{"id":"https://openalex.org/W3025962679","doi":"https://doi.org/10.1109/tcbb.2020.2990867","title":"Using Constrained-INC for Large-Scale Gene Tree and Species Tree Estimation","display_name":"Using Constrained-INC for Large-Scale Gene Tree and Species Tree Estimation","publication_year":2020,"publication_date":"2020-05-15","ids":{"openalex":"https://openalex.org/W3025962679","doi":"https://doi.org/10.1109/tcbb.2020.2990867","mag":"3025962679","pmid":"https://pubmed.ncbi.nlm.nih.gov/32750844"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2020.2990867","is_oa":true,"landing_page_url":"https://doi.org/10.1109/tcbb.2020.2990867","pdf_url":"https://ieeexplore.ieee.org/ielx7/8857/9346082/09093990.pdf","source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://ieeexplore.ieee.org/ielx7/8857/9346082/09093990.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5089994820","display_name":"Thien Le","orcid":"https://orcid.org/0000-0001-5476-8451"},"institutions":[{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Thien Le","raw_affiliation_strings":["Department of EECS, Massachusetts Institute of Technology, Cambridge, MA, USA"],"affiliations":[{"raw_affiliation_string":"Department of EECS, Massachusetts Institute of Technology, Cambridge, MA, USA","institution_ids":["https://openalex.org/I63966007"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025178352","display_name":"Aaron Sy","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Aaron Sy","raw_affiliation_strings":["YouTube, San Bruno, CA, USA"],"affiliations":[{"raw_affiliation_string":"YouTube, San Bruno, CA, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045334836","display_name":"Erin K. Molloy","orcid":"https://orcid.org/0000-0001-5553-3312"},"institutions":[{"id":"https://openalex.org/I157725225","display_name":"University of Illinois Urbana-Champaign","ror":"https://ror.org/047426m28","country_code":"US","type":"education","lineage":["https://openalex.org/I157725225"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Erin K. Molloy","raw_affiliation_strings":["Department of Computer Science, University of Illinois at Urbana-Champaign, Champaign, IL, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Illinois at Urbana-Champaign, Champaign, IL, USA","institution_ids":["https://openalex.org/I157725225"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091794009","display_name":"Qiuyi Zhang","orcid":"https://orcid.org/0000-0002-9278-2649"},"institutions":[{"id":"https://openalex.org/I1291425158","display_name":"Google (United States)","ror":"https://ror.org/00njsd438","country_code":"US","type":"company","lineage":["https://openalex.org/I1291425158","https://openalex.org/I4210128969"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Qiuyi Zhang","raw_affiliation_strings":["Google Brain, Mountain View, CA, USA"],"affiliations":[{"raw_affiliation_string":"Google Brain, Mountain View, CA, USA","institution_ids":["https://openalex.org/I1291425158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082369624","display_name":"Satish Rao","orcid":"https://orcid.org/0000-0002-7353-333X"},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Satish Rao","raw_affiliation_strings":["Department of EECS, University of California, Berkeley, Berkeley, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of EECS, University of California, Berkeley, Berkeley, CA, USA","institution_ids":["https://openalex.org/I95457486"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5032411541","display_name":"Tandy Warnow","orcid":"https://orcid.org/0000-0001-7717-3514"},"institutions":[{"id":"https://openalex.org/I157725225","display_name":"University of Illinois Urbana-Champaign","ror":"https://ror.org/047426m28","country_code":"US","type":"education","lineage":["https://openalex.org/I157725225"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tandy Warnow","raw_affiliation_strings":["Department of Computer Science, University of Illinois at Urbana-Champaign, Champaign, IL, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Illinois at Urbana-Champaign, Champaign, IL, USA","institution_ids":["https://openalex.org/I157725225"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5089994820"],"corresponding_institution_ids":["https://openalex.org/I63966007"],"apc_list":null,"apc_paid":null,"fwci":0.4179,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.59627273,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"18","issue":"1","first_page":"2","last_page":"15"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9995999932289124,"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/T10012","display_name":"Genetic diversity and population structure","score":0.9947999715805054,"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/T10434","display_name":"Chromosomal and Genetic Variations","score":0.9761000275611877,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/tree-rearrangement","display_name":"Tree rearrangement","score":0.7423906922340393},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.7373397350311279},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.6905213594436646},{"id":"https://openalex.org/keywords/disjoint-sets","display_name":"Disjoint sets","score":0.6139209866523743},{"id":"https://openalex.org/keywords/scale","display_name":"Scale (ratio)","score":0.5334150195121765},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.520825982093811},{"id":"https://openalex.org/keywords/constraint","display_name":"Constraint (computer-aided design)","score":0.46247684955596924},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.4545218050479889},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.3760219216346741},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3570745587348938},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.20925769209861755},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.14049476385116577},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.1256084144115448}],"concepts":[{"id":"https://openalex.org/C53208351","wikidata":"https://www.wikidata.org/wiki/Q7837630","display_name":"Tree rearrangement","level":4,"score":0.7423906922340393},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.7373397350311279},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.6905213594436646},{"id":"https://openalex.org/C45340560","wikidata":"https://www.wikidata.org/wiki/Q215382","display_name":"Disjoint sets","level":2,"score":0.6139209866523743},{"id":"https://openalex.org/C2778755073","wikidata":"https://www.wikidata.org/wiki/Q10858537","display_name":"Scale (ratio)","level":2,"score":0.5334150195121765},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.520825982093811},{"id":"https://openalex.org/C2776036281","wikidata":"https://www.wikidata.org/wiki/Q48769818","display_name":"Constraint (computer-aided design)","level":2,"score":0.46247684955596924},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.4545218050479889},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.3760219216346741},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3570745587348938},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.20925769209861755},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.14049476385116577},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.1256084144115448},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"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/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"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":"D005796","descriptor_name":"Genes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"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":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbb.2020.2990867","is_oa":true,"landing_page_url":"https://doi.org/10.1109/tcbb.2020.2990867","pdf_url":"https://ieeexplore.ieee.org/ielx7/8857/9346082/09093990.pdf","source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:32750844","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32750844","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":"IEEE/ACM transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":{"id":"doi:10.1109/tcbb.2020.2990867","is_oa":true,"landing_page_url":"https://doi.org/10.1109/tcbb.2020.2990867","pdf_url":"https://ieeexplore.ieee.org/ielx7/8857/9346082/09093990.pdf","source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1171700966","display_name":null,"funder_award_id":"NSF CAREER","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G1441707171","display_name":null,"funder_award_id":"Fellow","funder_id":"https://openalex.org/F4320306079","funder_display_name":"David and Lucile Packard Foundation"},{"id":"https://openalex.org/G1448048428","display_name":null,"funder_award_id":"0725070","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G2783837403","display_name":null,"funder_award_id":"DGE-1144245","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3995038234","display_name":null,"funder_award_id":"CCF-1535977","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G4408871575","display_name":null,"funder_award_id":"Fellowship","funder_id":"https://openalex.org/F4320308774","funder_display_name":"John Simon Guggenheim Memorial Foundation"},{"id":"https://openalex.org/G4641068160","display_name":null,"funder_award_id":"Packard","funder_id":"https://openalex.org/F4320306079","funder_display_name":"David and Lucile Packard Foundation"},{"id":"https://openalex.org/G5211291774","display_name":"CAREER: Scalable learning with combinatorial structure","funder_award_id":"1553284","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G5367696895","display_name":null,"funder_award_id":"OCI-0725070","funder_id":"https://openalex.org/F4320332222","funder_display_name":"University of Illinois at Urbana-Champaign"},{"id":"https://openalex.org/G5921281487","display_name":null,"funder_award_id":"number","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6671297155","display_name":null,"funder_award_id":"CAREER","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6894402473","display_name":null,"funder_award_id":"Fellowship","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7019761770","display_name":null,"funder_award_id":"1535989","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8082577388","display_name":null,"funder_award_id":"OCI-0725070","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G848032724","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8832243575","display_name":null,"funder_award_id":"Fellowship","funder_id":"https://openalex.org/F4320306079","funder_display_name":"David and Lucile Packard Foundation"},{"id":"https://openalex.org/G8837023068","display_name":null,"funder_award_id":"DGE-1144245","funder_id":"https://openalex.org/F4320332222","funder_display_name":"University of Illinois at Urbana-Champaign"},{"id":"https://openalex.org/G92832488","display_name":null,"funder_award_id":"1535977","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320306079","display_name":"David and Lucile Packard Foundation","ror":"https://ror.org/032atxq54"},{"id":"https://openalex.org/F4320308668","display_name":"University of Southern California","ror":"https://ror.org/03taz7m60"},{"id":"https://openalex.org/F4320308774","display_name":"John Simon Guggenheim Memorial Foundation","ror":"https://ror.org/0407tnq23"},{"id":"https://openalex.org/F4320309369","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44"},{"id":"https://openalex.org/F4320309434","display_name":"University of Wisconsin-Madison","ror":"https://ror.org/01y2jtd41"},{"id":"https://openalex.org/F4320309626","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28"},{"id":"https://openalex.org/F4320332222","display_name":"University of Illinois at Urbana-Champaign","ror":"https://ror.org/047426m28"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3025962679.pdf","grobid_xml":"https://content.openalex.org/works/W3025962679.grobid-xml"},"referenced_works_count":58,"referenced_works":["https://openalex.org/W160062981","https://openalex.org/W420957490","https://openalex.org/W1520116718","https://openalex.org/W1525734744","https://openalex.org/W1580609970","https://openalex.org/W1593676244","https://openalex.org/W1889423108","https://openalex.org/W1977099058","https://openalex.org/W2019750012","https://openalex.org/W2031611770","https://openalex.org/W2035749803","https://openalex.org/W2038876634","https://openalex.org/W2052432722","https://openalex.org/W2056251063","https://openalex.org/W2057853309","https://openalex.org/W2066327035","https://openalex.org/W2082445660","https://openalex.org/W2097706568","https://openalex.org/W2103546861","https://openalex.org/W2107608009","https://openalex.org/W2108911240","https://openalex.org/W2111647009","https://openalex.org/W2114055146","https://openalex.org/W2119837484","https://openalex.org/W2120663060","https://openalex.org/W2126325593","https://openalex.org/W2139050004","https://openalex.org/W2141052558","https://openalex.org/W2145562754","https://openalex.org/W2145608399","https://openalex.org/W2147461064","https://openalex.org/W2147536240","https://openalex.org/W2152179349","https://openalex.org/W2157552136","https://openalex.org/W2161973008","https://openalex.org/W2179623716","https://openalex.org/W2327660108","https://openalex.org/W2521268904","https://openalex.org/W2608378253","https://openalex.org/W2766813858","https://openalex.org/W2789979314","https://openalex.org/W2916151408","https://openalex.org/W2920593524","https://openalex.org/W2936368290","https://openalex.org/W2952299127","https://openalex.org/W2955099628","https://openalex.org/W2962714894","https://openalex.org/W2963132458","https://openalex.org/W2964002726","https://openalex.org/W2964038309","https://openalex.org/W3016794363","https://openalex.org/W3143110774","https://openalex.org/W4230357098","https://openalex.org/W4230603454","https://openalex.org/W6634604597","https://openalex.org/W6659434740","https://openalex.org/W6674647444","https://openalex.org/W6759400455"],"related_works":["https://openalex.org/W85430217","https://openalex.org/W4205930990","https://openalex.org/W1993799876","https://openalex.org/W3088015816","https://openalex.org/W2607237371","https://openalex.org/W3212896338","https://openalex.org/W2785637779","https://openalex.org/W2362218761","https://openalex.org/W1997023990","https://openalex.org/W2113708670"],"abstract_inverted_index":{"Incremental":[0],"tree":[1,79,82,103,157,169,195],"building":[2],"(INC)":[3],"is":[4,30,45],"a":[5,41,57],"new":[6],"phylogeny":[7,38],"estimation":[8,39,83,158,170],"method":[9,96],"that":[10,97,107],"has":[11,109],"been":[12],"proven":[13],"to":[14,90,115,124,150,172,174],"be":[15],"absolute":[16],"fast":[17],"converging":[18],"under":[19],"standard":[20,116],"sequence":[21],"evolution":[22],"models.":[23],"A":[24],"variant":[25],"of":[26,43,73,133,153,189],"INC,":[27],"called":[28],"Constrained-INC,":[29],"designed":[31],"for":[32,37,77,140,192],"use":[33],"in":[34,113],"divide-and-conquer":[35,190],"pipelines":[36,92],"where":[40],"set":[42],"species":[44,81,141,156,168],"divided":[46],"into":[47],"disjoint":[48,99],"subsets,":[49],"trees":[50,65,142],"are":[51,66,143],"computed":[52],"on":[53,84],"the":[54,63,71,131,134,151,154,185],"subsets":[55],"using":[56,93,165],"selected":[58],"base":[59],"method,":[60],"and":[61,75,80,87,118,187],"then":[62],"subset":[64],"combined":[67],"together.":[68],"We":[69],"evaluate":[70],"accuracy":[72,112,132,152],"INC":[74,108],"Constrained-INC":[76,147,166],"gene":[78,102],"simulated":[85],"datasets,":[86],"compare":[88],"it":[89],"similar":[91],"NJMerge":[94],"(another":[95],"merges":[98],"trees).":[100],"For":[101],"estimation,":[104],"we":[105],"find":[106],"very":[110],"poor":[111],"comparison":[114],"methods,":[117,159],"even":[119],"Constrained-INC(using":[120],"maximum":[121,136],"likelihood":[122,137],"methods":[123,171],"compute":[125],"constraint":[126],"trees)":[127],"does":[128],"not":[129],"match":[130],"better":[135],"methods.":[138],"Results":[139],"somewhat":[144],"different,":[145],"with":[146],"coming":[148],"close":[149],"best":[155],"while":[160],"being":[161],"much":[162],"faster;":[163],"furthermore,":[164],"allows":[167],"scale":[173],"large":[175],"datasets":[176],"within":[177],"limited":[178],"computational":[179],"resources.":[180],"Overall,":[181],"this":[182],"study":[183],"exposes":[184],"benefits":[186],"limitations":[188],"strategies":[191],"large-scale":[193],"phylogenetic":[194],"estimation.":[196]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}