{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,16]],"date-time":"2026-01-16T19:03:38Z","timestamp":1768590218271,"version":"3.49.0"},"reference-count":10,"publisher":"Oxford University Press (OUP)","issue":"17","license":[{"start":{"date-parts":[[2019,1,22]],"date-time":"2019-01-22T00:00:00Z","timestamp":1548115200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100010269","name":"Wellcome Trust","doi-asserted-by":"publisher","award":["099133"],"award-info":[{"award-number":["099133"]}],"id":[{"id":"10.13039\/100010269","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Google Summer of Code"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,9,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>InterMineR is a package designed to provide a flexible interface between the R programming environment and biological databases built using the InterMine platform. The package offers access to the flexible query builder and the library of term enrichment tools of the InterMine framework, as well as interoperability with other Bioconductor packages. This facilitates automation of data retrieval tasks as well as downstream analysis with existing statistical tools in the R environment.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>InterMineR is free and open source, released under the LGPL licence and available from the Bioconductor project and Github (https:\/\/bioconductor.org\/packages\/release\/bioc\/html\/InterMineR.html, https:\/\/github.com\/intermine\/interMineR).<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btz039","type":"journal-article","created":{"date-parts":[[2019,1,17]],"date-time":"2019-01-17T20:13:29Z","timestamp":1547756009000},"page":"3206-3207","source":"Crossref","is-referenced-by-count":22,"title":["InterMineR: an R package for InterMine databases"],"prefix":"10.1093","volume":"35","author":[{"given":"Konstantinos A","family":"Kyritsis","sequence":"first","affiliation":[{"name":"School of Pharmacy, Aristotle University of Thessaloniki Laboratory of Pharmacology, , Thessaloniki GR-54124, Greece"},{"name":"University of Cambridge Department of Genetics, , Cambridge, UK"},{"name":"Cambridge Systems Biology Centre , Cambridge, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Bing","family":"Wang","sequence":"additional","affiliation":[{"name":"University of Cambridge Department of Genetics, , Cambridge, UK"},{"name":"Cambridge Systems Biology Centre , Cambridge, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Julie","family":"Sullivan","sequence":"additional","affiliation":[{"name":"University of Cambridge Department of Genetics, , Cambridge, UK"},{"name":"Cambridge Systems Biology Centre , Cambridge, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8050-402X","authenticated-orcid":false,"given":"Rachel","family":"Lyne","sequence":"additional","affiliation":[{"name":"University of Cambridge Department of Genetics, , Cambridge, UK"},{"name":"Cambridge Systems Biology Centre , Cambridge, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Gos","family":"Micklem","sequence":"additional","affiliation":[{"name":"University of Cambridge Department of Genetics, , Cambridge, UK"},{"name":"Cambridge Systems Biology Centre , Cambridge, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2019,1,22]]},"reference":[{"key":"2023062711314760300_btz039-B1","author":"Chang","year":"2017"},{"key":"2023062711314760300_btz039-B4","doi-asserted-by":"crossref","first-page":"10.","DOI":"10.1186\/1756-0500-3-10","article-title":"A collection of bioconductor methods to visualize gene-list annotations","volume":"3","author":"Feng","year":"2010","journal-title":"BMC Res. Notes"},{"key":"2023062711314760300_btz039-B5","doi-asserted-by":"crossref","first-page":"101","DOI":"10.1007\/978-1-61779-400-1_7","article-title":"Using the bioconductor GeneAnswers package to interpret gene lists","volume":"802","author":"Feng","year":"2012","journal-title":"Methods Mol. Biol"},{"key":"2023062711314760300_btz039-B6","doi-asserted-by":"crossref","first-page":"R80.","DOI":"10.1186\/gb-2004-5-10-r80","article-title":"Bioconductor: open software development for computational biology and bioinformatics","volume":"5","author":"Gentleman","year":"2004","journal-title":"Genome Biol"},{"key":"2023062711314760300_btz039-B7","author":"Huang","year":"2014"},{"key":"2023062711314760300_btz039-B8","doi-asserted-by":"crossref","first-page":"115","DOI":"10.1038\/nmeth.3252","article-title":"Orchestrating high-throughput genomic analysis with Bioconductor","volume":"12","author":"Huber","year":"2015","journal-title":"Nat. Methods"},{"key":"2023062711314760300_btz039-B10","doi-asserted-by":"crossref","first-page":"e1003118.","DOI":"10.1371\/journal.pcbi.1003118","article-title":"Software for computing and annotating genomic ranges","volume":"9","author":"Lawrence","year":"2013","journal-title":"PLoS Comput. Biol"},{"key":"2023062711314760300_btz039-B13","author":"Morgan","year":"2017"},{"key":"2023062711314760300_btz039-B15","year":"2008"},{"key":"2023062711314760300_btz039-B17","doi-asserted-by":"crossref","first-page":"3163","DOI":"10.1093\/bioinformatics\/bts577","article-title":"InterMine: a flexible data warehouse system for the integration and analysis of heterogeneous biological data","volume":"28","author":"Smith","year":"2012","journal-title":"Bioinformatics"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/35\/17\/3206\/50719968\/bioinformatics_35_17_3206.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/35\/17\/3206\/50719968\/bioinformatics_35_17_3206.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,6,27]],"date-time":"2023-06-27T11:33:09Z","timestamp":1687865589000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/35\/17\/3206\/5298732"}},"subtitle":[],"editor":[{"given":"Janet","family":"Kelso","sequence":"additional","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2019,1,22]]},"references-count":10,"journal-issue":{"issue":"17","published-print":{"date-parts":[[2019,9,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btz039","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2019,9,1]]},"published":{"date-parts":[[2019,1,22]]}}}