ScBoolSeq: Linking scRNA-seq statistics and Boolean dynamics.

ABSTRACT: Boolean networks are largely employed to model the qualitative dynamics of cell fate processes by describing the change of binary activation states of genes and transcription factors with time. Being able to bridge such qualitative states with quantitative measurements of gene expression in cells, as scRNA-seq, is a cornerstone for data-driven model construction and validation. On one hand, scRNA-seq binarisation is a key step for inferring and validating Boolean models. On the other hand, the generation of synthetic scRNA-seq data from baseline Boolean models provides an important asset to benchmark inference methods. However, linking characteristics of scRNA-seq datasets, including dropout events, with Boolean states is a challenging task. We present scBoolSeq, a method for the bidirecti

SUBMITTER: Magana-Lopez G 

PROVIDER: S-EPMC11257695 | biostudies-literature | 2024 Jul

REPOSITORIES: biostudies-literature