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

Chromatin Structure Regulates pre-mRNA Processing02:41

Chromatin Structure Regulates pre-mRNA Processing

6.9K
In eukaryotic cells, nascent mRNA transcripts need to undergo many post-transcriptional modifications to reach the cell cytoplasm and translate into functional proteins. For a long time, transcription and pre-mRNA processing were considered two independent events that occur sequentially in the cell. However, it has now been well established that transcription and pre-mRNA processing are two simultaneous processes that are precisely regulated inside the cell.
The chromatin structure, especially...
6.9K
Chromatin Position Affects Gene Expression02:35

Chromatin Position Affects Gene Expression

23.2K
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...
23.2K
Duplication of Chromatin Structure02:05

Duplication of Chromatin Structure

5.2K
The process of chromosome duplication during cell division requires genome-wide disruption and re-assembly of chromatin. The chromatin structure must be accurately inherited, reassembled, and maintained in the daughter cells to ensure lineage propagation.
The basic unit of the chromatin is the nucleosome, consisting of DNA wrapped around octameric histone proteins and short stretches of linker DNA separating individual nucleosomes. The histone proteins within the nucleosome have their...
5.2K
Chromatin Structure and RNA Splicing02:41

Chromatin Structure and RNA Splicing

2.7K
2.7K
Inheritance of Chromatin Structures03:17

Inheritance of Chromatin Structures

6.2K
Epigenetics is the study of inherited changes in a cell's phenotype without changing the DNA sequences. It provides a form of memory for the differential gene expression pattern to maintain cell lineage, position-effect variegation, dosage compensation, and maintenance of chromatin structures such as telomeres and centromeres. For example, the structure and location of the centromere on chromosomes are epigenetically inherited. Its functionality is not dictated or ensured by the underlying...
6.2K
Nucleosome Remodeling02:54

Nucleosome Remodeling

8.9K
Nucleosomes are the basic units of chromatin compaction. Each nucleosome consists of the DNA bound tightly around a histone core, which makes the DNA inaccessible to DNA binding proteins such as DNA polymerase and RNA polymerase. Hence, the fundamental problem is to ensure access to DNA when appropriate, despite the compact and protective chromatin structure.
Nucleosome remodeling complex
Eukaryotic cells have specialized enzymes called ATP-dependent nucleosome remodeling enzymes. These enzymes...
8.9K

You might also read

Related Articles

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

Sort by
Same author

Extraction and purification, structural characteristics, biological activities, structural-activity relationship, chemical modification, safety evaluation, and applications of Ophiopogonis japonicus polysaccharides: A review.

Carbohydrate research·2026
Same author

A Lineage-Specific Peptide Suppresses Juvenile Hormone to Drive Reproductive and Longevity Reprogramming in Ants.

bioRxiv : the preprint server for biology·2026
Same author

Targeting an RNA Editor to Impede H3K27M+ Pediatric Gliomas.

bioRxiv : the preprint server for biology·2026
Same author

Multimodal magnetic resonance imaging (MRI) quantification of hippocampal injury in acute carbon monoxide poisoning: reduced hippocampal volume as a sensitive biomarker linked to cognitive impairment and prognosis.

Quantitative imaging in medicine and surgery·2026
Same author

PDS5A and TOP2B cooperate for chromatin recruitment via CTCF.

bioRxiv : the preprint server for biology·2026
Same author

MASTR-seq enables multiplexed analysis of short tandem repeats with sequencing.

Cell reports methods·2026
Same journal

Genetic Impacts on Variability of Body Fat Distribution Uncover Gene-Environment and Gene-Gene Interactions.

bioRxiv : the preprint server for biology·2026
Same journal

16S ribosomal RNA modification drives transcript-specific translation efficiency.

bioRxiv : the preprint server for biology·2026
Same journal

FlcE latches onto the FliL-stator complex to turbocharge flagellar motility in <i>Borrelia burgdorferi</i>.

bioRxiv : the preprint server for biology·2026
Same journal

Synaptic pruning, myelination and the emergence of psychiatric disorders in late adolescence.

bioRxiv : the preprint server for biology·2026
Same journal

Structural and functional insights into the Rcs phosphorelay.

bioRxiv : the preprint server for biology·2026
Same journal

The structural basis of RanGAP1 regulation and catalysis in nuclear transport.

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

Related Experiment Video

Updated: May 16, 2025

CRISPR-Mediated Reorganization of Chromatin Loop Structure
09:20

CRISPR-Mediated Reorganization of Chromatin Loop Structure

Published on: September 14, 2018

12.4K

CTCF-RNA interactions orchestrate cell-specific chromatin loop organization.

Kimberly Lucero1,2, Sungwook Han2,3,4, Pin-Yao Huang2

  • 1Department of Cell Biology and Regenerative Medicine, New York University Langone Medical Center, New York, NY, USA.

Biorxiv : the Preprint Server for Biology
|April 1, 2025
PubMed
Summary
This summary is machine-generated.

CCCTC-binding factor (CTCF) RNA interactions are vital for maintaining genome structure during cell differentiation. Disrupting CTCF

Keywords:
CTCFRNA bindingchromatin loopsembryonic stem cellsgene expressiongenome organizationneural progenitor cells

More Related Videos

HOX Loci Focused CRISPR/sgRNA Library Screening Identifying Critical CTCF Boundaries
10:10

HOX Loci Focused CRISPR/sgRNA Library Screening Identifying Critical CTCF Boundaries

Published on: March 31, 2019

8.2K
In-Nucleus Hi-C in Drosophila Cells
11:58

In-Nucleus Hi-C in Drosophila Cells

Published on: September 15, 2021

4.0K

Related Experiment Videos

Last Updated: May 16, 2025

CRISPR-Mediated Reorganization of Chromatin Loop Structure
09:20

CRISPR-Mediated Reorganization of Chromatin Loop Structure

Published on: September 14, 2018

12.4K
HOX Loci Focused CRISPR/sgRNA Library Screening Identifying Critical CTCF Boundaries
10:10

HOX Loci Focused CRISPR/sgRNA Library Screening Identifying Critical CTCF Boundaries

Published on: March 31, 2019

8.2K
In-Nucleus Hi-C in Drosophila Cells
11:58

In-Nucleus Hi-C in Drosophila Cells

Published on: September 15, 2021

4.0K

Area of Science:

  • Genomics
  • Molecular Biology
  • Cell Biology

Background:

  • CCCTC-binding factor (CTCF) plays a critical role in chromatin organization.
  • CTCF interacts with endogenous RNAs, and its ZF1 RNA-binding region is important for chromatin loop formation in mouse embryonic stem cells (ESCs).
  • The functional significance of CTCF-ZF1 RNA interactions during cell differentiation remains largely unknown.

Purpose of the Study:

  • To investigate the role of CTCF-ZF1 RNA interactions in maintaining cell-type-specific chromatin organization during differentiation.
  • To elucidate the functional consequences of disrupting CTCF-ZF1 RNA interactions on gene regulation and cellular identity.

Main Methods:

  • Utilized an in vitro model of ESC differentiation into neural progenitor cells (NPCs).
  • Generated cells expressing a CTCF mutant lacking the ZF1 RNA-binding region (CTCF-ΔZF1).
  • Identified and characterized NPC-specific RNAs interacting with CTCF-ZF1.
  • Assessed the impact of truncating specific interacting RNAs (Podxl, Grb10) on chromatin loops.

Main Results:

  • CTCF-ZF1 is essential for preserving cell-type-specific chromatin loops during NPC differentiation.
  • Expression of CTCF-ΔZF1 disrupted chromatin loops and dysregulated genes involved in neuronal development.
  • Truncation of NPC-specific RNAs, Podxl and Grb10, mimicked CTCF-ΔZF1 effects by disrupting chromatin loops in cis.

Conclusions:

  • CTCF-ZF1 RNA interactions are fundamentally important for maintaining genome architecture and cellular identity during differentiation.
  • These interactions ensure the proper regulation of cell-type-specific gene expression programs.