{"id":"https://openalex.org/W2220230673","doi":"https://doi.org/10.1109/bibm.2015.7359665","title":"Accurate simulation of large collections of phylogenetic trees","display_name":"Accurate simulation of large collections of phylogenetic trees","publication_year":2015,"publication_date":"2015-11-01","ids":{"openalex":"https://openalex.org/W2220230673","doi":"https://doi.org/10.1109/bibm.2015.7359665","mag":"2220230673"},"language":"en","primary_location":{"id":"doi:10.1109/bibm.2015.7359665","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2015.7359665","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2015 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"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/A5083319931","display_name":"Suzanne J. Matthews","orcid":"https://orcid.org/0000-0001-9170-2240"},"institutions":[{"id":"https://openalex.org/I192545095","display_name":"United States Military Academy","ror":"https://ror.org/01jepya76","country_code":"US","type":"education","lineage":["https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I192545095","https://openalex.org/I4210088792"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Suzanne J. Matthews","raw_affiliation_strings":["Department of Electrical Engineering & Computer Science, United States Military Academy, West Point, NY"],"affiliations":[{"raw_affiliation_string":"Department of Electrical Engineering & Computer Science, United States Military Academy, West Point, NY","institution_ids":["https://openalex.org/I192545095"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5083319931"],"corresponding_institution_ids":["https://openalex.org/I192545095"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.07493739,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"42","issue":null,"first_page":"113","last_page":"118"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9994000196456909,"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":0.9994000196456909,"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/T11354","display_name":"Evolution and Paleontology Studies","score":0.9973999857902527,"subfield":{"id":"https://openalex.org/subfields/1911","display_name":"Paleontology"},"field":{"id":"https://openalex.org/fields/19","display_name":"Earth and Planetary Sciences"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10895","display_name":"Species Distribution and Climate Change","score":0.9952999949455261,"subfield":{"id":"https://openalex.org/subfields/2302","display_name":"Ecological Modeling"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.918474555015564},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.6548304557800293},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5864360928535461},{"id":"https://openalex.org/keywords/tree-rearrangement","display_name":"Tree rearrangement","score":0.5835860371589661},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.5767391920089722},{"id":"https://openalex.org/keywords/network-topology","display_name":"Network topology","score":0.510627806186676},{"id":"https://openalex.org/keywords/phylogenetic-diversity","display_name":"Phylogenetic diversity","score":0.47840604186058044},{"id":"https://openalex.org/keywords/phylogenetics","display_name":"Phylogenetics","score":0.4204276204109192},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3773569166660309},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3480015695095062},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2842906713485718},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2686254382133484},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.19907554984092712},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.11321359872817993}],"concepts":[{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.918474555015564},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.6548304557800293},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5864360928535461},{"id":"https://openalex.org/C53208351","wikidata":"https://www.wikidata.org/wiki/Q7837630","display_name":"Tree rearrangement","level":4,"score":0.5835860371589661},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.5767391920089722},{"id":"https://openalex.org/C199845137","wikidata":"https://www.wikidata.org/wiki/Q145490","display_name":"Network topology","level":2,"score":0.510627806186676},{"id":"https://openalex.org/C98722961","wikidata":"https://www.wikidata.org/wiki/Q7189436","display_name":"Phylogenetic diversity","level":4,"score":0.47840604186058044},{"id":"https://openalex.org/C90132467","wikidata":"https://www.wikidata.org/wiki/Q171184","display_name":"Phylogenetics","level":3,"score":0.4204276204109192},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3773569166660309},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3480015695095062},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2842906713485718},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2686254382133484},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.19907554984092712},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.11321359872817993},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm.2015.7359665","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2015.7359665","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2015 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.41999998688697815,"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320337632","display_name":"U.S. Military Academy","ror":"https://ror.org/01jepya76"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":18,"referenced_works":["https://openalex.org/W1497124707","https://openalex.org/W1579826440","https://openalex.org/W1867732144","https://openalex.org/W1985494341","https://openalex.org/W1993371508","https://openalex.org/W2004267169","https://openalex.org/W2024448728","https://openalex.org/W2035530770","https://openalex.org/W2060425093","https://openalex.org/W2065939324","https://openalex.org/W2068678518","https://openalex.org/W2081488649","https://openalex.org/W2112620675","https://openalex.org/W2134936641","https://openalex.org/W2146058063","https://openalex.org/W2178098710","https://openalex.org/W2520996918","https://openalex.org/W6639077426"],"related_works":["https://openalex.org/W2086397253","https://openalex.org/W2133122801","https://openalex.org/W600422426","https://openalex.org/W2007156430","https://openalex.org/W2949296710","https://openalex.org/W2883025420","https://openalex.org/W1518752166","https://openalex.org/W2599228222","https://openalex.org/W2057556491","https://openalex.org/W2604174992"],"abstract_inverted_index":{"Phylogenetic":[0],"analyses":[1],"are":[2,55],"growing":[3],"at":[4],"a":[5,60,72,125],"rapid":[6],"rate,":[7],"producing":[8],"increasingly":[9],"large":[10,77],"collections":[11,50,79,106],"of":[12,35,63,133,140],"trees.":[13,83],"Scientists":[14],"rarely":[15,56],"share":[16],"their":[17],"tree":[18,49,78],"collections,":[19],"making":[20],"it":[21],"difficult":[22],"for":[23,40],"researchers":[24],"to":[25,32],"develop":[26],"methods":[27,39],"that":[28,75,97,121,136],"anticipate":[29],"and":[30,58],"respond":[31],"this":[33,67],"growth":[34,139],"data.":[36,142],"While":[37],"common":[38],"simulating":[41,98],"phylogenetic":[42,53,117,141],"trees":[43,99,114],"focus":[44],"on":[45,101],"random":[46,57],"topologies,":[47],"the":[48,90,102,113,130,138],"returned":[51,115],"from":[52,80,116],"search":[54],"contain":[59],"high":[61],"degree":[62],"topological":[64,108],"similarity.":[65],"In":[66],"paper,":[68],"we":[69],"introduce":[70],"TreeSim,":[71],"software":[73],"package":[74],"simulates":[76],"published":[81],"consensus":[82,104],"TreeSim":[84,122],"implements":[85],"our":[86],"new":[87,134],"simulation":[88],"algorithm,":[89],"combined":[91,103],"consensus.":[92],"Our":[93],"experimental":[94],"results":[95],"indicate":[96],"based":[100],"produces":[105],"whose":[107],"diversity":[109],"most":[110],"closely":[111],"resemble":[112],"search.":[118],"We":[119],"expect":[120],"will":[123],"play":[124],"critical":[126],"role":[127],"in":[128],"guiding":[129],"algorithmic":[131],"development":[132],"approaches":[135],"support":[137]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}