{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,2,22]],"date-time":"2025-02-22T00:44:56Z","timestamp":1740185096961,"version":"3.37.3"},"reference-count":3,"publisher":"Oxford University Press (OUP)","issue":"7","funder":[{"DOI":"10.13039\/100000001","name":"National Science Foundation","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,4,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Phylolink is a research collaboration toolkit through which biodiversity can be explored from a phylogenetic perspective. It is an update of PhyloJiVE that has been integrated into the framework of the Atlas of Living Australia, including its spatial portal. Phylolink connects phylogenetic tree nodes with species occurrence records, environmental data, and species trait information. Features new to Phylolink allow users to upload and download spatial datasets, store files and link to the ALA spatial portal, improve graphics and provide the novel ability to analyze environmental attributes of species and clades distributions. Species richness and phylogenetic diversity comparisons can be made among geographic areas. The result is a powerful way of combining data to generate flexible and customizable visualizations, profiles and metrics for biodiversity.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>Phylolink is available at the Atlas of Living Australia, http:\/\/phylolink.ala.org.au\/. It works on any browser and users can select from a range of stored phylogenetic trees and spatial datasets, or upload their own.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/bty792","type":"journal-article","created":{"date-parts":[[2018,9,6]],"date-time":"2018-09-06T19:28:19Z","timestamp":1536262099000},"page":"1229-1230","source":"Crossref","is-referenced-by-count":2,"title":["Phylolink: phylogenetically-based profiling, visualisations and metrics for biodiversity"],"prefix":"10.1093","volume":"35","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-5788-9010","authenticated-orcid":false,"given":"Joseph T","family":"Miller","sequence":"first","affiliation":[{"name":"National Research Collections Australia, CSIRO National Facilities and Collections, Canberra, ACT, Australia"},{"name":"Office of International Science and Engineering, National Science Foundation, Alexandria, VA, USA"},{"name":"Atlas of Living Australia, CSIRO National Collections and Marine Infrastructure, Canberra, ACT, Australia and"}]},{"given":"Rebecca","family":"Pirzl","sequence":"additional","affiliation":[{"name":"Atlas of Living Australia, CSIRO National Collections and Marine Infrastructure, Canberra, ACT, Australia and"}]},{"given":"Dan","family":"Rosauer","sequence":"additional","affiliation":[{"name":"ANU College of Science, Australian National University, Canberra, ACT, Australia"}]},{"given":"Garry","family":"Jolley-Rogers","sequence":"additional","affiliation":[{"name":"National Research Collections Australia, CSIRO National Facilities and Collections, Canberra, ACT, Australia"}]},{"given":"Temi","family":"Varghese","sequence":"additional","affiliation":[{"name":"Atlas of Living Australia, CSIRO National Collections and Marine Infrastructure, Canberra, ACT, Australia and"}]}],"member":"286","published-online":{"date-parts":[[2018,9,8]]},"reference":[{"key":"2023013107275094300_bty792-B1","doi-asserted-by":"crossref","first-page":"108","DOI":"10.1080\/13658816.2015.1077962","article-title":"Towards a national bio-environmental data facility: experiences from the Atlas of Living Australia","volume":"30","author":"Belbin","year":"2015","journal-title":"Int. J. Geograph. Information Sci"},{"key":"2023013107275094300_bty792-B2","doi-asserted-by":"crossref","first-page":"1308","DOI":"10.1093\/bioinformatics\/btu024","article-title":"PhyloJIVE: integrating biodiversity data with the tree of life","volume":"30","author":"Jolley-Rogers","year":"2014","journal-title":"Bioinformatics"},{"key":"2023013107275094300_bty792-B4","doi-asserted-by":"crossref","first-page":"465","DOI":"10.1600\/036364417X696140","article-title":"Molecular phylogenetics of Parasenegalia and Pseudosenegalia (Fabaceae: mimosoideae)","volume":"42","author":"Miller","year":"2017","journal-title":"Syst. Botany"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/35\/7\/1229\/48968462\/bioinformatics_35_7_1229.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/35\/7\/1229\/48968462\/bioinformatics_35_7_1229.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,31]],"date-time":"2023-01-31T10:00:27Z","timestamp":1675159227000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/35\/7\/1229\/5092933"}},"subtitle":[],"editor":[{"given":"Russell","family":"Schwartz","sequence":"additional","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2018,9,8]]},"references-count":3,"journal-issue":{"issue":"7","published-print":{"date-parts":[[2019,4,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/bty792","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"type":"print","value":"1367-4803"},{"type":"electronic","value":"1367-4811"}],"subject":[],"published-other":{"date-parts":[[2019,4,1]]},"published":{"date-parts":[[2018,9,8]]}}}