{"id":"https://openalex.org/W2898840112","doi":"https://doi.org/10.1109/tcbb.2018.2878731","title":"Faster Exact Computation of rSPR Distance via Better Approximation","display_name":"Faster Exact Computation of rSPR Distance via Better Approximation","publication_year":2018,"publication_date":"2018-10-30","ids":{"openalex":"https://openalex.org/W2898840112","doi":"https://doi.org/10.1109/tcbb.2018.2878731","mag":"2898840112","pmid":"https://pubmed.ncbi.nlm.nih.gov/30387740"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2018.2878731","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2018.2878731","pdf_url":null,"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":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":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101483230","display_name":"Zhi\u2010Zhong Chen","orcid":"https://orcid.org/0000-0003-3061-1171"},"institutions":[{"id":"https://openalex.org/I165522056","display_name":"Tokyo Denki University","ror":"https://ror.org/01pa62v70","country_code":"JP","type":"education","lineage":["https://openalex.org/I165522056"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Zhi-Zhong Chen","raw_affiliation_strings":["Division of Information System Design, Tokyo Denki University, Hatoyama, Japan"],"affiliations":[{"raw_affiliation_string":"Division of Information System Design, Tokyo Denki University, Hatoyama, Japan","institution_ids":["https://openalex.org/I165522056"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074847389","display_name":"Youta Harada","orcid":null},"institutions":[{"id":"https://openalex.org/I165522056","display_name":"Tokyo Denki University","ror":"https://ror.org/01pa62v70","country_code":"JP","type":"education","lineage":["https://openalex.org/I165522056"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Youta Harada","raw_affiliation_strings":["Division of Information System Design, Tokyo Denki University, Hatoyama, Japan"],"affiliations":[{"raw_affiliation_string":"Division of Information System Design, Tokyo Denki University, Hatoyama, Japan","institution_ids":["https://openalex.org/I165522056"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089167689","display_name":"Yuna Nakamura","orcid":null},"institutions":[{"id":"https://openalex.org/I165522056","display_name":"Tokyo Denki University","ror":"https://ror.org/01pa62v70","country_code":"JP","type":"education","lineage":["https://openalex.org/I165522056"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Yuna Nakamura","raw_affiliation_strings":["Division of Information System Design, Tokyo Denki University, Hatoyama, Japan"],"affiliations":[{"raw_affiliation_string":"Division of Information System Design, Tokyo Denki University, Hatoyama, Japan","institution_ids":["https://openalex.org/I165522056"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5065315257","display_name":"Lusheng Wang","orcid":"https://orcid.org/0000-0002-4344-8791"},"institutions":[{"id":"https://openalex.org/I168719708","display_name":"City University of Hong Kong","ror":"https://ror.org/03q8dnn23","country_code":"HK","type":"education","lineage":["https://openalex.org/I168719708"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Lusheng Wang","raw_affiliation_strings":["Department of Computer Science, City University of Hong Kong, Hong Kong SAR"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, City University of Hong Kong, Hong Kong SAR","institution_ids":["https://openalex.org/I168719708"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5101483230"],"corresponding_institution_ids":["https://openalex.org/I165522056"],"apc_list":null,"apc_paid":null,"fwci":0.1838,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.53533615,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":95},"biblio":{"volume":"17","issue":"3","first_page":"916","last_page":"929"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9994999766349792,"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":0.9994999766349792,"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":0.9900000095367432,"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/T13664","display_name":"Genome Rearrangement Algorithms","score":0.98089998960495,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.6326568126678467},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.609956681728363},{"id":"https://openalex.org/keywords/computation","display_name":"Computation","score":0.5926849842071533},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.5480265617370605},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.5365128517150879},{"id":"https://openalex.org/keywords/upper-and-lower-bounds","display_name":"Upper and lower bounds","score":0.4877622723579407},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.47260385751724243},{"id":"https://openalex.org/keywords/measure","display_name":"Measure (data warehouse)","score":0.4553951621055603},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4014953076839447},{"id":"https://openalex.org/keywords/discrete-mathematics","display_name":"Discrete mathematics","score":0.3704969584941864},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.32741308212280273},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.11369898915290833},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.10628321766853333},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.05993074178695679}],"concepts":[{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.6326568126678467},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.609956681728363},{"id":"https://openalex.org/C45374587","wikidata":"https://www.wikidata.org/wiki/Q12525525","display_name":"Computation","level":2,"score":0.5926849842071533},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.5480265617370605},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.5365128517150879},{"id":"https://openalex.org/C77553402","wikidata":"https://www.wikidata.org/wiki/Q13222579","display_name":"Upper and lower bounds","level":2,"score":0.4877622723579407},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.47260385751724243},{"id":"https://openalex.org/C2780009758","wikidata":"https://www.wikidata.org/wiki/Q6804172","display_name":"Measure (data warehouse)","level":2,"score":0.4553951621055603},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4014953076839447},{"id":"https://openalex.org/C118615104","wikidata":"https://www.wikidata.org/wiki/Q121416","display_name":"Discrete mathematics","level":1,"score":0.3704969584941864},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.32741308212280273},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.11369898915290833},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10628321766853333},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.05993074178695679},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","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/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbb.2018.2878731","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2018.2878731","pdf_url":null,"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":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":"journal-article"},{"id":"pmid:30387740","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30387740","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":null,"sustainable_development_goals":[{"score":0.6299999952316284,"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15"}],"awards":[{"id":"https://openalex.org/G6049359297","display_name":null,"funder_award_id":"NSFC 61373048","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6879588634","display_name":null,"funder_award_id":"18K11183","funder_id":"https://openalex.org/F4320320912","funder_display_name":"Ministry of Education, Culture, Sports, Science and Technology"}],"funders":[{"id":"https://openalex.org/F4320320912","display_name":"Ministry of Education, Culture, Sports, Science and Technology","ror":"https://ror.org/048rj2z13"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":23,"referenced_works":["https://openalex.org/W798279669","https://openalex.org/W1546944601","https://openalex.org/W1582613544","https://openalex.org/W1799812931","https://openalex.org/W1982901388","https://openalex.org/W1991847723","https://openalex.org/W2021281986","https://openalex.org/W2042877799","https://openalex.org/W2047715328","https://openalex.org/W2057280377","https://openalex.org/W2080787406","https://openalex.org/W2093999627","https://openalex.org/W2098008234","https://openalex.org/W2105866000","https://openalex.org/W2126358107","https://openalex.org/W2145171033","https://openalex.org/W2145608399","https://openalex.org/W2156708127","https://openalex.org/W2502242661","https://openalex.org/W2963275734","https://openalex.org/W4230603454","https://openalex.org/W4303858372","https://openalex.org/W6846195005"],"related_works":["https://openalex.org/W4312203868","https://openalex.org/W4255837520","https://openalex.org/W2069013776","https://openalex.org/W2038264393","https://openalex.org/W2059637021","https://openalex.org/W2362218761","https://openalex.org/W2113708670","https://openalex.org/W2062354928","https://openalex.org/W2088120817","https://openalex.org/W2158340599"],"abstract_inverted_index":{"Due":[0],"to":[1,33,147],"hybridization":[2],"events":[3],"in":[4],"evolution,":[5],"studying":[6],"two":[7,17,39,51,67,97,139],"different":[8,20],"genes":[9],"of":[10,13,26,37,49,61,66,79,101,137],"a":[11,77],"set":[12,25],"species":[14],"may":[15],"yield":[16],"related":[18],"but":[19,73],"phylogenetic":[21],"trees":[22,52,69,141],"for":[23,56,84],"the":[24,35,38,50,63,86,104,109,119,122,134,138,143],"species.":[27],"In":[28,92],"this":[29,57,93],"case,":[30],"we":[31,95],"want":[32],"measure":[34],"dissimilarity":[36],"trees.":[40],"The":[41,59],"rooted":[42],"subtree":[43],"prune":[44],"and":[45,107,125,130],"regraft":[46],"(rSPR)":[47],"distance":[48,65,136],"has":[53,70],"been":[54,82],"used":[55],"purpose.":[58],"problem":[60,87,105,123],"computing":[62],"rSPR":[64,135],"given":[68,140],"many":[71],"applications":[72],"is":[74],"NP-hard.":[75],"Accordingly,":[76],"number":[78],"programs":[80,152],"have":[81],"developed":[83],"solving":[85],"either":[88],"exactly":[89,106],"or":[90],"approximately.":[91],"paper,":[94],"develop":[96],"new":[98],"programs,":[99],"one":[100],"which":[102],"solves":[103,121],"outperforms":[108],"previous":[110,144],"best":[111,145],"(namely,":[112],"Whidden":[113],"et":[114,149],"al.'s":[115],"rSPR-v1.3.0)":[116],"significantly,":[117],"while":[118],"other":[120],"approximately":[124],"outputs":[126],"significantly":[127],"better":[128],"lower":[129],"upper":[131],"bounds":[132],"on":[133],"than":[142],"due":[146],"Schalekamp":[148],"al.":[150],"Our":[151],"can":[153],"be":[154],"downloaded":[155],"at":[156],"http://rnc.r.dendai.ac.jp/rspr.html.":[157]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
