{"id":"https://openalex.org/W2086709189","doi":"https://doi.org/10.1186/1471-2105-14-109","title":"TPMS: a set of utilities for querying collections of gene trees","display_name":"TPMS: a set of utilities for querying collections of gene trees","publication_year":2013,"publication_date":"2013-03-27","ids":{"openalex":"https://openalex.org/W2086709189","doi":"https://doi.org/10.1186/1471-2105-14-109","mag":"2086709189","pmid":"https://pubmed.ncbi.nlm.nih.gov/23530580"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-14-109","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-109","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-109","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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/10.1186/1471-2105-14-109","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5031871746","display_name":"Thomas Bigot","orcid":"https://orcid.org/0000-0001-8504-4675"},"institutions":[{"id":"https://openalex.org/I4210135640","display_name":"Laboratoire de Biom\u00e9trie et Biologie Evolutive","ror":"https://ror.org/03skt0t88","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I203339264","https://openalex.org/I4210100596","https://openalex.org/I4210107625","https://openalex.org/I4210135640"]},{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Thomas Bigot","raw_affiliation_strings":["Laboratoire de Biom\u00e9trie et Biologie \u00c9volutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard - Lyon 1, 43 bd, du 11 Novembre 1918, 69622 Villeurbanne Cedex, France","Laboratoire de Biom\u00e9trie et Biologie Evolutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard Lyon 1, Villeurbanne Cedex, France"],"affiliations":[{"raw_affiliation_string":"Laboratoire de Biom\u00e9trie et Biologie \u00c9volutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard - Lyon 1, 43 bd, du 11 Novembre 1918, 69622 Villeurbanne Cedex, France","institution_ids":[]},{"raw_affiliation_string":"Laboratoire de Biom\u00e9trie et Biologie Evolutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard Lyon 1, Villeurbanne Cedex, France","institution_ids":["https://openalex.org/I4210135640","https://openalex.org/I100532134","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011691995","display_name":"Vincent Daubin","orcid":"https://orcid.org/0000-0001-8269-9430"},"institutions":[{"id":"https://openalex.org/I4210135640","display_name":"Laboratoire de Biom\u00e9trie et Biologie Evolutive","ror":"https://ror.org/03skt0t88","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I203339264","https://openalex.org/I4210100596","https://openalex.org/I4210107625","https://openalex.org/I4210135640"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Vincent Daubin","raw_affiliation_strings":["Laboratoire de Biom\u00e9trie et Biologie \u00c9volutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard - Lyon 1, 43 bd. du 11 Novembre 1918, 69622, Villeurbanne Cedex, France","Laboratoire de Biom\u00e9trie et Biologie Evolutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard Lyon 1, Villeurbanne Cedex, France"],"affiliations":[{"raw_affiliation_string":"Laboratoire de Biom\u00e9trie et Biologie \u00c9volutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard - Lyon 1, 43 bd. du 11 Novembre 1918, 69622, Villeurbanne Cedex, France","institution_ids":["https://openalex.org/I4210135640","https://openalex.org/I100532134","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Laboratoire de Biom\u00e9trie et Biologie Evolutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard Lyon 1, Villeurbanne Cedex, France","institution_ids":["https://openalex.org/I4210135640","https://openalex.org/I100532134","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044962997","display_name":"Florent Lassalle","orcid":"https://orcid.org/0000-0001-8957-2520"},"institutions":[{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210135640","display_name":"Laboratoire de Biom\u00e9trie et Biologie Evolutive","ror":"https://ror.org/03skt0t88","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I203339264","https://openalex.org/I4210100596","https://openalex.org/I4210107625","https://openalex.org/I4210135640"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Florent Lassalle","raw_affiliation_strings":["Laboratoire de Biom\u00e9trie et Biologie \u00c9volutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard - Lyon 1, 43 bd. du 11 Novembre 1918, 69622, Villeurbanne Cedex, France","Laboratoire de Biom\u00e9trie et Biologie Evolutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard Lyon 1, Villeurbanne Cedex, France"],"affiliations":[{"raw_affiliation_string":"Laboratoire de Biom\u00e9trie et Biologie \u00c9volutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard - Lyon 1, 43 bd. du 11 Novembre 1918, 69622, Villeurbanne Cedex, France","institution_ids":["https://openalex.org/I4210135640","https://openalex.org/I100532134","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Laboratoire de Biom\u00e9trie et Biologie Evolutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard Lyon 1, Villeurbanne Cedex, France","institution_ids":["https://openalex.org/I4210135640","https://openalex.org/I100532134","https://openalex.org/I1294671590"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5013133004","display_name":"Guy Perri\u00e8re","orcid":"https://orcid.org/0000-0002-6850-6265"},"institutions":[{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210135640","display_name":"Laboratoire de Biom\u00e9trie et Biologie Evolutive","ror":"https://ror.org/03skt0t88","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I203339264","https://openalex.org/I4210100596","https://openalex.org/I4210107625","https://openalex.org/I4210135640"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Guy Perri\u00e8re","raw_affiliation_strings":["Laboratoire de Biom\u00e9trie et Biologie \u00c9volutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard - Lyon 1, 43 bd. du 11 Novembre 1918, 69622, Villeurbanne Cedex, France","Laboratoire de Biom\u00e9trie et Biologie Evolutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard Lyon 1, Villeurbanne Cedex, France"],"affiliations":[{"raw_affiliation_string":"Laboratoire de Biom\u00e9trie et Biologie \u00c9volutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard - Lyon 1, 43 bd. du 11 Novembre 1918, 69622, Villeurbanne Cedex, France","institution_ids":["https://openalex.org/I4210135640","https://openalex.org/I100532134","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Laboratoire de Biom\u00e9trie et Biologie Evolutive, UMR CNRS 5558, Universit\u00e9 Claude Bernard Lyon 1, Villeurbanne Cedex, France","institution_ids":["https://openalex.org/I4210135640","https://openalex.org/I100532134","https://openalex.org/I1294671590"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5031871746"],"corresponding_institution_ids":["https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I4210135640"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.7486,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.72022493,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"14","issue":"1","first_page":"109","last_page":"109"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11879","display_name":"Protist diversity and phylogeny","score":0.9990000128746033,"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/T11879","display_name":"Protist diversity and phylogeny","score":0.9990000128746033,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9984999895095825,"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":0.9939000010490417,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.7581689357757568},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7191638946533203},{"id":"https://openalex.org/keywords/suite","display_name":"Suite","score":0.7089425921440125},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.6355253458023071},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.614326000213623},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.5803966522216797},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5574566721916199},{"id":"https://openalex.org/keywords/matching","display_name":"Matching (statistics)","score":0.46477487683296204},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.43400537967681885},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2284853458404541},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.12165477871894836},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.09738177061080933},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.09729987382888794}],"concepts":[{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.7581689357757568},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7191638946533203},{"id":"https://openalex.org/C79581498","wikidata":"https://www.wikidata.org/wiki/Q1367530","display_name":"Suite","level":2,"score":0.7089425921440125},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.6355253458023071},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.614326000213623},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.5803966522216797},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5574566721916199},{"id":"https://openalex.org/C165064840","wikidata":"https://www.wikidata.org/wiki/Q1321061","display_name":"Matching (statistics)","level":2,"score":0.46477487683296204},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.43400537967681885},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2284853458404541},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.12165477871894836},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.09738177061080933},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.09729987382888794},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C95457728","wikidata":"https://www.wikidata.org/wiki/Q309","display_name":"History","level":0,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0},{"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/C166957645","wikidata":"https://www.wikidata.org/wiki/Q23498","display_name":"Archaeology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008322","descriptor_name":"Mammals","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D008322","descriptor_name":"Mammals","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D008322","descriptor_name":"Mammals","qualifier_ui":"Q000145","qualifier_name":"classification","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}],"locations_count":6,"locations":[{"id":"doi:10.1186/1471-2105-14-109","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-109","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-109","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:23530580","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23530580","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:HAL:hal-00972257v1","is_oa":false,"landing_page_url":"https://hal.science/hal-00972257","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, 2013, 14, pp.109. &#x27E8;10.1186/1471-2105-14-109&#x27E9;","raw_type":"Journal articles"},{"id":"pmh:oai:eprints.ucl.ac.uk.OAI2:1467064","is_oa":false,"landing_page_url":"http://discovery.ucl.ac.uk/1467064/","pdf_url":null,"source":{"id":"https://openalex.org/S4306400024","display_name":"UCL Discovery (University College London)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I45129253","host_organization_name":"University College London","host_organization_lineage":["https://openalex.org/I45129253"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"   BMC BIOINFORMATICS , 14  (ARTN 109)     (2013)      ","raw_type":"Article"},{"id":"pmh:oai:europepmc.org:2653817","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3655882","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"},{"id":"pmh:oai:spiral.imperial.ac.uk:10044/1/49638","is_oa":true,"landing_page_url":"http://hdl.handle.net/10044/1/49638","pdf_url":null,"source":{"id":"https://openalex.org/S4306401396","display_name":"Spiral (Imperial College London)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I47508984","host_organization_name":"Imperial College London","host_organization_lineage":["https://openalex.org/I47508984"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal Article"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-14-109","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-109","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-109","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","score":0.46000000834465027,"display_name":"Life in Land"}],"awards":[{"id":"https://openalex.org/G4455010248","display_name":null,"funder_award_id":"ANR-10-BINF-01-01","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G6438278358","display_name":null,"funder_award_id":"ANR-08-GENM-02","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G7240651115","display_name":null,"funder_award_id":"ANR-10","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2086709189.pdf","grobid_xml":"https://content.openalex.org/works/W2086709189.grobid-xml"},"referenced_works_count":27,"referenced_works":["https://openalex.org/W1577837202","https://openalex.org/W2009234149","https://openalex.org/W2009318452","https://openalex.org/W2013067928","https://openalex.org/W2023723397","https://openalex.org/W2031708534","https://openalex.org/W2052315005","https://openalex.org/W2052743506","https://openalex.org/W2059676405","https://openalex.org/W2062354928","https://openalex.org/W2068050318","https://openalex.org/W2070166332","https://openalex.org/W2096977241","https://openalex.org/W2120854648","https://openalex.org/W2120864016","https://openalex.org/W2121317739","https://openalex.org/W2134057866","https://openalex.org/W2134535493","https://openalex.org/W2137464835","https://openalex.org/W2137604740","https://openalex.org/W2148013742","https://openalex.org/W2150993465","https://openalex.org/W2152453825","https://openalex.org/W2158878884","https://openalex.org/W2159500193","https://openalex.org/W2161752959","https://openalex.org/W2162552502"],"related_works":["https://openalex.org/W4231704780","https://openalex.org/W2083794993","https://openalex.org/W352609212","https://openalex.org/W1511772879","https://openalex.org/W4200340037","https://openalex.org/W4379115841","https://openalex.org/W2362218761","https://openalex.org/W2062354928","https://openalex.org/W2113708670","https://openalex.org/W2088120817"],"abstract_inverted_index":{"TPMS":[0],"is":[1,33],"a":[2,36],"powerful":[3],"suite":[4],"allowing":[5],"to":[6,19],"quickly":[7],"retrieve":[8],"sets":[9],"of":[10,35,38],"trees":[11,21],"matching":[12],"complex":[13],"patterns":[14],"in":[15,46],"large":[16],"collection":[17],"or":[18],"root":[20],"using":[22],"more":[23],"rigorous":[24],"approaches":[25],"than":[26],"the":[27],"classical":[28],"midpoint":[29],"method.":[30],"As":[31],"it":[32,41],"made":[34],"set":[37],"command-line":[39],"programs,":[40],"can":[42],"be":[43],"easily":[44],"integrated":[45],"any":[47],"sequence":[48],"analysis":[49],"pipeline":[50],"for":[51],"an":[52],"automated":[53],"use.":[54]},"counts_by_year":[{"year":2019,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
