{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2023,1,26]],"date-time":"2023-01-26T05:20:24Z","timestamp":1674710424921},"reference-count":3,"publisher":"Oxford University Press (OUP)","issue":"19","license":[{"start":{"date-parts":[[2016,10,2]],"date-time":"2016-10-02T00:00:00Z","timestamp":1475366400000},"content-version":"vor","delay-in-days":2244,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/2.0\/uk\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2010,10,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: High-throughput screening (HTS) is a common technique for both drug discovery and basic research, but researchers often struggle with how best to derive hits from HTS data. While a wide range of hit identification techniques exist, little information is available about their sensitivity and specificity, especially in comparison to each other. To address this, we have developed the open-source NoiseMaker software tool for generation of realistically noisy virtual screens. By applying potential hit identification methods to NoiseMaker-simulated data and determining how many of the pre-defined true hits are recovered (as well as how many known non-hits are misidentified as hits), one can draw conclusions about the likely performance of these techniques on real data containing unknown true hits. Such simulations apply to a range of screens, such as those using small molecules, siRNAs, shRNAs, miRNA mimics or inhibitors, or gene over-expression; we demonstrate this utility by using it to explain apparently conflicting reports about the performance of the B score hit identification method.<\/jats:p>\n               <jats:p>Availability and implementation: NoiseMaker is written in C#, an ECMA and ISO standard language with compilers for multiple operating systems. Source code, a Windows installer and complete unit tests are available at http:\/\/sourceforge.net\/projects\/noisemaker. Full documentation and support are provided via an extensive help file and tool-tips, and the developers welcome user suggestions.<\/jats:p>\n               <jats:p>Contact: \u00a0amanda.birmingham@thermofisher.com<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btq457","type":"journal-article","created":{"date-parts":[[2010,8,12]],"date-time":"2010-08-12T00:32:12Z","timestamp":1281573132000},"page":"2484-2485","source":"Crossref","is-referenced-by-count":3,"title":["NoiseMaker: simulated screens for statistical assessment"],"prefix":"10.1093","volume":"26","author":[{"given":"Phoenix","family":"Kwan","sequence":"first","affiliation":[{"name":"Thermo Fisher Scientific, 2650 Crescent Drive, Lafayette, CO 80026, USA"}]},{"given":"Amanda","family":"Birmingham","sequence":"additional","affiliation":[{"name":"Thermo Fisher Scientific, 2650 Crescent Drive, Lafayette, CO 80026, USA"}]}],"member":"286","published-online":{"date-parts":[[2010,8,11]]},"reference":[{"key":"2023012508170413800_B1","doi-asserted-by":"crossref","first-page":"569","DOI":"10.1038\/nmeth.1351","article-title":"Statistical methods for analysis of high-throughput RNA interference screens","volume":"6","author":"Birmingham","year":"2009","journal-title":"Nat. Methods"},{"key":"2023012508170413800_B2","doi-asserted-by":"crossref","first-page":"634","DOI":"10.1177\/1087057103258285","article-title":"Improved statistical methods for hit selection in high-throughput screening","volume":"8","author":"Brideau","year":"2003","journal-title":"J. Biomol. Screen."},{"key":"2023012508170413800_B3","doi-asserted-by":"crossref","first-page":"1648","DOI":"10.1093\/bioinformatics\/btm145","article-title":"An efficient method for the detection and elimination of systematic error in high-throughput screening","volume":"23","author":"Makarenkov","year":"2007","journal-title":"Bioinformatics"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/26\/19\/2484\/48855665\/bioinformatics_26_19_2484.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/26\/19\/2484\/48855665\/bioinformatics_26_19_2484.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,25]],"date-time":"2023-01-25T08:17:51Z","timestamp":1674634671000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/26\/19\/2484\/230168"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2010,8,11]]},"references-count":3,"journal-issue":{"issue":"19","published-print":{"date-parts":[[2010,10,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btq457","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2010,10,1]]},"published":{"date-parts":[[2010,8,11]]}}}