Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Mouse Models of Cancer Study02:43

Mouse Models of Cancer Study

Mice have long served as models for studying human biology and pathology because of their phylogenetic and physiological similarity with humans. They are also easy to maintain and breed in the laboratory, and hence, many inbred strains are now available for research. Studies on mice have contributed immeasurably to our understanding of cancer biology.
The development of transgenic, knockout, and knock-in mice has led to an exponential increase in their use as model organisms in research,...
General Transcription Factors01:30

General Transcription Factors

Tissue-specific transcription factors contribute to diverse cellular functions in mammals. For example, the gene for beta globin, a major component of hemoglobin, is present in all cells of the body. However, it is only expressed in red blood cells because the transcription factors that can bind to the promoter sequences of the beta globin gene are only expressed in these cells. Tissue-specific transcription factors also ensure that mutations in these factors may impair only the function of...
The Eukaryotic Promoter Region02:40

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...

You might also read

Related Articles

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

Sort by
Same author

SpliceSelectNet: a hierarchical Transformer-based deep learning model for splice site prediction.

Nucleic acids research·2026
Same author

PhenoNMF: A novel multi-layer matrix factorization framework for age-stratified comprehensive phenotypic similarity analysis.

BMC medical informatics and decision making·2026
Same author

Regnase-1-mediated regulation of neutrophils modulates SARS-CoV-2 pneumonia.

PLoS pathogens·2026
Same author

Toward Graph-Based Decoding of Tumor Evolution: Spatial Inference of Copy Number Variations.

Diagnostics (Basel, Switzerland)·2025
Same author

Establishing the Asia & Pacific Bioinformatics Joint Congress: a historic milestone in regional bioinformatics collaboration.

Briefings in bioinformatics·2025
Same author

DeepSpaceDB: a spatial transcriptomics atlas for interactive in-depth analysis of tissues and tissue microenvironments.

Nucleic acids research·2025
Same journal

Correction to 'New origin firing is inhibited by APC/CCdh1 activation in S-phase after severe replication stress'.

Nucleic acids research·2026
Same journal

VeloRM: disentangling pre- and post-splicing RNA modification dynamics at single-cell resolution.

Nucleic acids research·2026
Same journal

Accessibility of telomeric overhangs to stabilizing small-molecule ligands.

Nucleic acids research·2026
Same journal

Multivalent interactions mediate SNAIL transcription factor stimulation of the nucleosome deacetylase activity of the CoREST complex.

Nucleic acids research·2026
Same journal

Genome-wide mapping of DNA G-quadruplexes in Trypanosoma brucei chromatin reveals enrichment in coding regions and transcription start sites.

Nucleic acids research·2026
Same journal

Correction to 'The Gene Ontology knowledgebase in 2026'.

Nucleic acids research·2026
See all related articles

Related Experiment Video

Updated: Jun 19, 2026

Chromatin Immunoprecipitation Assay for Tissue-specific Genes using Early-stage Mouse Embryos
11:02

Chromatin Immunoprecipitation Assay for Tissue-specific Genes using Early-stage Mouse Embryos

Published on: April 29, 2011

Modeling tissue-specific structural patterns in human and mouse promoters.

Alexis Vandenbon1, Kenta Nakai

  • 1Department of Medical Genome Sciences, Graduate School of Frontier Sciences, University of Tokyo, Tokyo, Japan.

Nucleic Acids Research
|October 24, 2009
PubMed
Summary
This summary is machine-generated.

This study reveals that promoter structural patterns in genes are conserved across human and mouse tissues. These patterns, identified using promoter structure models, can predict gene regulation and are shared between related tissues.

More Related Videos

A Web-Based Workflow for Selecting Gene- and Tissue-Specific Enhancers
08:12

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
11:36

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 19, 2026

Chromatin Immunoprecipitation Assay for Tissue-specific Genes using Early-stage Mouse Embryos
11:02

Chromatin Immunoprecipitation Assay for Tissue-specific Genes using Early-stage Mouse Embryos

Published on: April 29, 2011

A Web-Based Workflow for Selecting Gene- and Tissue-Specific Enhancers
08:12

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
11:36

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
  • Bioinformatics
  • Molecular Biology

Background:

  • Genes expressed in the same tissue often share regulatory transcription factors.
  • This suggests similar structural patterns exist within their promoter regions.

Purpose of the Study:

  • To investigate structural patterns in promoters of tissue-specific genes.
  • To develop and validate promoter structure models for human and mouse tissues.

Main Methods:

  • Constructed promoter structure models for 26 human and 34 mouse tissues.
  • Incorporated motif presence, position relative to the transcription start site, and pairwise motif positioning.
  • Evaluated model performance in distinguishing positive and control promoter sequences.

Main Results:

  • 58% of the 60 models significantly distinguished true promoters from controls.
  • High-performing models were developed for liver, skeletal muscle, kidney, and tongue.
  • Identified conserved structural patterns between human and mouse promoters.
  • Related tissues exhibited high inter-tissue model performance, indicating shared promoter structures.

Conclusions:

  • The developed promoter structure models are valid and effective.
  • Promoter structures are conserved across species and shared among related tissues.
  • Tissue-specific promoter complexity varies, impacting model predictability.