A comparison of strategies for generating artificial replicates in RNA-seq experiments.

ABSTRACT: Due to the overall high costs, technical replicates are usually omitted in RNA-seq experiments, but several methods exist to generate them artificially. Bootstrapping reads from FASTQ-files has recently been used in the context of other NGS analyses and can be used to generate artificial technical replicates. Bootstrapping samples from the columns of the expression matrix has already been used for DNA microarray data and generates a new artificial replicate of the whole experiment. Mixing data of individual samples has been used for data augmentation in machine learning. The aim of this comparison is to evaluate which of these strategies are best suited to study the reproducibility of differential expression and gene-set enrichment analysis in an RNA-seq experiment. To study the approaches

SUBMITTER: Saremi B 

PROVIDER: S-EPMC9065086 | biostudies-literature | 2022 May

REPOSITORIES: biostudies-literature