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

Overview of Cell Signaling01:23

Overview of Cell Signaling

23.0K
Despite the protective membrane that separates a cell from the environment, cells need the ability to detect and respond to environmental changes. Additionally, cells often need to communicate with one another. Unicellular and multicellular organisms use a variety of cell signaling mechanisms to communicate with the environment.
Cells respond to many types of information, often through receptor proteins positioned on the membrane. For example, skin cells respond to and transmit touch...
23.0K
Stem Cell Niche01:26

Stem Cell Niche

5.8K
The stem cell niche is the dynamic microenvironment where stem cells reside. Inside these niches, the cells may remain undifferentiated, undergo high self-renewal, or become lineage-specific progenitors. Stem cells coexist with other niche cells, such as stromal cells. They also interact closely with the ECM. Cell-cell and cell-matrix communication occur via adhesion molecules or soluble factors that signal the stem cells and determine their fate. Stromal cells also provide survival signals to...
5.8K
Multipotency of Hematopoietic Stem Cells01:19

Multipotency of Hematopoietic Stem Cells

3.6K
The hematopoietic stem cells or HSCs are multipotent, meaning they can differentiate and give rise to all blood and immune cells. HSCs are maintained in the quiescent stage until an external stimulus initiates their differentiation. The multipotent HSCs exist as two heterogeneous populations, long-term repopulating cells (LTRC) and short-term repopulating cells (STRC). The two HSC populations have different surface markers or receptors and are classified based on quiescence and long-term...
3.6K
Maintenance of the ES Cell State01:14

Maintenance of the ES Cell State

2.5K
The cells of the blastocyst inner cell mass only remain pluripotent for a short time. This state of pluripotency and self-renewal can be maintained in embryonic stem (ES) cell culture by adding specific chemicals or growth factors to ensure the cells can continue dividing and later differentiate into different cell types. In some cases, the cells are grown on a feeder layer of differentiated cells, which provides the growth factors and extracellular matrix components necessary for stem cell...
2.5K
What is Cell Signaling?02:03

What is Cell Signaling?

127.6K
Despite the protective membrane that separates a cell from the environment, cells need the ability to detect and respond to environmental changes. Additionally, cells often need to communicate with one another. Unicellular and multicellular organisms use a variety of cell signaling mechanisms to communicate to respond to the environment.
127.6K
Lineage Commitment01:21

Lineage Commitment

3.8K
Commitment is the  process whereby stem cells:
3.8K

You might also read

Related Articles

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

Sort by
Same author

Functional outcomes of proximal tibia fractures in adults using KOOS.

Bioinformation·2026
Same author

Effect of combined anteversion on outcomes in total hip replacement.

Bioinformation·2026
Same author

To asses functional out-come of distal femur fracture treated with distal femur locking plate using American knee society score.

Bioinformation·2026
Same author

Understanding pellet population heterogeneity of Aspergillus niger in stirred tank and rocking motion bioreactors.

Applied microbiology and biotechnology·2026
Same author

Accelerating Leigh syndrome drug discovery through deep learning screening in brain organoids.

Nature communications·2026
Same author

Plagl1 regulates the retinal progenitor cell to Müller glial cell transition.

PLoS genetics·2026
Same journal

Literature-informed gene extraction and ranking for multimodal data fusion.

Briefings in bioinformatics·2026
Same journal

SA-MTP: a structure-aware framework for multifunctional therapeutic peptide annotation.

Briefings in bioinformatics·2026
Same journal

Genome assemblies and annotations are not static and need support for tracking their evolution.

Briefings in bioinformatics·2026
Same journal

A historical journey of metabolite-protein interaction discovery: from data harmonization to AI-driven prediction.

Briefings in bioinformatics·2026
Same journal

Bridging local-global transmembrane protein contexts with contrastive pretraining for alignment-free pathogenicity prediction.

Briefings in bioinformatics·2026
Same journal

Prediction of drug hypersensitivity by comprehensive modeling of HLA-peptidomes.

Briefings in bioinformatics·2026
See all related articles

Related Experiment Video

Updated: Nov 30, 2025

Finite Element Modelling of a Cellular Electric Microenvironment
08:23

Finite Element Modelling of a Cellular Electric Microenvironment

Published on: May 18, 2021

3.8K

FunRes: resolving tissue-specific functional cell states based on a cell-cell communication network model.

Sascha Jung1, Kartikeya Singh2, Antonio Del Sol2,1,3

  • 1Computational Biology Group, CIC bioGUNE-BRTA (Basque Research and Technology Alliance), Derio, Bizkaia, 48160, Spain.

Briefings in Bioinformatics
|November 12, 2020
PubMed
Summary
This summary is machine-generated.

We developed FunRes, a new computational method to identify functional cell states within tissues. This tool analyzes cell communication networks from single-cell RNA sequencing data to reveal cell states crucial for tissue function, aging, and disease.

Keywords:
cell statescell–cell communicationclusteringcomputational biology

More Related Videos

An Endothelial Planar Cell Model for Imaging Immunological Synapse Dynamics
09:25

An Endothelial Planar Cell Model for Imaging Immunological Synapse Dynamics

Published on: December 24, 2015

9.2K
Rapid Development of Cell State Identification Circuits with Poly-Transfection
09:21

Rapid Development of Cell State Identification Circuits with Poly-Transfection

Published on: February 24, 2023

1.8K

Related Experiment Videos

Last Updated: Nov 30, 2025

Finite Element Modelling of a Cellular Electric Microenvironment
08:23

Finite Element Modelling of a Cellular Electric Microenvironment

Published on: May 18, 2021

3.8K
An Endothelial Planar Cell Model for Imaging Immunological Synapse Dynamics
09:25

An Endothelial Planar Cell Model for Imaging Immunological Synapse Dynamics

Published on: December 24, 2015

9.2K
Rapid Development of Cell State Identification Circuits with Poly-Transfection
09:21

Rapid Development of Cell State Identification Circuits with Poly-Transfection

Published on: February 24, 2023

1.8K

Area of Science:

  • Computational biology
  • Cellular and molecular biology
  • Systems biology

Background:

  • Cellular specialization is key to tissue function, driven by cell-cell communication.
  • Identifying specific, tissue-relevant functional cell states is a significant challenge.
  • Existing computational methods struggle to resolve these nuanced functional cell states.

Purpose of the Study:

  • To introduce FunRes, a novel computational method for identifying functional cell states.
  • To leverage cell-cell communication networks for precise functional cell state resolution.
  • To enable the characterization of cell states in healthy, aging, and diseased tissues.

Main Methods:

  • FunRes utilizes single-cell RNA sequencing (scRNA-seq) data.
  • It reconstructs tissue-specific functional cell-cell communication networks.
  • The network is used to partition cell types into distinct functional states.

Main Results:

  • FunRes successfully identified known functional cell states across 177 cell types in 10 tissues.
  • These functional states could not be resolved by existing computational tools.
  • The method characterized dynamic functional cell states in aging and disease, linking them to tissue function.

Conclusions:

  • FunRes is a valuable tool for mapping the functional landscape of cell types.
  • It aids in identifying dysfunctional cell states associated with aging and disease.
  • This approach enhances understanding of tissue complexity and cellular roles.