{"id":"https://openalex.org/W4412150462","doi":"https://doi.org/10.1186/s12859-025-06203-3","title":"PhyloScape: interactive and scalable visualization platform for phylogenetic trees","display_name":"PhyloScape: interactive and scalable visualization platform for phylogenetic trees","publication_year":2025,"publication_date":"2025-07-10","ids":{"openalex":"https://openalex.org/W4412150462","doi":"https://doi.org/10.1186/s12859-025-06203-3","pmid":"https://pubmed.ncbi.nlm.nih.gov/40640711"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-025-06203-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-025-06203-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-025-06203-3","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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","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/s12859-025-06203-3","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100394315","display_name":"Jiajia Wang","orcid":"https://orcid.org/0000-0002-4878-3513"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210108629","display_name":"Computer Network Information Center","ror":"https://ror.org/01s0wyf50","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiajia Wang","raw_affiliation_strings":["Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000198702","display_name":"Bo Zhang","orcid":"https://orcid.org/0000-0001-5407-7781"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210108629","display_name":"Computer Network Information Center","ror":"https://ror.org/01s0wyf50","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Bo Zhang","raw_affiliation_strings":["Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China","University of Chinese Academy of Sciences, Beijing, 100049, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]},{"raw_affiliation_string":"University of Chinese Academy of Sciences, Beijing, 100049, China","institution_ids":["https://openalex.org/I4210165038"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101927720","display_name":"Li Ping Zheng","orcid":"https://orcid.org/0000-0001-5146-2756"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210108629","display_name":"Computer Network Information Center","ror":"https://ror.org/01s0wyf50","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Linglu Zheng","raw_affiliation_strings":["Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100378075","display_name":"Yan Chen","orcid":"https://orcid.org/0000-0002-3227-4562"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210108629","display_name":"Computer Network Information Center","ror":"https://ror.org/01s0wyf50","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yan Chen","raw_affiliation_strings":["Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100602553","display_name":"Chun\u2010yang Zhang","orcid":"https://orcid.org/0000-0002-8010-1981"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210108629","display_name":"Computer Network Information Center","ror":"https://ror.org/01s0wyf50","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chunyang Zhang","raw_affiliation_strings":["Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046688413","display_name":"Guojiao Lin","orcid":null},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210108629","display_name":"Computer Network Information Center","ror":"https://ror.org/01s0wyf50","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Guojiao Lin","raw_affiliation_strings":["Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China","University of Chinese Academy of Sciences, Beijing, 100049, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]},{"raw_affiliation_string":"University of Chinese Academy of Sciences, Beijing, 100049, China","institution_ids":["https://openalex.org/I4210165038"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009519419","display_name":"Zhen Meng","orcid":"https://orcid.org/0000-0001-5756-9159"},"institutions":[{"id":"https://openalex.org/I4210108629","display_name":"Computer Network Information Center","ror":"https://ror.org/01s0wyf50","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhen Meng","raw_affiliation_strings":["Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China. zhenm99@cnic.cn","University of Chinese Academy of Sciences, Beijing, 100049, China. zhenm99@cnic.cn"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China. zhenm99@cnic.cn","institution_ids":["https://openalex.org/I4210108629"]},{"raw_affiliation_string":"University of Chinese Academy of Sciences, Beijing, 100049, China. zhenm99@cnic.cn","institution_ids":["https://openalex.org/I4210165038"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040824554","display_name":"Xuezhi Wang","orcid":"https://orcid.org/0000-0001-5222-248X"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210108629","display_name":"Computer Network Information Center","ror":"https://ror.org/01s0wyf50","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xuezhi Wang","raw_affiliation_strings":["Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China","Hangzhou Institute for Advanced Study, UCAS, Hangzhou, 310024, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]},{"raw_affiliation_string":"Hangzhou Institute for Advanced Study, UCAS, Hangzhou, 310024, China","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5065865669","display_name":"Yuanchun Zhou","orcid":"https://orcid.org/0000-0003-2144-1131"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210108629","display_name":"Computer Network Information Center","ror":"https://ror.org/01s0wyf50","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuanchun Zhou","raw_affiliation_strings":["Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China","University of Chinese Academy of Sciences, Beijing, 100049, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computer Network Information Center, Chinese Academy of Sciences, Beijing, 100083, China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210108629"]},{"raw_affiliation_string":"University of Chinese Academy of Sciences, Beijing, 100049, China","institution_ids":["https://openalex.org/I4210165038"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.10008323,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"26","issue":"1","first_page":"172","last_page":"172"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.7580000162124634,"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":0.7580000162124634,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.09220000356435776,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.027799999341368675,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.7040184736251831},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.6764681339263916},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.5977961421012878},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5955759286880493},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.47306668758392334},{"id":"https://openalex.org/keywords/interactive-visualization","display_name":"Interactive visualization","score":0.4467169940471649},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.4184281527996063},{"id":"https://openalex.org/keywords/data-visualization","display_name":"Data visualization","score":0.418364554643631},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3839988112449646},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.36680281162261963},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.34769588708877563},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.25377827882766724},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.15236631035804749},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.12584826350212097},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.07571223378181458}],"concepts":[{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.7040184736251831},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.6764681339263916},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.5977961421012878},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5955759286880493},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.47306668758392334},{"id":"https://openalex.org/C64073096","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Interactive visualization","level":3,"score":0.4467169940471649},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.4184281527996063},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.418364554643631},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3839988112449646},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.36680281162261963},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.34769588708877563},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.25377827882766724},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.15236631035804749},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12584826350212097},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.07571223378181458},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-025-06203-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-025-06203-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-025-06203-3","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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40640711","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40640711","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:434afa2b54ee4a65908aeadf304a26b1","is_oa":true,"landing_page_url":"https://doaj.org/article/434afa2b54ee4a65908aeadf304a26b1","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":"BMC Bioinformatics, Vol 26, Iss 1, Pp 1-12 (2025)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:12243251","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12243251","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-025-06203-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-025-06203-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-025-06203-3","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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3960064106","display_name":null,"funder_award_id":"XDB31030000","funder_id":"https://openalex.org/F4320321133","funder_display_name":"Chinese Academy of Sciences"},{"id":"https://openalex.org/G4228744067","display_name":null,"funder_award_id":"XDB38030300","funder_id":"https://openalex.org/F4320321133","funder_display_name":"Chinese Academy of Sciences"}],"funders":[{"id":"https://openalex.org/F4320321131","display_name":"China Agricultural University","ror":"https://ror.org/04v3ywz14"},{"id":"https://openalex.org/F4320321133","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35"},{"id":"https://openalex.org/F4320335786","display_name":"Institute of Botany, Chinese Academy of Sciences","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4412150462.pdf","grobid_xml":"https://content.openalex.org/works/W4412150462.grobid-xml"},"referenced_works_count":33,"referenced_works":["https://openalex.org/W143898729","https://openalex.org/W188730109","https://openalex.org/W1504702575","https://openalex.org/W1882473202","https://openalex.org/W1979158913","https://openalex.org/W1991207390","https://openalex.org/W2029184684","https://openalex.org/W2043654227","https://openalex.org/W2100412820","https://openalex.org/W2124815061","https://openalex.org/W2132247062","https://openalex.org/W2152568394","https://openalex.org/W2154685897","https://openalex.org/W2167455933","https://openalex.org/W2170041483","https://openalex.org/W2470029145","https://openalex.org/W2786160830","https://openalex.org/W2951878836","https://openalex.org/W2952045272","https://openalex.org/W2962569277","https://openalex.org/W2971670012","https://openalex.org/W3024072922","https://openalex.org/W3025857586","https://openalex.org/W3033812640","https://openalex.org/W3158874674","https://openalex.org/W3159719254","https://openalex.org/W3207024295","https://openalex.org/W4206792462","https://openalex.org/W4224216303","https://openalex.org/W4327575912","https://openalex.org/W4327896628","https://openalex.org/W4387729185","https://openalex.org/W4396900680"],"related_works":["https://openalex.org/W2006240110","https://openalex.org/W2751110224","https://openalex.org/W3142151604","https://openalex.org/W2137394710","https://openalex.org/W2147036980","https://openalex.org/W2085264534","https://openalex.org/W1973315673","https://openalex.org/W1510524001","https://openalex.org/W2104457979","https://openalex.org/W2996372188"],"abstract_inverted_index":{"BACKGROUND:":[0],"With":[1],"the":[2,8,30,71,128,137],"accumulation":[3],"of":[4,57,96,102,154],"phylogenomic":[5],"data":[6],"and":[7,19,81,107,122,134],"growing":[9],"demand":[10],"for":[11,25,41,54,162],"bioinformatics":[12],"analyses,":[13],"it":[14],"has":[15,36],"become":[16,37],"increasingly":[17],"important":[18],"complex":[20],"to":[21,32,113],"construct":[22],"evolutionary":[23],"relationships":[24],"different":[26],"research":[27],"purposes.":[28],"Therefore,":[29],"ability":[31],"support":[33],"multiple":[34,78],"scenarios":[35],"an":[38],"essential":[39],"need":[40],"phylogenetic":[42,58],"visualization.":[43],"RESULTS:":[44],"In":[45],"this":[46],"study,":[47],"we":[48],"present":[49],"PhyloScape,":[50],"a":[51,67,85,142,147,152],"web-based":[52],"application":[53],"interactive":[55,94],"visualization":[56,79],"trees":[59],"that":[60,157],"can":[61,130,159],"be":[62,131],"used":[63],"stand-alone":[64],"or":[65],"as":[66,117],"toolkit":[68],"deployed":[69],"on":[70,127],"users'":[72,138],"website.":[73],"The":[74],"platform":[75],"supports":[76],"customizable":[77],"features":[80],"is":[82,166],"equipped":[83],"with":[84,92],"flexible":[86],"metadata":[87],"annotation":[88],"system,":[89],"providing":[90],"researchers":[91],"publishable,":[93],"views":[95,101],"trees.":[97],"PhyloScape":[98,150,165],"extensions":[99],"include":[100],"amino":[103],"acid":[104],"identity,":[105],"geometry,":[106],"protein":[108],"structure,":[109],"which":[110],"are":[111],"applicable":[112],"various":[114],"areas":[115],"such":[116],"microbial":[118],"taxonomy,":[119],"pathogen":[120],"phylogeny,":[121],"plant":[123],"conservation.":[124],"Trees":[125],"published":[126],"website":[129],"efficiently":[132],"shared":[133],"integrated":[135],"into":[136],"own":[139],"system":[140],"via":[141],"unique":[143],"address.":[144],"CONCLUSIONS:":[145],"As":[146],"scalable":[148],"platform,":[149],"provides":[151],"variety":[153],"online":[155],"plug-ins":[156],"users":[158],"easily":[160],"combine":[161],"specific":[163],"scenarios.":[164],"freely":[167],"available":[168],"at":[169],"http://darwintree.cn/PhyloScape":[170],".":[171]},"counts_by_year":[],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
