A Phylogenetic Framework to Simulate Synthetic Interspecies RNA-Seq Data.

ABSTRACT: Interspecies RNA-Seq datasets are increasingly common, and have the potential to answer new questions about the evolution of gene expression. Single-species differential expression analysis is now a well-studied problem that benefits from sound statistical methods. Extensive reviews on biological or synthetic datasets have provided the community with a clear picture on the relative performances of the available methods in various settings. However, synthetic dataset simulation tools are still missing in the interspecies gene expression context. In this work, we develop and implement a new simulation framework. This tool builds on both the RNA-Seq and the phylogenetic comparative methods literatures to generate realistic count datasets, while taking into account the phylogenetic relationshi

SUBMITTER: Bastide P 

PROVIDER: S-EPMC11249980 | biostudies-literature | 2023 Jan

REPOSITORIES: biostudies-literature