"Islands.":[201]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":16},{"year":2020,"cited_by_count":13},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":8},{"year":2017,"cited_by_count":8},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}