Super-delta2: an enhanced differential expression analysis procedure for multi-group comparisons of RNA-seq data.

ABSTRACT:

Motivation

We developed super-delta2, a differential gene expression analysis pipeline designed for multi-group comparisons for RNA-seq data. It includes a customized one-way ANOVA F-test and a post-hoc test for pairwise group comparisons; both are designed to work with a multivariate normalization procedure to reduce technical noise. It also includes a trimming procedure with bias-correction to obtain robust and approximately unbiased summary statistics used in these tests. We demonstrated the asymptotic applicability of super-delta2 to log-transformed read counts in RNA-seq data by large sample theory based on Negative Binomial Poisson (NBP) distribution.

Results

We compared super-delta2 with three commonly used RNA-seq data analysis methods: limma/voom, edgeR and DESeq2 u

SUBMITTER: Cui Z 

PROVIDER: S-EPMC12536915 | biostudies-literature | 2021 Sep

REPOSITORIES: biostudies-literature