{"id":"https://openalex.org/W2145171033","doi":"https://doi.org/10.1093/bioinformatics/btn606","title":"A practical method for exact computation of subtree prune and regraft distance","display_name":"A practical method for exact computation of subtree prune and regraft distance","publication_year":2008,"publication_date":"2008-11-19","ids":{"openalex":"https://openalex.org/W2145171033","doi":"https://doi.org/10.1093/bioinformatics/btn606","mag":"2145171033","pmid":"https://pubmed.ncbi.nlm.nih.gov/19019848"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btn606","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn606","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/2/190/48982724/bioinformatics_25_2_190.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/25/2/190/48982724/bioinformatics_25_2_190.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101579568","display_name":"Yufeng Wu","orcid":"https://orcid.org/0000-0003-4988-3521"},"institutions":[{"id":"https://openalex.org/I140172145","display_name":"University of Connecticut","ror":"https://ror.org/02der9h97","country_code":"US","type":"education","lineage":["https://openalex.org/I140172145"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yufeng Wu","raw_affiliation_strings":["Department of Computer Science and Engineering, University of Connecticut, Storrs, CT 06269, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, University of Connecticut, Storrs, CT 06269, USA","institution_ids":["https://openalex.org/I140172145"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5101579568"],"corresponding_institution_ids":["https://openalex.org/I140172145"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":7.8384,"has_fulltext":false,"cited_by_count":87,"citation_normalized_percentile":{"value":0.97858473,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"25","issue":"2","first_page":"190","last_page":"196"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11106","display_name":"Data Management and Algorithms","score":0.9592999815940857,"subfield":{"id":"https://openalex.org/subfields/1711","display_name":"Signal Processing"},"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/T11106","display_name":"Data Management and Algorithms","score":0.9592999815940857,"subfield":{"id":"https://openalex.org/subfields/1711","display_name":"Signal Processing"},"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/T12292","display_name":"Graph Theory and Algorithms","score":0.9560999870300293,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"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/T12016","display_name":"Web Data Mining and Analysis","score":0.9484000205993652,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computation","display_name":"Computation","score":0.8082702159881592},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5178704261779785},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3292737603187561},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.3247266411781311}],"concepts":[{"id":"https://openalex.org/C45374587","wikidata":"https://www.wikidata.org/wiki/Q12525525","display_name":"Computation","level":2,"score":0.8082702159881592},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5178704261779785},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3292737603187561},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.3247266411781311}],"mesh":[{"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":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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"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":"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:10.1093/bioinformatics/btn606","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn606","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/2/190/48982724/bioinformatics_25_2_190.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:19019848","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19019848","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}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btn606","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn606","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/2/190/48982724/bioinformatics_25_2_190.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":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2145171033.pdf","grobid_xml":"https://content.openalex.org/works/W2145171033.grobid-xml"},"referenced_works_count":24,"referenced_works":["https://openalex.org/W339993192","https://openalex.org/W1589198179","https://openalex.org/W1602925841","https://openalex.org/W1652298321","https://openalex.org/W1799812931","https://openalex.org/W1829693430","https://openalex.org/W1875901059","https://openalex.org/W1982901388","https://openalex.org/W1992584622","https://openalex.org/W2021281986","https://openalex.org/W2026152438","https://openalex.org/W2042877799","https://openalex.org/W2047715328","https://openalex.org/W2049931279","https://openalex.org/W2057280377","https://openalex.org/W2072362336","https://openalex.org/W2142860007","https://openalex.org/W4233815609","https://openalex.org/W4251949964","https://openalex.org/W4388212639","https://openalex.org/W4388243512","https://openalex.org/W6611586063","https://openalex.org/W6638647357","https://openalex.org/W6639294132"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W1979597421","https://openalex.org/W2007980826","https://openalex.org/W2051487156","https://openalex.org/W2061531152","https://openalex.org/W3002753104","https://openalex.org/W2077600819","https://openalex.org/W2142036596","https://openalex.org/W2072657027","https://openalex.org/W2600246793"],"abstract_inverted_index":{"In":[0],"this":[1,22],"article,":[2],"we":[3,32],"present":[4],"a":[5],"simple":[6],"and":[7,28,46],"practical":[8],"method":[9,24,37,54],"that":[10,34,52],"computes":[11],"the":[12,57],"exact":[13,58],"(r)SPR":[14,59,67],"distance":[15,60],"with":[16,65],"integer":[17],"linear":[18],"programming.":[19],"By":[20],"applying":[21],"new":[23,36],"on":[25],"several":[26],"simulated":[27],"real":[29],"biological":[30],"datasets,":[31],"show":[33],"our":[35,53],"outperforms":[38],"existing":[39],"software":[40],"tools":[41],"in":[42],"term":[43],"of":[44],"accuracy":[45],"efficiency.":[47],"Our":[48],"experimental":[49],"results":[50],"indicate":[51],"can":[55],"compute":[56],"for":[61],"many":[62],"large":[63,66],"trees":[64],"distance.":[68]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":5},{"year":2019,"cited_by_count":35},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":4},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":6},{"year":2012,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}