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

Coordination of Gene Expression Processes in Bacteria01:29

Coordination of Gene Expression Processes in Bacteria

643
The DNA replication, transcription, and translation processes are intricately coupled in bacteria, allowing efficient gene expression and rapid protein synthesis. While this physical and functional coordination is advantageous, it introduces challenges that bacteria overcome through specific regulatory mechanisms.Coupling of Replication, Transcription, and TranslationThe coupling of replication, transcription, and translation is a hallmark of bacterial gene expression. As the replisome unwinds...
643
Chromatin Position Affects Gene Expression02:35

Chromatin Position Affects Gene Expression

24.8K
Chromatin is the massive complex of DNA and proteins packaged inside the nucleus. The complexity of chromatin folding and how it is packaged inside the nucleus greatly influences  access to genetic information. Generally, the nucleus' periphery is considered transcriptionally repressive, while the cell's interior is considered a transcriptionally active area. 
Topologically Associated Domains (TADs)
The 3-dimensional positioning of chromatin in the nucleus influences the...
24.8K
What is Gene Expression?01:42

What is Gene Expression?

196.5K
Overview
Gene expression is the process in which DNA directs the synthesis of functional products, that is, proteins. Cells can regulate gene expression at various stages. It allows organisms to generate different cell types and enables cells to adapt to internal and external factors.
Genetic Information Flows from DNA to RNA to Protein
A gene is a stretch of DNA that serves as the blueprint for functional RNAs and proteins. Since DNA is made up of nucleotides and proteins consist of amino...
196.5K
What is Gene Expression?01:36

What is Gene Expression?

11.4K
A gene is a stretch of DNA that serves as the blueprint for functional RNAs and proteins. Since DNA is comprised  of nucleotides and proteins are comprised of amino acids, a mediator is required to convert the information encoded in DNA into proteins. This mediator is the messenger RNA (mRNA). mRNA copies the blueprint from DNA by a process called transcription. In eukaryotes, transcription occurs in the nucleus by complementary base-pairing with the DNA template. The mRNA is then...
11.4K
Cell Specific Gene Expression01:58

Cell Specific Gene Expression

16.5K
Multicellular organisms contain a variety of structurally and functionally distinct cell types, but the DNA in all the cells originated from the same parent cells. The differences in the cells can be attributed to the differential gene expression. Liver cells, whose functions include detoxification of blood, production of bile to metabolize fats, and synthesis of proteins essential for metabolism, must express a specific set of genes to perform their functions. Gene expression also varies with...
16.5K
Cis-regulatory Sequences02:02

Cis-regulatory Sequences

11.8K
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...
11.8K

You might also read

Related Articles

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

Sort by
Same author

Dual-site <i>N</i>-oxidation engineering enables modulated polarization in covalent organic frameworks for efficient photocatalytic N<sub>2</sub> reduction.

Chemical communications (Cambridge, England)·2026
Same author

Longitudinal single-cell and TCR repertoire profiling characterizes clonal entrapment in patients with pMMR/MSS locally advanced rectal cancer.

Cell discovery·2026
Same author

Simulating High-Altitude Hypoxic Conditions Delays Wound Healing In Rats.

Journal of visualized experiments : JoVE·2026
Same author

Flexible bioelectronic sensors promote the advancement of wearable ultrasound technology in the medicine.

Microsystems & nanoengineering·2026
Same author

Recent advances in characterizing the immune microenvironment and biomarkers of endometrial carcinoma.

Frontiers in immunology·2026
Same author

Multi-Axis Stretchable Zippers for Personalized Wound Healing.

Advanced science (Weinheim, Baden-Wurttemberg, Germany)·2026
Same journal

Development of whole-limb skeletal patterning through the coordination of growth and self-organization models.

PLoS computational biology·2026
Same journal

The energetic cost of human standing balance and gait initiation over a range of natural postures.

PLoS computational biology·2026
Same journal

Combinatorial multiomic analysis from a pedigree of Sox10Dom Hirschsprung mice identifies multiple high confidence candidate modifiers of Enteric Nervous System development.

PLoS computational biology·2026
Same journal

Extracting host-specific developmental signatures from longitudinal microbiome data.

PLoS computational biology·2026
Same journal

Population sparseness determines strength of Hebbian plasticity for maximal memory lifetime in associative networks.

PLoS computational biology·2026
Same journal

Predictive coding explains asymmetric connectivity in the brain: A neural network study.

PLoS computational biology·2026
See all related articles

Related Experiment Video

Updated: Jan 28, 2026

Prediction and Validation of Gene Regulatory Elements Activated During Retinoic Acid Induced Embryonic Stem Cell Differentiation
09:07

Prediction and Validation of Gene Regulatory Elements Activated During Retinoic Acid Induced Embryonic Stem Cell Differentiation

Published on: June 21, 2016

8.6K

Spatial clustering and common regulatory elements correlate with coordinated gene expression.

Jingyu Zhang1,2, Hengyu Chen1, Ruoyan Li1

  • 1Biomedical Pioneering Innovation Center (BIOPIC), School of Life Sciences, Peking University, Beijing, China.

Plos Computational Biology
|March 2, 2019
PubMed
Summary
This summary is machine-generated.

Genes with similar functions are spatially clustered in the genome, even when far apart linearly. This 3D genome organization may help coordinate gene expression for cellular responses.

More Related Videos

Spatial Separation of Molecular Conformers and Clusters
10:37

Spatial Separation of Molecular Conformers and Clusters

Published on: January 9, 2014

11.8K
Using an Automated Cell Counter to Simplify Gene Expression Studies: siRNA Knockdown of IL-4 Dependent Gene Expression in Namalwa Cells
10:34

Using an Automated Cell Counter to Simplify Gene Expression Studies: siRNA Knockdown of IL-4 Dependent Gene Expression in Namalwa Cells

Published on: April 14, 2010

16.0K

Related Experiment Videos

Last Updated: Jan 28, 2026

Prediction and Validation of Gene Regulatory Elements Activated During Retinoic Acid Induced Embryonic Stem Cell Differentiation
09:07

Prediction and Validation of Gene Regulatory Elements Activated During Retinoic Acid Induced Embryonic Stem Cell Differentiation

Published on: June 21, 2016

8.6K
Spatial Separation of Molecular Conformers and Clusters
10:37

Spatial Separation of Molecular Conformers and Clusters

Published on: January 9, 2014

11.8K
Using an Automated Cell Counter to Simplify Gene Expression Studies: siRNA Knockdown of IL-4 Dependent Gene Expression in Namalwa Cells
10:34

Using an Automated Cell Counter to Simplify Gene Expression Studies: siRNA Knockdown of IL-4 Dependent Gene Expression in Namalwa Cells

Published on: April 14, 2010

16.0K

Area of Science:

  • Genomics and Molecular Biology
  • Epigenetics and Chromosome Organization
  • Systems Biology

Background:

  • Coordinated gene expression is crucial for cellular responses.
  • Eukaryotic gene regulation involves transcription factors, epigenetics, and 3D chromosome structure.
  • Understanding the interplay between local gene environment and transcription factor regulation is key.

Purpose of the Study:

  • To investigate the coupling of local gene environment and transcription factor regulation in eukaryotic cells.
  • To determine if genes with similar temporal expression patterns are spatially organized within the genome.

Main Methods:

  • Combined analysis of time-course RNA-seq, epigenomic, and Hi-C data from TGF-β treated MCF10A cells.
  • Utilized Dynamic Regulatory Events Miner (DREM) to cluster differentially expressed genes based on expression profiles and transcription factors.
  • Applied statistical physics-based distribution functions to measure spatial and linear gene distributions.

Main Results:

  • Genes with similar temporal expression patterns and shared transcription factors formed distinct clusters.
  • Genes within the same functional class exhibited a significantly higher tendency to be spatially close in 3D genome space, irrespective of linear genomic distance.
  • Similar spatial organization patterns were observed in mouse nervous system development data.

Conclusions:

  • Genes with coordinated expression are spatially organized in the three-dimensional genome.
  • This spatial clustering suggests a mechanism for achieving concerted gene expression.
  • Future research should explore the functional role of this chromosome spatial organization in gene regulation.