{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,27]],"date-time":"2026-04-27T16:51:46Z","timestamp":1777308706700,"version":"3.51.4"},"reference-count":13,"publisher":"Oxford University Press (OUP)","issue":"1","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2010,1,1]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Summary: High-throughput RNA sequencing (RNA-seq) is rapidly emerging as a major quantitative transcriptome profiling platform. Here, we present DEGseq, an R package to identify differentially expressed genes or isoforms for RNA-seq data from different samples. In this package, we integrated three existing methods, and introduced two novel methods based on MA-plot to detect and visualize gene expression difference.<\/jats:p><jats:p>Availability: The R package and a quick-start vignette is available at http:\/\/bioinfo.au.tsinghua.edu.cn\/software\/degseq<\/jats:p><jats:p>Contact: \u00a0xwwang@tsinghua.edu.cn; zhangxg@tsinghua.edu.cn<\/jats:p><jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btp612","type":"journal-article","created":{"date-parts":[[2009,10,25]],"date-time":"2009-10-25T00:12:49Z","timestamp":1256429569000},"page":"136-138","source":"Crossref","is-referenced-by-count":3874,"title":["DEGseq: an R package for identifying differentially expressed genes from RNA-seq data"],"prefix":"10.1093","volume":"26","author":[{"given":"Likun","family":"Wang","sequence":"first","affiliation":[{"name":"1 MOE Key Laboratory of Bioinformatics and Bioinformatics Division, TNLIST\/Department of Automation, Tsinghua, University, Beijing 100084 and 2 College of Computer Science and Technology, Jilin University, Changchun 130012, China"},{"name":"1 MOE Key Laboratory of Bioinformatics and Bioinformatics Division, TNLIST\/Department of Automation, Tsinghua, University, Beijing 100084 and 2 College of Computer Science and Technology, Jilin University, Changchun 130012, China"}]},{"given":"Zhixing","family":"Feng","sequence":"additional","affiliation":[{"name":"1 MOE Key Laboratory of Bioinformatics and Bioinformatics Division, TNLIST\/Department of Automation, Tsinghua, University, Beijing 100084 and 2 College of Computer Science and Technology, Jilin University, Changchun 130012, China"}]},{"given":"Xi","family":"Wang","sequence":"additional","affiliation":[{"name":"1 MOE Key Laboratory of Bioinformatics and Bioinformatics Division, TNLIST\/Department of Automation, Tsinghua, University, Beijing 100084 and 2 College of Computer Science and Technology, Jilin University, Changchun 130012, China"}]},{"given":"Xiaowo","family":"Wang","sequence":"additional","affiliation":[{"name":"1 MOE Key Laboratory of Bioinformatics and Bioinformatics Division, TNLIST\/Department of Automation, Tsinghua, University, Beijing 100084 and 2 College of Computer Science and Technology, Jilin University, Changchun 130012, China"}]},{"given":"Xuegong","family":"Zhang","sequence":"additional","affiliation":[{"name":"1 MOE Key Laboratory of Bioinformatics and Bioinformatics Division, TNLIST\/Department of Automation, Tsinghua, University, Beijing 100084 and 2 College of Computer Science and Technology, Jilin University, Changchun 130012, China"}]}],"member":"286","published-online":{"date-parts":[[2009,10,24]]},"reference":[{"key":"2023012507524203000_B1","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1111\/j.2517-6161.1995.tb02031.x","article-title":"Controlling the false discovery rate: a practical and powerful approach to multiple testing","volume":"57","author":"Benjamini","year":"1995","journal-title":"J. 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