VarID

VarID quantifies local gene-expression variability in single-cell transcriptomes as part of the RaceID v0.1.4 suite to enhance detection of weakly expressed lineage-determining factors and resolve cell state transitions.

Key Features:

• Sensitivity to Weak Expression: Quantifies variability of weakly expressed genes within local neighborhoods to identify lineage-determining factors.
• Local Variability Quantification: Delineates regions with differential gene-expression variability across locally homogeneous neighborhoods in cell-state space.
• Pseudo-temporal Dynamics Analysis: Reveals pseudo-temporal dynamics of gene-expression variability to provide insight into differentiation pathways and transitions between cell states.

Scientific Applications:

• Cell State Transitions: Maps local variability and pseudo-temporal dynamics to analyze transitions between cell states.
• Murine Hematopoietic Progenitors and Intestinal Epithelial Cells: Applied to murine hematopoietic progenitors and intestinal epithelial cells to study differentiation and lineage specification.

Methodology:

Identifying locally homogenous neighborhoods in single-cell transcriptome space and quantifying local gene-expression variability to detect weakly expressed lineage-determining factors and map differential variability and pseudo-temporal dynamics.