Replicability of bulk RNA-Seq differential expression and enrichment analysis results for small cohort sizes.

ABSTRACT: The high-dimensional and heterogeneous nature of transcriptomics data from RNA sequencing (RNA-Seq) experiments poses a challenge to routine downstream analysis steps, such as differential expression analysis and enrichment analysis. Additionally, due to practical and financial constraints, RNA-Seq experiments are often limited to a small number of biological replicates. In light of recent studies on the low replicability of preclinical cancer research, it is essential to understand how the combination of population heterogeneity and underpowered cohort sizes affects the replicability of RNA-Seq research. Using 18'000 subsampled RNA-Seq experiments based on real gene expression data from 18 different data sets, we find that differential expression and enrichment analysis results from under

SUBMITTER: Degen PM 

PROVIDER: S-EPMC12077797 | biostudies-literature | 2025 May

REPOSITORIES: biostudies-literature