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Decode-seq: a practical approach to improve differential gene expression analysis.

ABSTRACT: Many differential gene expression analyses are conducted with an inadequate number of biological replicates. We describe an easy and effective RNA-seq approach using molecular barcoding to enable profiling of a large number of replicates simultaneously. This approach significantly improves the performance of differential gene expression analysis. Using this approach in medaka (Oryzias latipes), we discover novel genes with sexually dimorphic expression and genes necessary for germ cell development. Our results also demonstrate why the common practice of using only three replicates in differential gene expression analysis should be abandoned.

SUBMITTER: Li Y

PROVIDER: S-EPMC7087377 | biostudies-literature | 2020 Mar

REPOSITORIES: biostudies-literature

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Decode-seq: a practical approach to improve differential gene expression analysis.

Li Yingshu Y Yang Hang H Zhang Hujun H Liu Yongjie Y Shang Hanqiao H Zhao Herong H Zhang Ting T Tu Qiang Q

Genome biology 20200323 1

Many differential gene expression analyses are conducted with an inadequate number of biological replicates. We describe an easy and effective RNA-seq approach using molecular barcoding to enable profiling of a large number of replicates simultaneously. This approach significantly improves the performance of differential gene expression analysis. Using this approach in medaka (Oryzias latipes), we discover novel genes with sexually dimorphic expression and genes necessary for germ cell developme ...[more]

PMID: 32200760

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Decode-seq: a practical approach to improve differential gene expression analysis

Project description:It is often the case that inadequate numbers of biological replicates are utilized in differential gene expression analysis. We describe an easy and effective RNA-seq approach using molecular barcoding to enable profiling a large number of replicates simultaneously. This approach significantly improved the performance of differential gene expression analysis. Using this approach in medaka fish (Oryzias latipes), we discovered novel genes with sexually dimorphic expression, and genes necessary for germ cell development. We appeal that the common practice of using three replicates in differential gene expression analysis should be abandoned.

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Decode-seq: a practical approach to improve differential gene expression analysis

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