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xmuhuanglab / eNet

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eNet: an algorithm to build enhancer networks based on scATAC-seq and scRNA-seq data

Introduction

eNet is an algorithm designed to integrate single-cell chromatin accessibility and gene expression profiles and build enhancer networks, delineating how multiple enhancers interact with each other in gene regulation.

Workflow

image See https://github.com/xmuhuanglab/eNet/blob/main/R/README.md for more detailed tutorial.

How to cite eNet

  1. Hong D, Lin H, Liu L, et al. Complexity of enhancer networks predicts cell identity and disease genes revealed by single-cell multi-omics analysis [published online ahead of print, 2022 Dec 3]. Brief Bioinform. 2022;bbac508. doi:10.1093/bib/bbac508
  2. Shu M, Hong D, Lin H, et al. Single-cell chromatin accessibility identifies enhancer networks driving gene expression during spinal cord development in mouse [published online ahead of print, 2022 Dec 2]. Dev Cell. 2022;S1534-5807(22)00811-5. doi:10.1016/j.devcel.2022.11.011