{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,28]],"date-time":"2026-03-28T04:51:25Z","timestamp":1774673485942,"version":"3.50.1"},"reference-count":7,"publisher":"Oxford University Press (OUP)","issue":"7","license":[{"start":{"date-parts":[[2020,8,6]],"date-time":"2020-08-06T00:00:00Z","timestamp":1596672000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100000038","name":"Canada\u2019s Natural Sciences and Engineering Research Council","doi-asserted-by":"crossref","id":[{"id":"10.13039\/501100000038","id-type":"DOI","asserted-by":"crossref"}]},{"name":"Canada Graduate Scholarship"},{"DOI":"10.13039\/501100001804","name":"Canada Research Chairs Program","doi-asserted-by":"crossref","id":[{"id":"10.13039\/501100001804","id-type":"DOI","asserted-by":"crossref"}]},{"name":"EcoToxChip project"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,5,17]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>Transcriptomics dose\u2013response analysis is a promising new approach method for toxicity testing. While international regulatory agencies have spent substantial effort establishing a standardized statistical approach, existing software that follows this approach is computationally inefficient and must be locally installed.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>FastBMD is a web-based tool that implements standardized methods for transcriptomics benchmark dose\u2013response analysis in R. It is &amp;gt;60 times faster than the current leading software, supports transcriptomics data from 13 species, and offers a comprehensive analytical pipeline that goes from processing and normalization of raw gene expression values to interactive exploration of pathway-level benchmark dose results.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>FastBMD is freely available at www.fastbmd.ca.<\/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\/btaa700","type":"journal-article","created":{"date-parts":[[2020,8,4]],"date-time":"2020-08-04T19:31:10Z","timestamp":1596569470000},"page":"1035-1036","source":"Crossref","is-referenced-by-count":41,"title":["FastBMD: an online tool for rapid benchmark dose\u2013response analysis of transcriptomics data"],"prefix":"10.1093","volume":"37","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7555-736X","authenticated-orcid":false,"given":"Jessica","family":"Ewald","sequence":"first","affiliation":[{"name":"Department of Natural Resource Sciences, McGill University , Montreal, QC H9X 3V9, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Othman","family":"Soufan","sequence":"additional","affiliation":[{"name":"Institute of Parasitology, McGill University , Montreal, QC H9X 3V9, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2040-2624","authenticated-orcid":false,"given":"Jianguo","family":"Xia","sequence":"additional","affiliation":[{"name":"Institute of Parasitology, McGill University , Montreal, QC H9X 3V9, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Niladri","family":"Basu","sequence":"additional","affiliation":[{"name":"Department of Natural Resource Sciences, McGill University , Montreal, QC H9X 3V9, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2020,8,6]]},"reference":[{"key":"2023051612171627800_btaa700-B1","doi-asserted-by":"crossref","first-page":"2045","DOI":"10.1007\/s00204-016-1886-5","article-title":"Recommended approaches in the application of toxicogenomics to derive points of departure for chemical risk assessment","volume":"91","author":"Farmahin","year":"2017","journal-title":"Arch. Toxicol"},{"key":"2023051612171627800_btaa700-B2","doi-asserted-by":"crossref","first-page":"14461","DOI":"10.1021\/acs.est.8b04752","article-title":"DRomics: a Turnkey Tool to support the use of the dose\u2013response framework for omics data in ecological risk assessment","volume":"52","author":"Larras","year":"2018","journal-title":"Environ. Sci. Technol"},{"key":"2023051612171627800_btaa700-B3","doi-asserted-by":"crossref","first-page":"114634","DOI":"10.1016\/j.taap.2019.114634","article-title":"Transcriptomic points-of-departure from short-term exposure studies are protective of chronic effects for fish exposed to estrogenic chemicals","volume":"378","author":"Pag\u00e9-Larivi\u00e8re","year":"2019","journal-title":"Toxicol. Appl. 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