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

131
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...
131
Genomic DNA in Eukaryotes00:58

Genomic DNA in Eukaryotes

47.5K
Eukaryotes have large genomes compared to prokaryotes. To fit their genomes into a cell, eukaryotic DNA is packaged extraordinarily tightly inside the nucleus. To achieve this, DNA is tightly wound around proteins called histones, which are packaged into nucleosomes that are joined by linker DNA and coil into chromatin fibers. Additional fibrous proteins further compact the chromatin, which is recognizable as chromosomes during certain phases of cell division.
47.5K
DNA Microarrays02:34

DNA Microarrays

18.3K
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...
18.3K
Ribosome Profiling02:24

Ribosome Profiling

3.6K
Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
3.6K
Chromatin Position Affects Gene Expression02:35

Chromatin Position Affects Gene Expression

23.6K
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...
23.6K
Epistasis Analysis01:09

Epistasis Analysis

5.1K
Although Mendel chose seven unrelated traits in peas to study gene segregation, most traits involve multiple gene interactions that create a spectrum of phenotypes. When the interaction of various genes or alleles at different locations influences a phenotype, this is called epistasis. Epistasis often involves one gene masking or interfering with the expression of another (antagonistic epistasis). Epistasis often occurs when different genes are part of the same biochemical pathway. The...
5.1K

You might also read

Related Articles

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

Sort by
Same author

Upper Limbs Movement Frequency: Connection to Swimming Performance and Kinematics.

Journal of functional morphology and kinesiology·2026
Same author

Cyclotrimerization Polymers as Precursors for Tailored Porous Carbons and Application in Supercapacitors.

ChemistryOpen·2026
Same author

Topological metal-insulator transition within the ferromagnetic state.

Nature communications·2026
Same author

Exploring Gene Expression Patterns in Alzheimer's Disease Using a Human Microarray Data Meta-Analysis.

Biology·2026
Same author

Surgical Repair as a Reference Standard in Degenerative Mitral Regurgitation: Benchmarks, Not Battles.

Journal of the American College of Cardiology·2026
Same author

The pivotal role of echocardiography in structural heart interventions: from planning to success.

Therapeutic advances in cardiovascular disease·2026
Same journal

Spatial Heterogeneity of Phytoplankton Taxa and Functional Groups Under Multidimensional Environmental Factors in Karst Urban Rivers.

Biology·2026
Same journal

Paleopathology of a Lower Miocene Carettochelyid Turtle from the Moghra Formation, Egypt.

Biology·2026
Same journal

Effects of Type I Diabetes Mellitus and Masticatory Loading on Mandibular Growth in Growing Rats: A Longitudinal CBCT Study.

Biology·2026
Same journal

Data-Limited Stock Status Assessment of Bonga Shad, <i>Ethmalosa fimbriata</i> (Bowdich, 1825) and Lesser African Threadfin, <i>Galeoides decadactylus</i> (Bloch, 1795) in the Central Gulf of Guinea.

Biology·2026
Same journal

Gonadogenesis in the Bearded Dragon (<i>Pogona vitticeps</i>, Agamidae): A Comprehensive Histological Analysis from Gonadal Ridge Formation to Testicular and Ovarian Development.

Biology·2026
Same journal

The Programmable Microbiome: Integrative AI and Multi-Omics Frameworks for Precision T2DM Management.

Biology·2026
See all related articles

Related Experiment Video

Updated: Aug 28, 2025

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress
05:22

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress

Published on: July 29, 2022

3.6K

Approaches in Gene Coexpression Analysis in Eukaryotes.

Vasileios L Zogopoulos1,2, Georgia Saxami1,3, Apostolos Malatras4

  • 1Centre of Systems Biology, Biomedical Research Foundation, Academy of Athens, 11527 Athens, Greece.

Biology
|September 14, 2022
PubMed
Summary
This summary is machine-generated.

This review details gene coexpression analysis, a method for identifying gene partners and functions. It covers data collection, network construction, and available tools for eukaryotic organisms.

Keywords:
RNA-Seqgene coexpression networksmicroarrayssystems biologytranscriptomicswebtool

More Related Videos

High-Throughput Transcriptome Analysis for Investigating Host-Pathogen Interactions
14:58

High-Throughput Transcriptome Analysis for Investigating Host-Pathogen Interactions

Published on: March 5, 2022

4.4K
Pulldown Assay Coupled with Co-Expression in Bacteria Cells as a Time-Efficient Tool for Testing Challenging Protein-Protein Interactions
07:03

Pulldown Assay Coupled with Co-Expression in Bacteria Cells as a Time-Efficient Tool for Testing Challenging Protein-Protein Interactions

Published on: December 23, 2022

3.0K

Related Experiment Videos

Last Updated: Aug 28, 2025

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress
05:22

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress

Published on: July 29, 2022

3.6K
High-Throughput Transcriptome Analysis for Investigating Host-Pathogen Interactions
14:58

High-Throughput Transcriptome Analysis for Investigating Host-Pathogen Interactions

Published on: March 5, 2022

4.4K
Pulldown Assay Coupled with Co-Expression in Bacteria Cells as a Time-Efficient Tool for Testing Challenging Protein-Protein Interactions
07:03

Pulldown Assay Coupled with Co-Expression in Bacteria Cells as a Time-Efficient Tool for Testing Challenging Protein-Protein Interactions

Published on: December 23, 2022

3.0K

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Systems Biology

Background:

  • Gene coexpression analysis is crucial for identifying gene interactions and predicting functions.
  • This process involves transcriptomic data preprocessing, gene similarity calculation, and network construction.

Purpose of the Study:

  • To provide a comprehensive guide to performing gene coexpression analysis in eukaryotes.
  • To discuss best practices, compare RNA-Seq and microarrays, and review available bioinformatics tools.

Main Methods:

  • Transcriptomic data collection and preprocessing.
  • Gene similarity calculation and gene coexpression network (GCN) construction.
  • Biological term enrichment analysis for GCN evaluation.

Main Results:

  • A clear methodology for gene coexpression analysis is presented.
  • Comparison of RNA-Seq and microarray data for coexpression studies.
  • An overview of popular web tools and standalone applications for gene coexpression analysis.

Conclusions:

  • Gene coexpression analysis is a complex but powerful technique for biological insights.
  • The review offers practical guidance and tool recommendations for researchers.
  • Standardized approaches and accessible tools enhance the utility of gene coexpression networks.