Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

The Eukaryotic Promoter Region

The Eukaryotic Promoter Region

The eukaryotic promoter region is a segment of DNA located upstream of a gene. It contains an RNA polymerase binding site, a transcription start site, and several cis-regulatory sequences. The proximal promoter region is located in the vicinity of the gene and has cis-regulatory sequences and the core promoter. The core promoter is the binding site for RNA polymerase and is usually located between -35 and +35 nucleotides from the transcription start site. The distal promoter regions are...

The Eukaryotic Promoter Region

The Eukaryotic Promoter Region

The eukaryotic promoter region is a segment of DNA located upstream of a gene. It contains an RNA polymerase binding site, a transcription start site, and several cis-regulatory sequences. The proximal promoter region is located in the vicinity of the gene and has cis-regulatory sequences and the core promoter. The core promoter is the binding site for RNA polymerase and is usually located between -35 and +35 nucleotides from the transcription start site. The distal promoter regions are...

Hybridoma Technology

Hybridoma Technology

Hybridoma technology is used for the large-scale production of monoclonal antibodies. Monoclonal antibodies bind to only a single antigenic determinant or epitope. Such antibodies are used in research, diagnostics, and disease therapy. The hybridoma technology established in 1975 by Georges Köhler and Cesar Milstein was awarded the Nobel Prize in Medicine in 1984 for revolutionizing research and therapy.
Hybridoma Selection
Commonly used fusion techniques — electroporation, polyethylene glycol...

Heterochromatin

Heterochromatin

The extent of chromatin compaction can be studied by staining chromatin using specific DNA binding dyes. Under the microscope, the dense-compacted regions that take up more dye are called heterochromatin. Heterochromatin is further classified into two forms – constitutive heterochromatin and facultative heterochromatin.
Constitutive heterochromatin: It is a highly compact region of chromatin that is mostly concentrated in the centromere and telomere. Unlike euchromatin, the amino acid at 9th...

Heterochromatin

Heterochromatin

The extent of chromatin compaction can be studied by staining chromatin using specific DNA binding dyes. Under the microscope, the dense-compacted regions that take up more dye are called heterochromatin. Heterochromatin is further classified into two forms – constitutive heterochromatin and facultative heterochromatin.
Constitutive heterochromatin: It is a highly compact region of chromatin that is mostly concentrated in the centromere and telomere. Unlike euchromatin, the amino acid at 9th...

DNA Microarrays

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by

Same author

Deciphering key factors of active learning performance in biomolecular design.

Bioinformatics (Oxford, England)·2026

Same author

Molecular Modeling of Weakly Caking Coal and the CO<sub>2</sub> Inhibition Mechanism of Coal-Oxygen Complexation.

Molecules (Basel, Switzerland)·2026

Same author

Self-inconsistency and attachment insecurity mediate and moderate the association between anxiety and reasons for living in Chinese college students.

Scientific reports·2026

Same author

Deep learning unlocks sequence-divergent synthetic promoters to empower Streptomyces natural product engineering.

Metabolic engineering·2026

Same author

Creep Characteristics and Damage Constitutive Model of White Sandstone Under Short-Term Freeze-Thaw Cycles.

Materials (Basel, Switzerland)·2026

Same author

Macromolecular Model Construction and Pore Structure Distribution of Coals with Different Ranks.

Molecules (Basel, Switzerland)·2026

Search research articles

Related Experiment Video

Updated: Jun 28, 2026

Promoter Capture Hi-C: High-resolution, Genome-wide Profiling of Promoter Interactions

Promoter Capture Hi-C: High-resolution, Genome-wide Profiling of Promoter Interactions

Published on: June 28, 2018

High-resolution human core-promoter prediction with CoreBoost_HM.

Xiaowo Wang¹, Zhenyu Xuan, Xiaoyue Zhao

¹MOE Key Laboratory of Bioinformatics and Bioinformatics Division, TNLIST/Department of Automation, Tsinghua University, Beijing 100084, China.

Genome Research

|November 11, 2008

Summary

Accurately predicting gene core-promoters is crucial for understanding gene regulation. A new method, CoreBoost_HM, integrates histone modifications and DNA sequences to outperform existing tools in identifying RNA polymerase II core-promoters.

More Related Videos

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

An Integrated Workflow to Study the Promoter-Centric Spatio-Temporal Genome Architecture in Scarce Cell Populations

An Integrated Workflow to Study the Promoter-Centric Spatio-Temporal Genome Architecture in Scarce Cell Populations

Published on: April 21, 2023

Related Experiment Videos

Last Updated: Jun 28, 2026

Promoter Capture Hi-C: High-resolution, Genome-wide Profiling of Promoter Interactions

Promoter Capture Hi-C: High-resolution, Genome-wide Profiling of Promoter Interactions

Published on: June 28, 2018

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

An Integrated Workflow to Study the Promoter-Centric Spatio-Temporal Genome Architecture in Scarce Cell Populations

An Integrated Workflow to Study the Promoter-Centric Spatio-Temporal Genome Architecture in Scarce Cell Populations

Published on: April 21, 2023

Area of Science:

Genomics
Molecular Biology
Bioinformatics

Background:

Accurate identification of gene transcription start sites and core-promoters is essential for understanding transcriptional regulation.
Existing promoter prediction algorithms have limitations in sensitivity and specificity.

Purpose of the Study:

To develop a novel computational method for predicting RNA polymerase II core-promoters in the human genome.
To integrate genome-wide histone modification and DNA sequence features for improved promoter prediction.

Main Methods:

Developed CoreBoost_HM, a predictor that combines histone modification data and DNA sequence features.
Evaluated CoreBoost_HM's performance against existing promoter prediction algorithms.
Applied the method to identify promoters of microRNA genes.

Main Results:

CoreBoost_HM significantly outperforms existing algorithms in sensitivity and specificity for high-resolution core-promoter prediction.
The method successfully identifies both active and repressed promoters, even with cell-type-specific histone modification data.
CoreBoost_HM accurately identified known promoters of intergenic microRNAs and suggested novel promoters for intronic microRNAs.

Conclusions:

CoreBoost_HM offers a powerful new tool for accurate core-promoter identification in the human genome.
The method is applicable to both coding and noncoding genes, including microRNAs.
This approach aids in characterizing regulatory elements and understanding gene expression mechanisms.