{"id":"https://openalex.org/W2891314018","doi":"https://doi.org/10.1093/bioinformatics/bty792","title":"Phylolink: phylogenetically-based profiling, visualisations and metrics for biodiversity","display_name":"Phylolink: phylogenetically-based profiling, visualisations and metrics for biodiversity","publication_year":2018,"publication_date":"2018-09-06","ids":{"openalex":"https://openalex.org/W2891314018","doi":"https://doi.org/10.1093/bioinformatics/bty792","mag":"2891314018","pmid":"https://pubmed.ncbi.nlm.nih.gov/30202854"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty792","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty792","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/7/1229/28277926/bty792.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/35/7/1229/28277926/bty792.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5035510410","display_name":"Joseph T. Miller","orcid":"https://orcid.org/0000-0002-5788-9010"},"institutions":[{"id":"https://openalex.org/I1292875679","display_name":"Commonwealth Scientific and Industrial Research Organisation","ror":"https://ror.org/03qn8fb07","country_code":"AU","type":"government","lineage":["https://openalex.org/I1292875679","https://openalex.org/I2801453606","https://openalex.org/I4387156119"]},{"id":"https://openalex.org/I1311060795","display_name":"U.S. National Science Foundation","ror":"https://ror.org/021nxhr62","country_code":"US","type":"government","lineage":["https://openalex.org/I1311060795"]},{"id":"https://openalex.org/I4210102203","display_name":"Atlas of Living Australia","ror":"https://ror.org/018n2ja79","country_code":"AU","type":"archive","lineage":["https://openalex.org/I4210102203"]},{"id":"https://openalex.org/I4210158368","display_name":"Australian National Wildlife Collection","ror":"https://ror.org/059mabc80","country_code":"AU","type":"archive","lineage":["https://openalex.org/I1292875679","https://openalex.org/I2801453606","https://openalex.org/I4210158368","https://openalex.org/I4387156119"]}],"countries":["AU","US"],"is_corresponding":true,"raw_author_name":"Joseph T Miller","raw_affiliation_strings":["Atlas of Living Australia, CSIRO National Collections and Marine Infrastructure, Canberra, ACT, Australia and","National Research Collections Australia, CSIRO National Facilities and Collections, Canberra, ACT, Australia","Office of International Science and Engineering, National Science Foundation, Alexandria, VA, USA"],"affiliations":[{"raw_affiliation_string":"Atlas of Living Australia, CSIRO National Collections and Marine Infrastructure, Canberra, ACT, Australia and","institution_ids":["https://openalex.org/I4210102203","https://openalex.org/I1292875679"]},{"raw_affiliation_string":"National Research Collections Australia, CSIRO National Facilities and Collections, Canberra, ACT, Australia","institution_ids":["https://openalex.org/I4210158368","https://openalex.org/I1292875679"]},{"raw_affiliation_string":"Office of International Science and Engineering, National Science Foundation, Alexandria, VA, USA","institution_ids":["https://openalex.org/I1311060795"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014698876","display_name":"Rebecca Pirzl","orcid":"https://orcid.org/0000-0002-4302-0736"},"institutions":[{"id":"https://openalex.org/I1292875679","display_name":"Commonwealth Scientific and Industrial Research Organisation","ror":"https://ror.org/03qn8fb07","country_code":"AU","type":"government","lineage":["https://openalex.org/I1292875679","https://openalex.org/I2801453606","https://openalex.org/I4387156119"]},{"id":"https://openalex.org/I4210102203","display_name":"Atlas of Living Australia","ror":"https://ror.org/018n2ja79","country_code":"AU","type":"archive","lineage":["https://openalex.org/I4210102203"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Rebecca Pirzl","raw_affiliation_strings":["Atlas of Living Australia, CSIRO National Collections and Marine Infrastructure, Canberra, ACT, Australia and"],"affiliations":[{"raw_affiliation_string":"Atlas of Living Australia, CSIRO National Collections and Marine Infrastructure, Canberra, ACT, Australia and","institution_ids":["https://openalex.org/I4210102203","https://openalex.org/I1292875679"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057777109","display_name":"Dan F. Rosauer","orcid":"https://orcid.org/0000-0002-2371-1767"},"institutions":[{"id":"https://openalex.org/I118347636","display_name":"Australian National University","ror":"https://ror.org/019wvm592","country_code":"AU","type":"education","lineage":["https://openalex.org/I118347636"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Dan Rosauer","raw_affiliation_strings":["ANU College of Science, Australian National University, Canberra, ACT, Australia"],"affiliations":[{"raw_affiliation_string":"ANU College of Science, Australian National University, Canberra, ACT, Australia","institution_ids":["https://openalex.org/I118347636"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031472656","display_name":"Garry Jolley\u2010Rogers","orcid":"https://orcid.org/0000-0002-5029-2975"},"institutions":[{"id":"https://openalex.org/I1292875679","display_name":"Commonwealth Scientific and Industrial Research Organisation","ror":"https://ror.org/03qn8fb07","country_code":"AU","type":"government","lineage":["https://openalex.org/I1292875679","https://openalex.org/I2801453606","https://openalex.org/I4387156119"]},{"id":"https://openalex.org/I4210158368","display_name":"Australian National Wildlife Collection","ror":"https://ror.org/059mabc80","country_code":"AU","type":"archive","lineage":["https://openalex.org/I1292875679","https://openalex.org/I2801453606","https://openalex.org/I4210158368","https://openalex.org/I4387156119"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Garry Jolley-Rogers","raw_affiliation_strings":["National Research Collections Australia, CSIRO National Facilities and Collections, Canberra, ACT, Australia"],"affiliations":[{"raw_affiliation_string":"National Research Collections Australia, CSIRO National Facilities and Collections, Canberra, ACT, Australia","institution_ids":["https://openalex.org/I4210158368","https://openalex.org/I1292875679"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5001899669","display_name":"Temi Varghese","orcid":null},"institutions":[{"id":"https://openalex.org/I1292875679","display_name":"Commonwealth Scientific and Industrial Research Organisation","ror":"https://ror.org/03qn8fb07","country_code":"AU","type":"government","lineage":["https://openalex.org/I1292875679","https://openalex.org/I2801453606","https://openalex.org/I4387156119"]},{"id":"https://openalex.org/I4210102203","display_name":"Atlas of Living Australia","ror":"https://ror.org/018n2ja79","country_code":"AU","type":"archive","lineage":["https://openalex.org/I4210102203"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Temi Varghese","raw_affiliation_strings":["Atlas of Living Australia, CSIRO National Collections and Marine Infrastructure, Canberra, ACT, Australia and"],"affiliations":[{"raw_affiliation_string":"Atlas of Living Australia, CSIRO National Collections and Marine Infrastructure, Canberra, ACT, Australia and","institution_ids":["https://openalex.org/I4210102203","https://openalex.org/I1292875679"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5035510410"],"corresponding_institution_ids":["https://openalex.org/I1292875679","https://openalex.org/I1311060795","https://openalex.org/I4210102203","https://openalex.org/I4210158368"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.2002,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.67967589,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"35","issue":"7","first_page":"1229","last_page":"1230"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10895","display_name":"Species Distribution and Climate Change","score":0.9972000122070312,"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"}},"topics":[{"id":"https://openalex.org/T10895","display_name":"Species Distribution and Climate Change","score":0.9972000122070312,"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"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9866999983787537,"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":0.9846000075340271,"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/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.7712963819503784},{"id":"https://openalex.org/keywords/upload","display_name":"Upload","score":0.7262612581253052},{"id":"https://openalex.org/keywords/biodiversity","display_name":"Biodiversity","score":0.650134801864624},{"id":"https://openalex.org/keywords/download","display_name":"Download","score":0.5556857585906982},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4798252582550049},{"id":"https://openalex.org/keywords/clade","display_name":"Clade","score":0.4627954959869385},{"id":"https://openalex.org/keywords/species-richness","display_name":"Species richness","score":0.44468486309051514},{"id":"https://openalex.org/keywords/phylogenetic-diversity","display_name":"Phylogenetic diversity","score":0.43378913402557373},{"id":"https://openalex.org/keywords/range","display_name":"Range (aeronautics)","score":0.4315013885498047},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.42441338300704956},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3627549111843109},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.35297417640686035},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.343383252620697},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.30837348103523254},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.260936439037323},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.24311405420303345}],"concepts":[{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.7712963819503784},{"id":"https://openalex.org/C71901391","wikidata":"https://www.wikidata.org/wiki/Q7126699","display_name":"Upload","level":2,"score":0.7262612581253052},{"id":"https://openalex.org/C130217890","wikidata":"https://www.wikidata.org/wiki/Q47041","display_name":"Biodiversity","level":2,"score":0.650134801864624},{"id":"https://openalex.org/C2780154274","wikidata":"https://www.wikidata.org/wiki/Q7126717","display_name":"Download","level":2,"score":0.5556857585906982},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4798252582550049},{"id":"https://openalex.org/C44465124","wikidata":"https://www.wikidata.org/wiki/Q713623","display_name":"Clade","level":4,"score":0.4627954959869385},{"id":"https://openalex.org/C53565203","wikidata":"https://www.wikidata.org/wiki/Q17146659","display_name":"Species richness","level":2,"score":0.44468486309051514},{"id":"https://openalex.org/C98722961","wikidata":"https://www.wikidata.org/wiki/Q7189436","display_name":"Phylogenetic diversity","level":4,"score":0.43378913402557373},{"id":"https://openalex.org/C204323151","wikidata":"https://www.wikidata.org/wiki/Q905424","display_name":"Range (aeronautics)","level":2,"score":0.4315013885498047},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.42441338300704956},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3627549111843109},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.35297417640686035},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.343383252620697},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.30837348103523254},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.260936439037323},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.24311405420303345},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C159985019","wikidata":"https://www.wikidata.org/wiki/Q181790","display_name":"Composite material","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D001203","descriptor_name":"Ascomycota","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001203","descriptor_name":"Ascomycota","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001203","descriptor_name":"Ascomycota","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001203","descriptor_name":"Ascomycota","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":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D044822","descriptor_name":"Biodiversity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D044822","descriptor_name":"Biodiversity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044822","descriptor_name":"Biodiversity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044822","descriptor_name":"Biodiversity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/bty792","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty792","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/7/1229/28277926/bty792.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30202854","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30202854","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":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty792","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty792","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/7/1229/28277926/bty792.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.6000000238418579,"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2891314018.pdf","grobid_xml":"https://content.openalex.org/works/W2891314018.grobid-xml"},"referenced_works_count":3,"referenced_works":["https://openalex.org/W1911075993","https://openalex.org/W2170263328","https://openalex.org/W2752603369"],"related_works":["https://openalex.org/W2022250864","https://openalex.org/W4385061579","https://openalex.org/W1855418621","https://openalex.org/W1968126718","https://openalex.org/W2551306858","https://openalex.org/W3143743461","https://openalex.org/W4230697461","https://openalex.org/W2917104557","https://openalex.org/W2549500640","https://openalex.org/W2198018783"],"abstract_inverted_index":{"Phylolink":[0],"is":[1],"available":[2],"at":[3],"the":[4],"Atlas":[5],"of":[6,22],"Living":[7],"Australia,":[8],"http://phylolink.ala.org.au/.":[9],"It":[10],"works":[11],"on":[12],"any":[13],"browser":[14],"and":[15,26],"users":[16],"can":[17],"select":[18],"from":[19],"a":[20],"range":[21],"stored":[23],"phylogenetic":[24],"trees":[25],"spatial":[27],"datasets,":[28],"or":[29],"upload":[30],"their":[31],"own.":[32]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2019,"cited_by_count":1}],"updated_date":"2026-04-13T07:58:08.660418","created_date":"2025-10-10T00:00:00"}
