{"id":"https://openalex.org/W2101457141","doi":"https://doi.org/10.1093/bioinformatics/btu258","title":"<scp>kdetrees</scp>: non-parametric estimation of phylogenetic tree distributions","display_name":"<scp>kdetrees</scp>: non-parametric estimation of phylogenetic tree distributions","publication_year":2014,"publication_date":"2014-04-24","ids":{"openalex":"https://openalex.org/W2101457141","doi":"https://doi.org/10.1093/bioinformatics/btu258","mag":"2101457141","pmid":"https://pubmed.ncbi.nlm.nih.gov/24764459"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btu258","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu258","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/16/2280/48925522/bioinformatics_30_16_2280.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/30/16/2280/48925522/bioinformatics_30_16_2280.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5079509519","display_name":"Grady Weyenberg","orcid":"https://orcid.org/0000-0001-6128-1772"},"institutions":[{"id":"https://openalex.org/I143302722","display_name":"University of Kentucky","ror":"https://ror.org/02k3smh20","country_code":"US","type":"education","lineage":["https://openalex.org/I143302722"]},{"id":"https://openalex.org/I74973139","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33","country_code":"US","type":"education","lineage":["https://openalex.org/I74973139"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Grady Weyenberg","raw_affiliation_strings":["1 \u00a01Department of Statistics, University of Kentucky, Lexington, KY 40536, 2Robotics Institute, Carnegie Mellon University, Pittsburgh, PA 15213, 3Plant Pathology Department and 4Department of Veterinary Science, University of Kentucky, Lexington, KY 40546, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 \u00a01Department of Statistics, University of Kentucky, Lexington, KY 40536, 2Robotics Institute, Carnegie Mellon University, Pittsburgh, PA 15213, 3Plant Pathology Department and 4Department of Veterinary Science, University of Kentucky, Lexington, KY 40546, USA","institution_ids":["https://openalex.org/I143302722","https://openalex.org/I74973139"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074935193","display_name":"Peter Huggins","orcid":null},"institutions":[{"id":"https://openalex.org/I143302722","display_name":"University of Kentucky","ror":"https://ror.org/02k3smh20","country_code":"US","type":"education","lineage":["https://openalex.org/I143302722"]},{"id":"https://openalex.org/I74973139","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33","country_code":"US","type":"education","lineage":["https://openalex.org/I74973139"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Peter M. Huggins","raw_affiliation_strings":["1 \u00a01Department of Statistics, University of Kentucky, Lexington, KY 40536, 2Robotics Institute, Carnegie Mellon University, Pittsburgh, PA 15213, 3Plant Pathology Department and 4Department of Veterinary Science, University of Kentucky, Lexington, KY 40546, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 \u00a01Department of Statistics, University of Kentucky, Lexington, KY 40536, 2Robotics Institute, Carnegie Mellon University, Pittsburgh, PA 15213, 3Plant Pathology Department and 4Department of Veterinary Science, University of Kentucky, Lexington, KY 40546, USA","institution_ids":["https://openalex.org/I143302722","https://openalex.org/I74973139"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068105637","display_name":"Christopher L. Schardl","orcid":"https://orcid.org/0000-0003-2197-0842"},"institutions":[{"id":"https://openalex.org/I143302722","display_name":"University of Kentucky","ror":"https://ror.org/02k3smh20","country_code":"US","type":"education","lineage":["https://openalex.org/I143302722"]},{"id":"https://openalex.org/I74973139","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33","country_code":"US","type":"education","lineage":["https://openalex.org/I74973139"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Christopher L. Schardl","raw_affiliation_strings":["1 \u00a01Department of Statistics, University of Kentucky, Lexington, KY 40536, 2Robotics Institute, Carnegie Mellon University, Pittsburgh, PA 15213, 3Plant Pathology Department and 4Department of Veterinary Science, University of Kentucky, Lexington, KY 40546, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 \u00a01Department of Statistics, University of Kentucky, Lexington, KY 40536, 2Robotics Institute, Carnegie Mellon University, Pittsburgh, PA 15213, 3Plant Pathology Department and 4Department of Veterinary Science, University of Kentucky, Lexington, KY 40546, USA","institution_ids":["https://openalex.org/I143302722","https://openalex.org/I74973139"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102919804","display_name":"Daniel K. Howe","orcid":"https://orcid.org/0000-0003-3704-136X"},"institutions":[{"id":"https://openalex.org/I143302722","display_name":"University of Kentucky","ror":"https://ror.org/02k3smh20","country_code":"US","type":"education","lineage":["https://openalex.org/I143302722"]},{"id":"https://openalex.org/I74973139","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33","country_code":"US","type":"education","lineage":["https://openalex.org/I74973139"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Daniel K. Howe","raw_affiliation_strings":["1 \u00a01Department of Statistics, University of Kentucky, Lexington, KY 40536, 2Robotics Institute, Carnegie Mellon University, Pittsburgh, PA 15213, 3Plant Pathology Department and 4Department of Veterinary Science, University of Kentucky, Lexington, KY 40546, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 \u00a01Department of Statistics, University of Kentucky, Lexington, KY 40536, 2Robotics Institute, Carnegie Mellon University, Pittsburgh, PA 15213, 3Plant Pathology Department and 4Department of Veterinary Science, University of Kentucky, Lexington, KY 40546, USA","institution_ids":["https://openalex.org/I143302722","https://openalex.org/I74973139"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5079338715","display_name":"Ruriko Yoshida","orcid":"https://orcid.org/0000-0003-0995-2553"},"institutions":[{"id":"https://openalex.org/I143302722","display_name":"University of Kentucky","ror":"https://ror.org/02k3smh20","country_code":"US","type":"education","lineage":["https://openalex.org/I143302722"]},{"id":"https://openalex.org/I74973139","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33","country_code":"US","type":"education","lineage":["https://openalex.org/I74973139"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Ruriko Yoshida","raw_affiliation_strings":["1 \u00a01Department of Statistics, University of Kentucky, Lexington, KY 40536, 2Robotics Institute, Carnegie Mellon University, Pittsburgh, PA 15213, 3Plant Pathology Department and 4Department of Veterinary Science, University of Kentucky, Lexington, KY 40546, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 \u00a01Department of Statistics, University of Kentucky, Lexington, KY 40536, 2Robotics Institute, Carnegie Mellon University, Pittsburgh, PA 15213, 3Plant Pathology Department and 4Department of Veterinary Science, University of Kentucky, Lexington, KY 40546, USA","institution_ids":["https://openalex.org/I143302722","https://openalex.org/I74973139"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5079338715"],"corresponding_institution_ids":["https://openalex.org/I143302722","https://openalex.org/I74973139"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":2.5619,"has_fulltext":true,"cited_by_count":53,"citation_normalized_percentile":{"value":0.9003033,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"30","issue":"16","first_page":"2280","last_page":"2287"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9296000003814697,"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":0.9296000003814697,"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/T13664","display_name":"Genome Rearrangement Algorithms","score":0.025599999353289604,"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/T12668","display_name":"Yeasts and Rust Fungi Studies","score":0.006500000134110451,"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/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.7720063924789429},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.6131144165992737},{"id":"https://openalex.org/keywords/coalescent-theory","display_name":"Coalescent theory","score":0.5681446194648743},{"id":"https://openalex.org/keywords/horizontal-gene-transfer","display_name":"Horizontal gene transfer","score":0.5501103401184082},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5406230688095093},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5217629075050354},{"id":"https://openalex.org/keywords/neofunctionalization","display_name":"Neofunctionalization","score":0.5156761407852173},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4983487129211426},{"id":"https://openalex.org/keywords/clade","display_name":"Clade","score":0.4728396534919739},{"id":"https://openalex.org/keywords/phylogenetics","display_name":"Phylogenetics","score":0.45588409900665283},{"id":"https://openalex.org/keywords/gene-duplication","display_name":"Gene duplication","score":0.4165636897087097},{"id":"https://openalex.org/keywords/parametric-statistics","display_name":"Parametric statistics","score":0.41028687357902527},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4085747003555298},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3228567838668823},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.31876862049102783},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.292954683303833},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.20177513360977173},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.1374121606349945}],"concepts":[{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.7720063924789429},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.6131144165992737},{"id":"https://openalex.org/C2554327","wikidata":"https://www.wikidata.org/wiki/Q2698599","display_name":"Coalescent theory","level":4,"score":0.5681446194648743},{"id":"https://openalex.org/C92938381","wikidata":"https://www.wikidata.org/wiki/Q83185","display_name":"Horizontal gene transfer","level":4,"score":0.5501103401184082},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5406230688095093},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5217629075050354},{"id":"https://openalex.org/C107110972","wikidata":"https://www.wikidata.org/wiki/Q6992868","display_name":"Neofunctionalization","level":4,"score":0.5156761407852173},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4983487129211426},{"id":"https://openalex.org/C44465124","wikidata":"https://www.wikidata.org/wiki/Q713623","display_name":"Clade","level":4,"score":0.4728396534919739},{"id":"https://openalex.org/C90132467","wikidata":"https://www.wikidata.org/wiki/Q171184","display_name":"Phylogenetics","level":3,"score":0.45588409900665283},{"id":"https://openalex.org/C7602840","wikidata":"https://www.wikidata.org/wiki/Q746284","display_name":"Gene duplication","level":3,"score":0.4165636897087097},{"id":"https://openalex.org/C117251300","wikidata":"https://www.wikidata.org/wiki/Q1849855","display_name":"Parametric statistics","level":2,"score":0.41028687357902527},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4085747003555298},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3228567838668823},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.31876862049102783},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.292954683303833},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.20177513360977173},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.1374121606349945},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","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":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005796","descriptor_name":"Genes","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":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":"D010802","descriptor_name":"Phylogeny","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016782","descriptor_name":"Apicomplexa","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016782","descriptor_name":"Apicomplexa","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016782","descriptor_name":"Apicomplexa","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016782","descriptor_name":"Apicomplexa","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D018709","descriptor_name":"Statistics, Nonparametric","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018709","descriptor_name":"Statistics, Nonparametric","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018709","descriptor_name":"Statistics, Nonparametric","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018709","descriptor_name":"Statistics, Nonparametric","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":"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":"D055329","descriptor_name":"Epichloe","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D055329","descriptor_name":"Epichloe","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D055329","descriptor_name":"Epichloe","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D055329","descriptor_name":"Epichloe","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btu258","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu258","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/16/2280/48925522/bioinformatics_30_16_2280.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:24764459","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24764459","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:4176058","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4176058","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btu258","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu258","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/16/2280/48925522/bioinformatics_30_16_2280.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.4300000071525574,"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land"}],"awards":[{"id":"https://openalex.org/G3624060679","display_name":null,"funder_award_id":"R01GM086888","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5247551285","display_name":null,"funder_award_id":"2009-65109-05918","funder_id":"https://openalex.org/F4320306114","funder_display_name":"U.S. Department of Agriculture"}],"funders":[{"id":"https://openalex.org/F4320306114","display_name":"U.S. Department of Agriculture","ror":"https://ror.org/01na82s61"},{"id":"https://openalex.org/F4320321041","display_name":"Academia Sinica","ror":"https://ror.org/05bxb3784"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332483","display_name":"Cooperative State Research, Education, and Extension Service","ror":"https://ror.org/01na82s61"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2101457141.pdf","grobid_xml":"https://content.openalex.org/works/W2101457141.grobid-xml"},"referenced_works_count":81,"referenced_works":["https://openalex.org/W7243350","https://openalex.org/W1554944419","https://openalex.org/W1587026990","https://openalex.org/W1596422325","https://openalex.org/W1929783548","https://openalex.org/W1929921649","https://openalex.org/W1933357484","https://openalex.org/W1943383135","https://openalex.org/W1964422196","https://openalex.org/W1981029985","https://openalex.org/W1982577228","https://openalex.org/W1998459277","https://openalex.org/W2000940414","https://openalex.org/W2003064123","https://openalex.org/W2008856488","https://openalex.org/W2009849262","https://openalex.org/W2019851585","https://openalex.org/W2022810135","https://openalex.org/W2037654474","https://openalex.org/W2037667459","https://openalex.org/W2037843515","https://openalex.org/W2059123697","https://openalex.org/W2060000061","https://openalex.org/W2060425093","https://openalex.org/W2060548177","https://openalex.org/W2064657914","https://openalex.org/W2075579221","https://openalex.org/W2093260114","https://openalex.org/W2097755267","https://openalex.org/W2101149298","https://openalex.org/W2101477900","https://openalex.org/W2102665886","https://openalex.org/W2103412835","https://openalex.org/W2106704226","https://openalex.org/W2111303992","https://openalex.org/W2112956791","https://openalex.org/W2119438568","https://openalex.org/W2120323779","https://openalex.org/W2122261141","https://openalex.org/W2123179582","https://openalex.org/W2128252278","https://openalex.org/W2129161084","https://openalex.org/W2129682166","https://openalex.org/W2130921644","https://openalex.org/W2137180017","https://openalex.org/W2139736670","https://openalex.org/W2142718629","https://openalex.org/W2145608399","https://openalex.org/W2147432522","https://openalex.org/W2149351619","https://openalex.org/W2149528300","https://openalex.org/W2150270014","https://openalex.org/W2150864606","https://openalex.org/W2151409320","https://openalex.org/W2154675536","https://openalex.org/W2155998147","https://openalex.org/W2159237780","https://openalex.org/W2160971996","https://openalex.org/W2161421500","https://openalex.org/W2161896796","https://openalex.org/W2163916007","https://openalex.org/W2172696783","https://openalex.org/W2178682494","https://openalex.org/W2319794630","https://openalex.org/W2582743722","https://openalex.org/W2787894218","https://openalex.org/W4210681352","https://openalex.org/W4230096730","https://openalex.org/W4233212183","https://openalex.org/W4249059011","https://openalex.org/W4250071703","https://openalex.org/W4254607142","https://openalex.org/W4388311470","https://openalex.org/W4399542067","https://openalex.org/W6645685865","https://openalex.org/W6649753774","https://openalex.org/W6652554508","https://openalex.org/W6681255451","https://openalex.org/W6685415645","https://openalex.org/W6685488187","https://openalex.org/W6694046165"],"related_works":["https://openalex.org/W2387304298","https://openalex.org/W3014424121","https://openalex.org/W2044992198","https://openalex.org/W2964076513","https://openalex.org/W4313457482","https://openalex.org/W2947942681","https://openalex.org/W2097460046","https://openalex.org/W2166212839","https://openalex.org/W2137216034","https://openalex.org/W4237822348"],"abstract_inverted_index":{"MOTIVATION:":[0],"Although":[1],"the":[2,23,56,97,107,110,113,138,223],"majority":[3,57],"of":[4,11,55,58,93,99,109,128,132,140,155,160,184,193,205],"gene":[5,37,39,62,177,186],"histories":[6],"found":[7],"in":[8,79,112,137],"a":[9,19,50,87,120,148,158,176,181,191,202],"clade":[10],"organisms":[12],"are":[13,64,103],"expected":[14],"to":[15,48,66,151,157],"be":[16,67],"generated":[17],"by":[18],"common":[20],"process":[21],"(e.g.":[22,35],"coalescent":[24],"process),":[25],"it":[26],"is":[27,220,228],"well":[28,174],"known":[29],"that":[30,102,168],"numerous":[31],"other":[32],"coexisting":[33],"processes":[34],"horizontal":[36,185],"transfers,":[38],"duplication":[40],"and":[41,70,84,216,227],"subsequent":[42],"neofunctionalization)":[43],"will":[44],"cause":[45],"some":[46],"genes":[47,73,162],"exhibit":[49],"history":[51],"distinct":[52],"from":[53,106,232],"those":[54],"genes.":[59],"Such":[60],"'outlying'":[61],"trees":[63,101,111,141,219],"considered":[65],"biologically":[68],"interesting,":[69],"identifying":[71,100,201,217],"these":[72],"has":[74],"become":[75],"an":[76,126],"important":[77],"problem":[78],"phylogenetics.":[80],"RESULTS:":[81],"We":[82,188],"propose":[83],"implement":[85],"kdetrees,":[86],"non-parametric":[88],"method":[89,116,211],"for":[90,212,230],"estimating":[91,213],"distributions":[92,215],"phylogenetic":[94],"trees,":[95],"with":[96,119,143,198],"goal":[98],"significantly":[104],"different":[105],"rest":[108],"sample.":[114],"Our":[115,210],"compares":[117],"favorably":[118],"similar":[121],"recently":[122],"published":[123],"method,":[124],"featuring":[125],"improvement":[127],"one":[129],"polynomial":[130],"order":[131],"computational":[133],"complexity":[134],"(to":[135],"quadratic":[136],"number":[139],"analyzed),":[142],"simulation":[144],"studies":[145],"suggesting":[146],"only":[147],"small":[149],"penalty":[150],"classification":[152],"accuracy.":[153],"Application":[154],"kdetrees":[156,226],"set":[159,192],"Apicomplexa":[161],"identified":[163],"several":[164],"unreliable":[165],"sequence":[166],"alignments":[167],"had":[169],"escaped":[170],"previous":[171],"detection,":[172],"as":[173,175,180,222],"independently":[178],"reported":[179],"possible":[182],"case":[183],"transfer.":[187],"also":[189],"analyze":[190],"Epichlo\u00eb":[194],"genes,":[195],"fungi":[196],"symbiotic":[197],"grasses,":[199],"successfully":[200],"contrived":[203],"instance":[204],"paralogy.":[206],"AVAILABILITY":[207],"AND":[208],"IMPLEMENTATION:":[209],"tree":[214],"outlying":[218],"implemented":[221],"R":[224],"package":[225],"available":[229],"download":[231],"CRAN.":[233]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":6},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":8},{"year":2018,"cited_by_count":8},{"year":2017,"cited_by_count":5},{"year":2016,"cited_by_count":6},{"year":2015,"cited_by_count":7}],"updated_date":"2026-06-16T07:32:37.131356","created_date":"2016-06-24T00:00:00"}
