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Cis-regulatory Sequences

Cis-regulatory Sequences

Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...

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Related Experiment Video

Updated: Aug 11, 2025

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline

Published on: December 7, 2021

scGREAT: Graph-based regulatory element analysis tool for single-cell multi-omics data.

Chaozhong Liu¹, Linhua Wang¹, Zhandong Liu^2,3

¹Graduate Program in Quantitative and Computational Biosciences, Baylor College of Medicine, Houston, USA.

Biorxiv : the Preprint Server for Biology

|February 7, 2023

Summary

This summary is machine-generated.

scGREAT is a new Python package for single-cell multi-omics analysis. It effectively dissects cellular heterogeneity in regulatory events, identifying specific gene-peak interactions and improving data interpretation.

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Last Updated: Aug 11, 2025

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Published on: December 7, 2021

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High-throughput Identification of Gene Regulatory Sequences Using Next-generation Sequencing of Circular Chromosome Conformation Capture 4C-seq

High-throughput Identification of Gene Regulatory Sequences Using Next-generation Sequencing of Circular Chromosome Conformation Capture 4C-seq

Published on: October 5, 2018

Area of Science:

Genomics
Bioinformatics
Computational Biology

Background:

The advent of single-cell multi-omics sequencing necessitates advanced algorithms for data integration and analysis.
Existing multi-omics analysis methods struggle to systematically address cellular heterogeneity when inferring cis-regulatory events.
There is a critical need for cis-regulatory element inference algorithms that explicitly account for cellular heterogeneity.

Conclusions:

scGREAT provides a robust framework for dissecting cellular heterogeneity in single-cell multi-omics data.
The package facilitates the identification of regulatory mechanisms and gene-regulatory element interactions at single-cell resolution.
scGREAT enhances the interpretation of complex biological systems by accurately inferring regulatory states and relationships.