ScKINETICS: inference of regulatory velocity with single-cell transcriptomics data.

ABSTRACT:

Motivation

Transcriptional dynamics are governed by the action of regulatory proteins and are fundamental to systems ranging from normal development to disease. RNA velocity methods for tracking phenotypic dynamics ignore information on the regulatory drivers of gene expression variability through time.

Results

We introduce scKINETICS (Key regulatory Interaction NETwork for Inferring Cell Speed), a dynamical model of gene expression change which is fit with the simultaneous learning of per-cell transcriptional velocities and a governing gene regulatory network. Fitting is accomplished through an expectation-maximization approach designed to learn the impact of each regulator on its target genes, leveraging biologically motivated priors from epigenetic data, gene-gene coexpre

SUBMITTER: Burdziak C 

PROVIDER: S-EPMC10311321 | biostudies-literature | 2023 Jun

REPOSITORIES: biostudies-literature