{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,15]],"date-time":"2026-04-15T16:56:41Z","timestamp":1776272201795,"version":"3.50.1"},"reference-count":5,"publisher":"Oxford University Press (OUP)","issue":"5","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2013,3,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Motivation: A common question arises at the beginning of every experiment where RNA-Seq is used to detect differential gene expression between two conditions: How many reads should we sequence?<\/jats:p>\n                  <jats:p>Results: Scotty is an interactive web-based application that assists biologists to design an experiment with an appropriate sample size and read depth to satisfy the user-defined experimental objectives. This design can be based on data available from either pilot samples or publicly available datasets.<\/jats:p>\n                  <jats:p>Availability: Scotty can be freely accessed on the web at http:\/\/euler.bc.edu\/marthlab\/scotty\/scotty.php<\/jats:p>\n                  <jats:p>Contact: \u00a0gabor.marth@bc.edu<\/jats:p>\n                  <jats:p>Supplementary information: \u00a0Supplementary data are is available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btt015","type":"journal-article","created":{"date-parts":[[2013,1,12]],"date-time":"2013-01-12T20:41:16Z","timestamp":1358023276000},"page":"656-657","source":"Crossref","is-referenced-by-count":126,"title":["Scotty: a web tool for designing RNA-Seq experiments to measure differential gene expression"],"prefix":"10.1093","volume":"29","author":[{"given":"Michele A.","family":"Busby","sequence":"first","affiliation":[{"name":"Department of Biology, Boston College, Chestnut Hill, MA 02467, USA"}]},{"given":"Chip","family":"Stewart","sequence":"additional","affiliation":[{"name":"Department of Biology, Boston College, Chestnut Hill, MA 02467, USA"}]},{"given":"Chase A.","family":"Miller","sequence":"additional","affiliation":[{"name":"Department of Biology, Boston College, Chestnut Hill, MA 02467, USA"}]},{"given":"Krzysztof R.","family":"Grzeda","sequence":"additional","affiliation":[{"name":"Department of Biology, Boston College, Chestnut Hill, MA 02467, USA"}]},{"given":"Gabor T.","family":"Marth","sequence":"additional","affiliation":[{"name":"Department of Biology, Boston College, Chestnut Hill, MA 02467, USA"}]}],"member":"286","published-online":{"date-parts":[[2013,1,12]]},"reference":[{"key":"2023051607331780300_btt015-B1","doi-asserted-by":"crossref","first-page":"R106","DOI":"10.1186\/gb-2010-11-10-r106","article-title":"Differential expression analysis for sequence count data","volume":"11","author":"Anders","year":"2010","journal-title":"Genome Biol."},{"key":"2023051607331780300_btt015-B2","doi-asserted-by":"crossref","first-page":"441","DOI":"10.1081\/BIP-120016229","article-title":"A note on sample size calculation for mean comparisons based on noncentral t-statistics","volume":"12","author":"Chow","year":"2002","journal-title":"J. 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