{"id":"https://openalex.org/W3172516756","doi":"https://doi.org/10.1186/s13015-021-00188-3","title":"The Bourque distances for mutation trees of cancers","display_name":"The Bourque distances for mutation trees of cancers","publication_year":2021,"publication_date":"2021-06-10","ids":{"openalex":"https://openalex.org/W3172516756","doi":"https://doi.org/10.1186/s13015-021-00188-3","mag":"3172516756","pmid":"https://pubmed.ncbi.nlm.nih.gov/34112201"},"language":"en","primary_location":{"id":"doi:10.1186/s13015-021-00188-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13015-021-00188-3","pdf_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/s13015-021-00188-3","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Algorithms for Molecular Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/s13015-021-00188-3","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5102807386","display_name":"Katharina Jahn","orcid":"https://orcid.org/0000-0002-6983-4615"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Katharina Jahn","raw_affiliation_strings":["Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland","SIB Swiss Institute of Bioinformatics, Basel, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, Basel, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035497488","display_name":"Niko Beerenwinkel","orcid":"https://orcid.org/0000-0002-0573-6119"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Niko Beerenwinkel","raw_affiliation_strings":["Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland","SIB Swiss Institute of Bioinformatics, Basel, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, Basel, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5012300835","display_name":"Louxin Zhang","orcid":"https://orcid.org/0000-0003-0260-824X"},"institutions":[{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]}],"countries":["SG"],"is_corresponding":true,"raw_author_name":"Louxin Zhang","raw_affiliation_strings":["Department of Mathematics and Computational Biology Programme, National University of Singapore, 119076, Singapore, Singapore. matzlx@nus.edu.sg","Department of Mathematics and Computational Biology Programme, National University of Singapore, 119076, Singapore, Singapore"],"raw_orcid":"https://orcid.org/0000-0003-0260-824X","affiliations":[{"raw_affiliation_string":"Department of Mathematics and Computational Biology Programme, National University of Singapore, 119076, Singapore, Singapore. matzlx@nus.edu.sg","institution_ids":["https://openalex.org/I165932596"]},{"raw_affiliation_string":"Department of Mathematics and Computational Biology Programme, National University of Singapore, 119076, Singapore, Singapore","institution_ids":["https://openalex.org/I165932596"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5012300835"],"corresponding_institution_ids":["https://openalex.org/I165932596"],"apc_list":{"value":1490,"currency":"GBP","value_usd":1827},"apc_paid":{"value":1490,"currency":"GBP","value_usd":1827},"fwci":0.7955,"has_fulltext":true,"cited_by_count":14,"citation_normalized_percentile":{"value":0.6603796,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"16","issue":"1","first_page":"9","last_page":"9"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.8676000237464905,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.8676000237464905,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T11369","display_name":"Genetic factors in colorectal cancer","score":0.03269999846816063,"subfield":{"id":"https://openalex.org/subfields/2734","display_name":"Pathology and Forensic Medicine"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10417","display_name":"Lung Cancer Treatments and Mutations","score":0.009999999776482582,"subfield":{"id":"https://openalex.org/subfields/2740","display_name":"Pulmonary and Respiratory Medicine"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/mutation","display_name":"Mutation","score":0.8164982795715332},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.6363023519515991},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.620633065700531},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5122572779655457},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.32556140422821045},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.31651201844215393},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.15796160697937012},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.11967974901199341},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.05688372254371643}],"concepts":[{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.8164982795715332},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.6363023519515991},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.620633065700531},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5122572779655457},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.32556140422821045},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.31651201844215393},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.15796160697937012},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.11967974901199341},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.05688372254371643},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1186/s13015-021-00188-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13015-021-00188-3","pdf_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/s13015-021-00188-3","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Algorithms for Molecular Biology","raw_type":"journal-article"},{"id":"pmid:34112201","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34112201","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":"Algorithms for molecular biology : AMB","raw_type":null},{"id":"pmh:oai:scholarbank.nus.edu.sg:10635/228981","is_oa":false,"landing_page_url":"https://scholarbank.nus.edu.sg/handle/10635/228981","pdf_url":null,"source":{"id":"https://openalex.org/S7407052290","display_name":"National University of Singapore","issn_l":null,"issn":[],"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":"Elements","raw_type":"Article"},{"id":"pmh:oai:doaj.org/article:dbe97334257e472196386618e37e7717","is_oa":true,"landing_page_url":"https://doaj.org/article/dbe97334257e472196386618e37e7717","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Algorithms for Molecular Biology, Vol 16, Iss 1, Pp 1-15 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8193869","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8193869","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":"Algorithms Mol Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s13015-021-00188-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13015-021-00188-3","pdf_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/s13015-021-00188-3","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Algorithms for Molecular Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320751","display_name":"Ministry of Education - Singapore","ror":"https://ror.org/01kcva023"},{"id":"https://openalex.org/F4320322724","display_name":"Ministry of Education, India","ror":"https://ror.org/048xjjh50"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3172516756.pdf","grobid_xml":"https://content.openalex.org/works/W3172516756.grobid-xml"},"referenced_works_count":47,"referenced_works":["https://openalex.org/W1559144499","https://openalex.org/W1967304777","https://openalex.org/W1970757586","https://openalex.org/W1976373002","https://openalex.org/W1977647947","https://openalex.org/W1996437477","https://openalex.org/W1998459277","https://openalex.org/W1999727705","https://openalex.org/W2002295829","https://openalex.org/W2004232113","https://openalex.org/W2018414460","https://openalex.org/W2049515965","https://openalex.org/W2060425093","https://openalex.org/W2065722925","https://openalex.org/W2075958727","https://openalex.org/W2088528526","https://openalex.org/W2108531996","https://openalex.org/W2111874706","https://openalex.org/W2114095872","https://openalex.org/W2122392334","https://openalex.org/W2135281627","https://openalex.org/W2143306786","https://openalex.org/W2145608399","https://openalex.org/W2151009141","https://openalex.org/W2154598603","https://openalex.org/W2233603983","https://openalex.org/W2346273585","https://openalex.org/W2472378828","https://openalex.org/W2760713421","https://openalex.org/W2762185802","https://openalex.org/W2793271470","https://openalex.org/W2795499463","https://openalex.org/W2888398943","https://openalex.org/W2890035501","https://openalex.org/W2949688529","https://openalex.org/W2965510019","https://openalex.org/W2980515223","https://openalex.org/W2980586637","https://openalex.org/W2991385399","https://openalex.org/W3006461061","https://openalex.org/W3046327629","https://openalex.org/W3075371075","https://openalex.org/W3102697518","https://openalex.org/W3104455460","https://openalex.org/W4210882815","https://openalex.org/W4233815609","https://openalex.org/W4247715064"],"related_works":["https://openalex.org/W1979597421","https://openalex.org/W2007980826","https://openalex.org/W4245490552","https://openalex.org/W4225152035","https://openalex.org/W2061531152","https://openalex.org/W3002753104","https://openalex.org/W2077600819","https://openalex.org/W1587224694","https://openalex.org/W2911598644","https://openalex.org/W2042127053"],"abstract_inverted_index":{"BACKGROUND:":[0],"Mutation":[1],"trees":[2,5,63,109],"are":[3,9,27,48],"rooted":[4],"in":[6,29,113],"which":[7],"nodes":[8],"of":[10,37,49,55,76,88,103],"arbitrary":[11],"degree":[12],"and":[13,125],"labeled":[14],"with":[15,65],"a":[16,86,119],"mutation":[17,56,62,77,96,108],"set.":[18],"These":[19],"trees,":[20,26],"also":[21,117],"referred":[22],"to":[23,32],"as":[24,43],"clonal":[25],"used":[28],"computational":[30],"oncology":[31],"represent":[33],"the":[34,44,53,82,100,104,122,126],"mutational":[35],"history":[36],"tumours.":[38],"Classical":[39],"tree":[40],"metrics":[41,90],"such":[42],"popular":[45],"Robinson-Foulds":[46,83,123],"distance":[47,84,89,106,124],"limited":[50],"use":[51],"for":[52,69,94,107],"comparison":[54],"trees.":[57,97],"One":[58],"reason":[59],"is":[60],"that":[61],"inferred":[64],"different":[66,70,74],"methods":[67],"or":[68],"patients":[71],"often":[72],"contain":[73],"sets":[75],"labels.":[78],"RESULTS:":[79],"We":[80,98,116],"generalize":[81],"into":[85],"set":[87],"called":[91],"Bourque":[92,105],"distances":[93],"comparing":[95],"show":[99],"basic":[101],"version":[102],"can":[110],"be":[111],"computed":[112],"linear":[114],"time.":[115],"make":[118],"connection":[120],"between":[121],"nearest":[127],"neighbor":[128],"interchange":[129],"distance.":[130]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":4},{"year":2021,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}