CisTopic: cis-regulatory topic modelling on single-cell ATAC-seq data

ABSTRACT: We present cisTopic, a probabilistic framework to simultaneously discover co-accessible enhancers and stable cell states from sparse single-cell epigenomics data (http://github.com/aertslab/cistopic). On a compendium of single-cell ATAC-seq datasets from differentiating hematopoietic cells, brain, and transcription-factor perturbation dynamics, we demonstrate that topic modelling can be exploited for a robust identification of cell types, enhancers, and relevant transcription factors. cisTopic provides insight into the mechanisms underlying regulatory heterogeneity within cell populations.

ORGANISM(S): Homo sapiens

PROVIDER: GSE114557 | GEO | 2019/02/18

REPOSITORIES: GEO