{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,7,9]],"date-time":"2025-07-09T12:10:03Z","timestamp":1752063003450,"version":"3.41.2"},"reference-count":22,"publisher":"Oxford University Press (OUP)","issue":"7","license":[{"start":{"date-parts":[[2025,7,3]],"date-time":"2025-07-03T00:00:00Z","timestamp":1751500800000},"content-version":"vor","delay-in-days":2,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025,7,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Understanding how small molecules perturb gene expression is critical for guiding drug discovery. We present DOSE-L1000-Viz, a Shiny application that facilitates comprehensive exploration of compound-induced transcriptomic responses across doses, time points, and cell types. Powered by a dose\u2013response database, DOSE-L1000-Viz features interactive visualization, target-centric compound ranking based on efficacy and potency, and a signature search module using reference gene sets derived from generalized additive models. We benchmarked signatures derived from generalized additive models against traditional methods and demonstrated the utility of DOSE-L1000-Viz through use cases in transcription factor modulation and drug repurposing.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>DOSE-L1000-Viz and the backend data are publicly accessible at: https:\/\/dosel1000.com. All code is publicly hosted on GitHub (https:\/\/github.com\/JmWangBio\/DOSEL1000Viz) and archived via Zenodo (https:\/\/doi.org\/10.5281\/zenodo.15532392).<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btaf353","type":"journal-article","created":{"date-parts":[[2025,7,3]],"date-time":"2025-07-03T14:18:01Z","timestamp":1751552281000},"source":"Crossref","is-referenced-by-count":0,"title":["DOSE-L1000-Viz: an interactive Shiny application for dose\u2013response transcriptomic analysis, target-centric exploration, and signature search"],"prefix":"10.1093","volume":"41","author":[{"ORCID":"https:\/\/orcid.org\/0009-0004-3728-9538","authenticated-orcid":false,"given":"Junmin","family":"Wang","sequence":"first","affiliation":[{"name":"Data Sciences and Quantitative Biology, Discovery Sciences, Biopharmaceuticals R&D, AstraZeneca , Waltham, MA 02451,","place":["United 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