{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,9]],"date-time":"2026-01-09T00:24:18Z","timestamp":1767918258392,"version":"3.49.0"},"reference-count":13,"publisher":"Oxford University Press (OUP)","issue":"4","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2006,2,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: EDGE (Extraction of Differential Gene Expression) is an open source, point-and-click software program for the significance analysis of DNA microarray experiments. EDGE can perform both standard and time course differential expression analysis. The functions are based on newly developed statistical theory and methods. This document introduces the EDGE software package.<\/jats:p>\n               <jats:p>Availability: EDGE is freely available for non-commercial users. EDGE can be downloaded for Windows, Macintosh and Linux\/UNIX from<\/jats:p>\n               <jats:p>Contact: \u00a0jtleek@u.washington.edu<\/jats:p>","DOI":"10.1093\/bioinformatics\/btk005","type":"journal-article","created":{"date-parts":[[2005,12,16]],"date-time":"2005-12-16T01:24:29Z","timestamp":1134696269000},"page":"507-508","source":"Crossref","is-referenced-by-count":208,"title":["EDGE: extraction and analysis of differential gene expression"],"prefix":"10.1093","volume":"22","author":[{"given":"Jeffrey T.","family":"Leek","sequence":"first","affiliation":[{"name":"Department of Biostatistics, University of Washington \u00a0 Seattle 98195, USA"}]},{"given":"Eva","family":"Monsen","sequence":"additional","affiliation":[{"name":"Department of Biostatistics, University of Washington \u00a0 Seattle 98195, USA"}]},{"given":"Alan R.","family":"Dabney","sequence":"additional","affiliation":[{"name":"Department of Biostatistics, University of Washington \u00a0 Seattle 98195, USA"}]},{"given":"John D.","family":"Storey","sequence":"additional","affiliation":[{"name":"Department of Biostatistics, University of Washington \u00a0 Seattle 98195, USA"}]}],"member":"286","published-online":{"date-parts":[[2005,12,15]]},"reference":[{"key":"2023012408514516600_b1","doi-asserted-by":"crossref","first-page":"10101","DOI":"10.1073\/pnas.97.18.10101","article-title":"Singular value decomposition for genome-wide expression data processing and modeling","volume":"97","author":"Alter","year":"2000","journal-title":"Proc. Natl Acad. Sci."},{"key":"2023012408514516600_b2","doi-asserted-by":"crossref","first-page":"59","DOI":"10.1093\/biostatistics\/kxh018","article-title":"Improved statistical tests for differential gene expression by shrinking variance components estimates","volume":"6","author":"Cui","year":"2005","journal-title":"Biostatistics"},{"key":"2023012408514516600_b3","doi-asserted-by":"crossref","first-page":"77","DOI":"10.1198\/016214502753479248","article-title":"Comparison of discrimination methods for the classification of tumors using gene expression data","volume":"97","author":"Dudoit","year":"2002","journal-title":"J. Am. Stat. Assoc."},{"key":"2023012408514516600_b4","doi-asserted-by":"crossref","first-page":"1151","DOI":"10.1198\/016214501753382129","article-title":"Empirical Bayes analysis of a microarray experiment","volume":"96","author":"Efron","year":"2001","journal-title":"J. Am. Stat. Assoc."},{"key":"2023012408514516600_b5","doi-asserted-by":"crossref","first-page":"14863","DOI":"10.1073\/pnas.95.25.14863","article-title":"Cluster analysis and display of genome-wide expression patterns","volume":"95","author":"Eisen","year":"1998","journal-title":"Proc. Natl Acad. Sci."},{"key":"2023012408514516600_b6","doi-asserted-by":"crossref","first-page":"539","DOI":"10.1056\/NEJM200102223440801","article-title":"Gene-expression profiles in hereditary breast cancer","volume":"344","author":"Hedenfalk","year":"2002","journal-title":"N. Engl. J. Med."},{"key":"2023012408514516600_b7","first-page":"31","article-title":"Replicated microarray data","volume":"12","author":"Lonnstedt","year":"2002","journal-title":"Stat. Sinica"},{"key":"2023012408514516600_b8","volume-title":"R: A language and environment for statistical computing","author":"R Development Core Team","year":"2005"},{"key":"2023012408514516600_b9","article-title":"The optimal discovery procedure: a new approach to simultaneous significance testing","volume":"259","author":"Storey","year":"2005","journal-title":"UW Biostatistics Working Paper Series Working Paper"},{"key":"2023012408514516600_b10","doi-asserted-by":"crossref","first-page":"9440","DOI":"10.1073\/pnas.1530509100","article-title":"Statistical significance for genome-wide studies","volume":"100","author":"Storey","year":"2003","journal-title":"Proc. Natl Acad. Sci."},{"key":"2023012408514516600_b11","article-title":"The Optimal Discovery Procedure for Large-Scale Significance Testing, with Applications to Comparative Microarray Experiments","volume-title":"UW Biostatistics Working Paper Series","author":"Storey","year":"2005"},{"key":"2023012408514516600_b12","doi-asserted-by":"crossref","first-page":"12837","DOI":"10.1073\/pnas.0504609102","article-title":"Significance analysis of time course microarray experiments","volume":"36","author":"Storey","year":"2005","journal-title":"Proc. Natl Acad. Sci."},{"key":"2023012408514516600_b13","doi-asserted-by":"crossref","first-page":"520","DOI":"10.1093\/bioinformatics\/17.6.520","article-title":"Missing value estimation methods for DNA microarrays","volume":"17","author":"Troyanskaya","year":"2001","journal-title":"Bioinformatics"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/22\/4\/507\/48840662\/bioinformatics_22_4_507.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/22\/4\/507\/48840662\/bioinformatics_22_4_507.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,24]],"date-time":"2023-01-24T09:25:46Z","timestamp":1674552346000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/22\/4\/507\/184363"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2005,12,15]]},"references-count":13,"journal-issue":{"issue":"4","published-print":{"date-parts":[[2006,2,15]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btk005","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2006,2,15]]},"published":{"date-parts":[[2005,12,15]]}}}