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

Ribosome Profiling02:24

Ribosome Profiling

3.5K
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...
3.5K
DNA Microarrays02:34

DNA Microarrays

17.2K
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...
17.2K
Cell Specific Gene Expression01:58

Cell Specific Gene Expression

13.5K
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...
13.5K
Reporter Genes02:11

Reporter Genes

11.3K
Reporter genes are a type of protein-coding gene that are often tagged to a gene of interest. Once inside a target cell, reporter genes usually produce visually identifiable characteristics like fluorescence and luminescence when expressed along with the gene of interest. Thus, reporter genes “report” the presence or absence of genes of interest in an organism, determine the gene expression pattern, or track the physical location of a DNA segment or protein in the cell.
11.3K
Regulation of Expression at Multiple Steps01:23

Regulation of Expression at Multiple Steps

875
The gene expression in cells is regulated at different stages: (i) transcription, (ii) RNA processing, (iii) RNA localization, and (iv) translation. Transcriptional regulation is mediated by regulatory proteins such as transcription factors, activators, or repressors—these control gene expression by initiating or inhibiting the transcription of genes. Once a precursor or pre-mRNA is produced, it undergoes post-transcriptional modification, including 5' capping, splicing, and the...
875
Regulation of Expression Occurs at Multiple Steps02:24

Regulation of Expression Occurs at Multiple Steps

3.0K
3.0K

You might also read

Related Articles

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

Sort by
Same author

Longitudinal magnetic resonance spectroscopy study of metabolite changes over 2 years in relapsing and primary progressive multiple sclerosis treated with ocrelizumab.

Multiple sclerosis (Houndmills, Basingstoke, England)·2026
Same author

Cluster replicability in single-cell and single-nucleus atlases of the mouse brain.

Nature communications·2026
Same author

Disruption of major Ptchd1 isoforms causes autistic traits in social behavior and communication.

Molecular psychiatry·2026
Same author

Carrying the weight in silence: lived realities of epilepsy caregivers in Shai Osudoku and Ningo Prampram.

Epilepsy & behavior : E&B·2026
Same author

On the state of protein function prediction: a report on the fourth CAFA challenge.

bioRxiv : the preprint server for biology·2026
Same author

HLA genotype testing for carbamazepine, oxcarbazepine and eslicarbazepine: A guideline developed by the UK Centre of Excellence in Regulatory Science and Innovation in Pharmacogenomics (CERSI-PGx).

British journal of clinical pharmacology·2026
Same journal

A human-specific genetic modifier reconfigures large-scale cortical network dynamics underlying behavioral performance.

bioRxiv : the preprint server for biology·2026
Same journal

<i>Staphylococcus aureus</i> uses a eukaryotic-like uridyltransferase to make UDP-GlcNAc for cell wall synthesis.

bioRxiv : the preprint server for biology·2026
Same journal

Dynamic redistribution of eIF4F controls cap-dependent translation initiation.

bioRxiv : the preprint server for biology·2026
Same journal

When does additional information improve accuracy of RNA secondary structure prediction?

bioRxiv : the preprint server for biology·2026
Same journal

Normative brain-state trajectories reveal deviation from healthy aging in Alzheimer's disease.

bioRxiv : the preprint server for biology·2026
Same journal

Noradrenergic infraslow rhythm during sleep is the critical link between heart-rate dynamics and memory consolidation.

bioRxiv : the preprint server for biology·2026
See all related articles

Related Experiment Video

Updated: Jun 11, 2025

Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection
09:19

Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection

Published on: July 6, 2022

4.9K

Cross-expression meta-analysis of 695 brain samples reveals coordinated gene expression across spatially adjacent

Ameer Sarwar1, Mara Rue2, Leon French3

  • 1Department of Cell and Systems Biology and Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, ON, Canada.

Biorxiv : the Preprint Server for Biology
|September 30, 2024
PubMed
Summary
This summary is machine-generated.

We developed cross-expression to analyze gene coordination between neighboring cells in spatial transcriptomics. This method reveals how cells communicate and form tissue expression programs at single-cell resolution.

Keywords:
cell-neighbor relationscross-expressiongene expression coordinationmeta-analytic networkspatial signalingspatial transcriptomics

More Related Videos

Spatially Compact Arrangement of Larval Zebrafish Sections for Spatial Transcriptomic Analysis
07:40

Spatially Compact Arrangement of Larval Zebrafish Sections for Spatial Transcriptomic Analysis

Published on: May 16, 2025

110
Temporal Ordering of Dynamic Expression Data from Detailed Spatial Expression Maps
11:52

Temporal Ordering of Dynamic Expression Data from Detailed Spatial Expression Maps

Published on: February 9, 2017

5.9K

Related Experiment Videos

Last Updated: Jun 11, 2025

Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection
09:19

Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection

Published on: July 6, 2022

4.9K
Spatially Compact Arrangement of Larval Zebrafish Sections for Spatial Transcriptomic Analysis
07:40

Spatially Compact Arrangement of Larval Zebrafish Sections for Spatial Transcriptomic Analysis

Published on: May 16, 2025

110
Temporal Ordering of Dynamic Expression Data from Detailed Spatial Expression Maps
11:52

Temporal Ordering of Dynamic Expression Data from Detailed Spatial Expression Maps

Published on: February 9, 2017

5.9K

Area of Science:

  • Molecular Biology
  • Genomics
  • Bioinformatics

Background:

  • Spatial transcriptomics enables in situ molecular profiling of cells.
  • Understanding gene expression coordination between neighboring cells is crucial for tissue biology.
  • Existing methods like co-expression analyze gene activity within single cells.

Purpose of the Study:

  • Introduce a novel framework, cross-expression, to discover gene pairs coordinating expression across adjacent cells.
  • Analyze spatial gene expression programs with single-cell resolution.
  • Develop computational tools for cross-expression analysis.

Main Methods:

  • Developed the cross-expression framework to quantify coordinated gene expression between neighboring cells.
  • Constructed cross-expression networks to identify gene modules with synchronized activity.
  • Created an R package for efficient cross-expression analysis, effect size quantification, and visualization.

Main Results:

  • Successfully identified known ligand-receptor interactions using the cross-expression framework.
  • Discovered novel gene combinations associated with specific anatomical regions.
  • Revealed gene modules exhibiting orchestrated expression patterns in spatial contexts.

Conclusions:

  • Cross-expression provides a powerful new method for dissecting intercellular communication and spatial gene regulation.
  • The framework enhances understanding of tissue architecture and function at a single-cell level.
  • The R package democratizes spatial gene expression analysis for the research community.