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 Regeneration and Repair01:19

Overview of Regeneration and Repair

4.2K
Regeneration and repair processes are critical in healing damages caused by injury, disease, and aging. In regeneration, the damaged tissue is entirely replaced with new growth that restores the original architecture and function. In contrast, tissue repair usually results in a fixed tissue architecture involving scar formation. Scars generally do not reestablish tissue function and may also exhibit structural abnormalities at the injury site.
Regeneration
All animals have varying degrees of...
4.2K
Whole Body Regeneration01:33

Whole Body Regeneration

3.4K
Regeneration is the process of restoring injured or lost tissues, organs, or body parts. While simpler organisms generally show greater ability to regenerate their whole body, few complex animals show similarly exceptional regeneration. For example, planarian flatworms have a unique regenerative potential making them a popular study organism among biologists to understand the mechanisms of whole body regeneration. Other organisms, such as hydra, also show extreme regeneration potential;...
3.4K

You might also read

Related Articles

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

Sort by
Same author

GIGANTEA shapes diurnal seedling growth by sequestering SMAX1 and SMXL2.

The Plant cell·2026
Same author

The RLK7-MPK3/6-LEAFY PETIOLE signaling axis mediates growth inhibition during PIP peptide-induced immunity in Arabidopsis.

Plant communications·2026
Same author

A positive feedback loop between NPR1 and SOG1 reinforces genotoxic tolerance in Arabidopsis.

Plant communications·2026
Same author

Stem cell activity is linked to a transient acquisition of pluripotency during callus proliferation.

Nature communications·2026
Same author

Plant-specific function of H3K9me3 as a permissive chromatin mark during Arabidopsis seed germination.

Frontiers in plant science·2026
Same author

Genetic redirection of morphogenic signaling for induced cell fate reprogramming.

Journal of integrative plant biology·2026

Related Experiment Video

Updated: Sep 4, 2025

Author Spotlight: Optimizing Hairy Root-Based Transformation Protocols for Enhanced Efficiency in Brassicaceae
08:52

Author Spotlight: Optimizing Hairy Root-Based Transformation Protocols for Enhanced Efficiency in Brassicaceae

Published on: December 22, 2023

3.9K

REGENOMICS: A web-based application for plant REGENeration-associated transcriptOMICS analyses.

Soon Hyung Bae1, Yoo-Sun Noh2,3, Pil Joon Seo1,4,5

  • 1Department of Chemistry, Seoul National University, Seoul 08826, South Korea.

Computational and Structural Biotechnology Journal
|July 14, 2022
PubMed
Summary

REGENOMICS is a new web tool that organizes plant regeneration transcriptome data. It helps researchers understand gene networks and molecular interactions in plant tissue regeneration.

Keywords:
Co-expression networkGene expression browserGene regulatory networkPlant regenerationSingle-cell analysisTrajectory inference

More Related Videos

A Bioinformatics Pipeline to Accurately and Efficiently Analyze the MicroRNA Transcriptomes in Plants
06:34

A Bioinformatics Pipeline to Accurately and Efficiently Analyze the MicroRNA Transcriptomes in Plants

Published on: January 21, 2020

8.4K
Geomagnetic Field Gmf and Plant Evolution: Investigating the Effects of Gmf Reversal on Arabidopsis thaliana Development and Gene Expression
11:04

Geomagnetic Field Gmf and Plant Evolution: Investigating the Effects of Gmf Reversal on Arabidopsis thaliana Development and Gene Expression

Published on: November 30, 2015

13.5K

Related Experiment Videos

Last Updated: Sep 4, 2025

Author Spotlight: Optimizing Hairy Root-Based Transformation Protocols for Enhanced Efficiency in Brassicaceae
08:52

Author Spotlight: Optimizing Hairy Root-Based Transformation Protocols for Enhanced Efficiency in Brassicaceae

Published on: December 22, 2023

3.9K
A Bioinformatics Pipeline to Accurately and Efficiently Analyze the MicroRNA Transcriptomes in Plants
06:34

A Bioinformatics Pipeline to Accurately and Efficiently Analyze the MicroRNA Transcriptomes in Plants

Published on: January 21, 2020

8.4K
Geomagnetic Field Gmf and Plant Evolution: Investigating the Effects of Gmf Reversal on Arabidopsis thaliana Development and Gene Expression
11:04

Geomagnetic Field Gmf and Plant Evolution: Investigating the Effects of Gmf Reversal on Arabidopsis thaliana Development and Gene Expression

Published on: November 30, 2015

13.5K

Area of Science:

  • Plant biology
  • Genomics
  • Bioinformatics

Background:

  • Plants possess remarkable regenerative capabilities from differentiated somatic cells.
  • Understanding the genetic basis of plant regeneration is crucial for agricultural and biological advancements.
  • Existing high-throughput data requires better organization to facilitate deeper insights into plant regeneration.

Purpose of the Study:

  • To develop a comprehensive, web-based platform for analyzing plant regeneration-associated transcriptomics data.
  • To integrate diverse datasets covering various regeneration processes like wounding, callus formation, and organogenesis.
  • To provide tools for analyzing gene expression dynamics, networks, and single-cell profiles in plant regeneration.

Main Methods:

  • Collected and curated available transcriptome datasets related to plant regeneration.
  • Developed REGENOMICS, a web application for transcriptomics analysis.
  • Implemented functions for single- and multi-query analyses, including gene-expression dynamics, co-expression networks, gene-regulatory networks, and single-cell expression profiles.
  • Enabled analysis of both deposited and user-submitted RNA-seq datasets.

Main Results:

  • Constructed REGENOMICS, a centralized resource for plant regeneration transcriptomics.
  • REGENOMICS supports comprehensive analyses of gene expression and regulatory networks across different regeneration modes.
  • The platform facilitates the discovery of novel molecular interactions and pathway crosstalk in plant regeneration.

Conclusions:

  • REGENOMICS serves as a pivotal hub for plant regeneration transcriptome analysis.
  • The application significantly enhances the understanding of gene networks and molecular mechanisms underlying plant regeneration.
  • Facilitates future research into optimizing plant regeneration strategies through data-driven insights.