bio-gene-regulatory-networks-multiomics-grn

What problem does it solve?

Build cis-regulatory gene networks by integrating single-cell RNA-seq and ATAC-seq data to identify eRegulons with SCENIC+ and analyze enhancer-linked regulatory programs across cell types.

Core Features & Use Cases

• Integrates paired scRNA-seq and scATAC-seq data to infer eRegulons (TF–enhancer–gene triplets) using SCENIC+.
• Utilizes cisTopic for ATAC topic modeling and region-to-gene linking to reveal cis-regulatory programs.
• Generates eRegulon activity scores and supports downstream visualization and interpretation across cell types.
• Typical workflow: preprocess data, call peaks with MACS3, run SCENIC+ pipeline, and interpret TF–enhancer–gene links.

Quick Start

Run SCENIC+ on paired scRNA-seq and scATAC-seq data to identify eRegulons and explore TF–enhancer–gene links.