{"id":"https://openalex.org/W2156234759","doi":"https://doi.org/10.1186/1471-2105-12-204","title":"Tree edit distance for leaf-labelled trees on free leafset and its comparison with frequent subsplit dissimilarity and popular distance measures","display_name":"Tree edit distance for leaf-labelled trees on free leafset and its comparison with frequent subsplit dissimilarity and popular distance measures","publication_year":2011,"publication_date":"2011-05-25","ids":{"openalex":"https://openalex.org/W2156234759","doi":"https://doi.org/10.1186/1471-2105-12-204","mag":"2156234759","pmid":"https://pubmed.ncbi.nlm.nih.gov/21612645"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-12-204","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-204","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-204","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-204","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5057152025","display_name":"Jakub Koperwas","orcid":"https://orcid.org/0000-0003-0693-5109"},"institutions":[{"id":"https://openalex.org/I108403487","display_name":"Warsaw University of Technology","ror":"https://ror.org/00y0xnp53","country_code":"PL","type":"education","lineage":["https://openalex.org/I108403487"]},{"id":"https://openalex.org/I4210087266","display_name":"Institute of Computer Science","ror":"https://ror.org/003fvp964","country_code":"PL","type":"facility","lineage":["https://openalex.org/I4210087266","https://openalex.org/I99542240"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Jakub Koperwas","raw_affiliation_strings":["Institute of Computer Science, Warsaw University of Technology, Nowowiejska 15/19, 00-665 Warsaw, Poland. j.koperwas@elka.pw.edu.pl","Institute of Computer Science, Warsaw University of Technology, Nowowiejska 15/19, 00-665, Warsaw, Poland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Computer Science, Warsaw University of Technology, Nowowiejska 15/19, 00-665 Warsaw, Poland. j.koperwas@elka.pw.edu.pl","institution_ids":["https://openalex.org/I108403487"]},{"raw_affiliation_string":"Institute of Computer Science, Warsaw University of Technology, Nowowiejska 15/19, 00-665, Warsaw, Poland","institution_ids":["https://openalex.org/I108403487","https://openalex.org/I4210087266"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5035109393","display_name":"Krzysztof Walczak","orcid":"https://orcid.org/0000-0001-8170-7910"},"institutions":[{"id":"https://openalex.org/I108403487","display_name":"Warsaw University of Technology","ror":"https://ror.org/00y0xnp53","country_code":"PL","type":"education","lineage":["https://openalex.org/I108403487"]},{"id":"https://openalex.org/I4210087266","display_name":"Institute of Computer Science","ror":"https://ror.org/003fvp964","country_code":"PL","type":"facility","lineage":["https://openalex.org/I4210087266","https://openalex.org/I99542240"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Krzysztof Walczak","raw_affiliation_strings":["Institute of Computer Science, Warsaw University of Technology, Nowowiejska 15/19, 00-665 Warsaw, Poland","Institute of Computer Science, Warsaw University of Technology, Nowowiejska 15/19, 00-665, Warsaw, Poland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Computer Science, Warsaw University of Technology, Nowowiejska 15/19, 00-665 Warsaw, Poland","institution_ids":["https://openalex.org/I108403487","https://openalex.org/I4210087266"]},{"raw_affiliation_string":"Institute of Computer Science, Warsaw University of Technology, Nowowiejska 15/19, 00-665, Warsaw, Poland","institution_ids":["https://openalex.org/I108403487","https://openalex.org/I4210087266"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.3992,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":{"value":0.63618537,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"12","issue":"1","first_page":"204","last_page":"204"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.595300018787384,"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":0.595300018787384,"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/T12090","display_name":"Language and cultural evolution","score":0.14390000700950623,"subfield":{"id":"https://openalex.org/subfields/3316","display_name":"Cultural Studies"},"field":{"id":"https://openalex.org/fields/33","display_name":"Social Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T11269","display_name":"Algorithms and Data Compression","score":0.03440000116825104,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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/tree","display_name":"Tree (set theory)","score":0.617872953414917},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4061945080757141},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.34305304288864136},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.2964455783367157},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.2221047282218933}],"concepts":[{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.617872953414917},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4061945080757141},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.34305304288864136},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2964455783367157},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.2221047282218933}],"mesh":[{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","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":"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}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-12-204","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-204","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-204","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:21612645","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21612645","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:9e53fc313dfb4865a13399f73d7eea19","is_oa":false,"landing_page_url":"https://doaj.org/article/9e53fc313dfb4865a13399f73d7eea19","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 12, Iss 1, p 204 (2011)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3117735","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3117735","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-12-204","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-204","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-204","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.6499999761581421,"id":"https://metadata.un.org/sdg/10","display_name":"Reduced inequalities"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2156234759.pdf","grobid_xml":"https://content.openalex.org/works/W2156234759.grobid-xml"},"referenced_works_count":15,"referenced_works":["https://openalex.org/W1516842100","https://openalex.org/W1556610888","https://openalex.org/W1568293351","https://openalex.org/W1589227310","https://openalex.org/W1605903931","https://openalex.org/W1820104002","https://openalex.org/W1884098403","https://openalex.org/W1991701064","https://openalex.org/W1993543432","https://openalex.org/W1998459277","https://openalex.org/W2060425093","https://openalex.org/W2065722925","https://openalex.org/W2116509046","https://openalex.org/W2142807163","https://openalex.org/W2716077754"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2082860237","https://openalex.org/W2119695867","https://openalex.org/W2130076355","https://openalex.org/W1990804418","https://openalex.org/W1993764875","https://openalex.org/W2046158694","https://openalex.org/W2788277189","https://openalex.org/W2013243191","https://openalex.org/W2117258802"],"abstract_inverted_index":{"BACKGROUND:":[0],"This":[1,36],"paper":[2],"is":[3,17,22,39,105,183,200,210,223],"devoted":[4],"to":[5,69,100,123,143,202,228],"distance":[6,80,89,140,197],"measures":[7,131],"for":[8,43,56,91,155,213],"leaf-labelled":[9,15],"trees":[10,94],"on":[11,95,166,219],"free":[12,96],"leafset.":[13],"A":[14],"tree":[16,28,75,87,109,112,138],"a":[18,23,27,102,145,187,194,203],"data":[19,37],"structure":[20,38],"which":[21,98,199],"special":[24],"type":[25],"of":[26,45,48,58,74,118,151,169,173,190,231,236],"where":[29],"only":[30],"leaves":[31],"(terminal)":[32],"nodes":[33],"are":[34],"labelled.":[35],"used":[40],"in":[41,54,206],"bioinformatics":[42],"modelling":[44,57],"evolution":[46,60],"history":[47],"genes":[49],"and":[50,52,67,126,147,157,192,209,215],"species":[51],"also":[53],"linguistics":[55],"languages":[59],"history.":[61],"Many":[62],"domain":[63],"specific":[64],"problems":[65],"occur":[66],"need":[68],"be":[70,101,144,163],"solved":[71],"with":[72,108,121],"help":[73],"postprocessing":[76],"techniques":[77],"such":[78],"as":[79,132],"measures.":[81,135],"RESULTS:":[82],"Here":[83],"we":[84],"introduce":[85],"the":[86,133,149,167,170,174,178,220,229],"edit":[88,110,139],"designed":[90],"leaf":[92],"labelled":[93],"leafset,":[97],"occurs":[99],"metric.":[103],"It":[104],"presented":[106,175],"together":[107],"consensus":[111],"notion.":[113],"We":[114],"provide":[115],"statistical":[116],"evaluation":[117],"provided":[119],"measure":[120],"respect":[122],"R-F,":[124],"MAST":[125],"frequent":[127],"subsplit":[128],"based":[129],"dissimilarity":[130],"reference":[134],"CONCLUSIONS:":[136],"The":[137],"was":[141],"proven":[142],"metric":[146],"has":[148,193],"advantage":[150],"using":[152],"different":[153],"costs":[154],"contraction":[156],"pruning,":[158],"therefore":[159],"their":[160,237],"properties":[161],"can":[162],"tuned":[164],"depending":[165],"needs":[168],"user.":[171],"Two":[172],"methods":[176],"carry":[177],"most":[179],"interesting":[180],"properties.":[181],"E(3,1)":[182],"very":[184,195],"discriminative":[185],"(having":[186],"wide":[188],"range":[189],"values)":[191],"regular":[196],"distribution":[198,205],"similar":[201,214],"normal":[204],"its":[207],"shape":[208],"good":[211],"both":[212],"non-similar":[216],"trees.":[217],"NFC(2,1)":[218],"other":[221],"hand":[222],"proportional":[224,227],"or":[225],"nearly":[226],"number":[230],"mutation":[232],"operations":[233],"used,":[234],"irrespective":[235],"type.":[238]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}