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 Experiment Videos

Systemic evaluation of cellular reprogramming processes exploiting a novel R-tool: eegc.

Xiaoyuan Zhou1,2, Guofeng Meng2, Christine Nardini1,3,4

  • 1CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China and University of Chinese Academy of Sciences, Beijing, China.

Bioinformatics (Oxford, England)
|April 12, 2017
PubMed
Summary

Related Concept Videos

You might also read

Related Articles

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

Sort by
Same author

Interfacial Microenvironment Effects on the Mechanism of Photocatalytic Methanol Conversion for Hydrogen Evolution.

The journal of physical chemistry letters·2026
Same author

Optotransduction Pathway, Exploring Connections with Inflammation.

Biomolecules·2026
Same author

Spontaneous Symmetry Breaking via Metal-Triggered Surface Defect Engineering for Durable Piezocatalytic Hydrogen Evolution.

Advanced materials (Deerfield Beach, Fla.)·2026
Same author

Defect-state-controlled carrier recombination dynamics in nonmetal-doped brookite TiO<sub>2</sub>.

Chemical communications (Cambridge, England)·2026
Same author

Van der Waals strain hardening and large uniform tensile elongation in GaSe.

Nature materials·2026
Same author

Exploring the neuroprotective potential of ligustrazine: a preclinical meta-analysis and machine learning perspective on cerebral ischemia-reperfusion injury.

Frontiers in neuroscience·2026

We developed eegc, a new tool to assess cellular engineering by integrating gene expression and functional data. This systemic approach evaluates reprogramming fidelity for regenerative therapies.

Area of Science:

  • Biotechnology
  • Stem Cell Biology
  • Bioinformatics

Background:

  • Cellular engineering, including induced pluripotent stem cell differentiation and direct lineage reprogramming, holds promise for regenerative medicine.
  • Current methods often struggle with reprogramming fidelity due to biological complexity, leading to uncertain functional outcomes.
  • Evaluating these processes systemically is crucial for reliable therapeutic applications.

Purpose of the Study:

  • To introduce a novel computational tool, eegc, for evaluating cellular engineering processes.
  • To provide a systemic, rather than marker-based, assessment of reprogramming fidelity.
  • To offer practical insights into the effectiveness of cellular reprogramming protocols.

Main Methods:

  • The eegc R package integrates transcriptome profiling and functional analysis.

Related Experiment Videos

  • Genes are clustered into categories representing different states of cellular (trans)differentiation.
  • Functional and gene regulatory network analyses are performed on engineered cell categories.

    • Main Results:

    • The eegc tool enables a systemic evaluation of cellular engineering processes.
    • It identifies potential shortcomings in reprogramming protocols by analyzing gene expression patterns.
    • The integrated approach offers a more comprehensive assessment than marker-based methods.

    Conclusions:

    • eegc provides a robust method for assessing cellular engineering outcomes.
    • This tool can help improve the reliability and efficacy of cells for regenerative therapies.
    • Systemic evaluation is key to understanding and optimizing reprogramming fidelity.