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Related Experiment Video

Updated: Apr 4, 2026

A Web-Based Workflow for Selecting Gene- and Tissue-Specific Enhancers

A Web-Based Workflow for Selecting Gene- and Tissue-Specific Enhancers

Published on: July 18, 2025

DENdb: database of integrated human enhancers.

Haitham Ashoor¹, Dimitrios Kleftogiannis², Aleksandar Radovanovic¹

¹Computational Bioscience Research Center (CBRC), Computer, Electrical and Mathematical Sciences and Engineering Division (CEMSE) and.

Database : the Journal of Biological Databases and Curation

|September 7, 2015

Summary

We created DENdb, a database of predicted gene enhancers from human cells. This resource aids in understanding gene regulation by integrating multiple prediction methods and functional data.

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Area of Science:

Genomics
Molecular Biology
Bioinformatics

Background:

Enhancers are crucial cis-acting DNA elements regulating gene transcription.
Understanding enhancer function is key to deciphering complex gene regulation.

Purpose of the Study:

To develop DENdb, a centralized online repository for predicted human enhancers.
To integrate enhancers predicted by multiple computational methods for a comprehensive catalog.

Main Methods:

Developed DENdb, a relational database.
Integrated enhancers predicted by five different computational methods.
Incorporated data on DNase I hypersensitive regions, transcription factor binding, and chromatin interactions.

Main Results:

Created an enriched catalog of putative enhancers across multiple human cell lines.
DENdb facilitates searching, browsing, and visualization of enhancer data.
Provides integrated information on enhancer genomic context and interactions.

Conclusions:

DENdb serves as a valuable resource for enhancer research.
Facilitates deeper understanding of gene transcription and regulation.
Supports functional analysis of enhancers and their roles in cellular processes.