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

CRISPR/Cas9 Genome Editing01:28

CRISPR/Cas9 Genome Editing

1.5K
The CRISPR-Cas system serves as a bacterial defense mechanism against invading genetic elements such as viruses and plasmids, forming the foundation for its adaptation as a powerful genome-editing tool. Originally discovered in prokaryotes, this system has been repurposed to revolutionize genetic engineering across a wide range of organisms, including plants, animals, and humans. The core component, Cas9, is an endonuclease derived from Streptococcus pyogenes, capable of introducing...
1.5K
CRISPR01:59

CRISPR

57.3K
Genome editing technologies allow scientists to modify an organism’s DNA via the addition, removal, or rearrangement of genetic material at specific genomic locations. These types of techniques could potentially be used to cure genetic disorders such as hemophilia and sickle cell anemia. One popular and widely used DNA-editing research tool that could lead to safe and effective cures for genetic disorders is the CRISPR-Cas9 system. CRISPR-Cas9 stands for Clustered Regularly Interspaced...
57.3K
Genetic Screens02:46

Genetic Screens

5.5K
Genetic screens are tools used to identify genes and mutations responsible for phenotypes of interest. Genetic screens help identify individuals or a group of people at risk of developing  genetic diseases and help them with early intervention, targeted therapy, and reproductive options.
Forward genetic screens
Forward or “classical” genetic screens involve creating random mutations in an organism’s DNA using radiation, mutagens, or insertion of additional bases, which...
5.5K
CRISPR and crRNAs02:53

CRISPR and crRNAs

18.6K
Bacteria and archaea are susceptible to viral infections just like eukaryotes; therefore, they have developed a unique adaptive immune system to protect themselves. Clustered regularly interspaced short palindromic repeats and CRISPR-associated proteins (CRISPR-Cas) are present in more than 45% of known bacteria and 90% of known archaea.
The CRISPR-Cas system stores a copy of foreign DNA in the host genome and uses it to identify the foreign DNA upon reinfection. CRISPR-Cas has three different...
18.6K

You might also read

Related Articles

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

Sort by
Same author

Intelligent surgical workflow recognition-based skill assessment for minimally invasive submandibular gland resection.

NPJ digital medicine·2026
Same author

Mapping self-associating chromatin hubs identifies Id proteins as key determinants of exhausted CD8<sup>+</sup> T cell fate.

Nature immunology·2026
Same author

GeneKnow: AI-powered literature synthesis for gene-context analysis.

bioRxiv : the preprint server for biology·2026
Same author

TEAD1 condensates are transcriptionally inactive storage sites on the pericentromeric heterochromatin in cancer cells.

Nature cell biology·2026
Same author

Lichen planus autoimmune comorbidities: A retrospective case control study.

Dermatology online journal·2026
Same author

PATTY corrects open-chromatin bias for improved bulk and single-cell CUT&Tag profiling.

Nature communications·2026

Related Experiment Video

Updated: Jan 3, 2026

Pooled CRISPR-Based Genetic Screens in Mammalian Cells
09:05

Pooled CRISPR-Based Genetic Screens in Mammalian Cells

Published on: September 4, 2019

23.0K

Deciphering essential cistromes using genome-wide CRISPR screens.

Teng Fei1,2,3,4,5,6,7, Wei Li5,7,8,9, Jingyu Peng3,4,5,6,7

  • 1College of Life and Health Sciences, Northeastern University, 110819 Shenyang, People's Republic of China.

Proceedings of the National Academy of Sciences of the United States of America
|November 16, 2019
PubMed
Summary

Defining functional transcription factor binding sites (cistromes) is challenging. CRISPR screens reveal essential FOXA1 and CTCF binding sites, enabling prediction of cis-regulatory element function in cancer.

Keywords:
CRISPR screenCTCFFOXA1cistromeenhancer

More Related Videos

Genome-Wide CRISPR Screen for Unveiling Radiosensitive and Radioresistant Genes
08:32

Genome-Wide CRISPR Screen for Unveiling Radiosensitive and Radioresistant Genes

Published on: May 23, 2025

1.0K
Cell Surface Receptor Identification Using Genome-Scale CRISPR/Cas9 Genetic Screens
08:49

Cell Surface Receptor Identification Using Genome-Scale CRISPR/Cas9 Genetic Screens

Published on: June 6, 2020

15.2K

Related Experiment Videos

Last Updated: Jan 3, 2026

Pooled CRISPR-Based Genetic Screens in Mammalian Cells
09:05

Pooled CRISPR-Based Genetic Screens in Mammalian Cells

Published on: September 4, 2019

23.0K
Genome-Wide CRISPR Screen for Unveiling Radiosensitive and Radioresistant Genes
08:32

Genome-Wide CRISPR Screen for Unveiling Radiosensitive and Radioresistant Genes

Published on: May 23, 2025

1.0K
Cell Surface Receptor Identification Using Genome-Scale CRISPR/Cas9 Genetic Screens
08:49

Cell Surface Receptor Identification Using Genome-Scale CRISPR/Cas9 Genetic Screens

Published on: June 6, 2020

15.2K

Area of Science:

  • Genomics and Molecular Biology
  • Cancer Research
  • Epigenetics

Background:

  • Millions of transcription factor binding sites (cistromes) exist, but their functional roles in specific conditions are unclear.
  • Identifying functional cis-regulatory elements is crucial for understanding gene regulation and disease mechanisms.

Purpose of the Study:

  • To systematically investigate the essentiality of FOXA1 and CTCF binding sites in cancer cells using CRISPR/Cas9 knockout screens.
  • To develop a predictive model for essential cis-regulatory elements based on screening data and epigenetic profiles.

Main Methods:

  • CRISPR/Cas9 knockout screens were employed to assess gene essentiality/fitness upon disruption of over 10,000 FOXA1 and CTCF binding sites.
  • Regression methods were trained on screening data and public epigenetic profiles to build predictive models.
  • The developed model's accuracy was validated by predicting noncoding variants associated with cancer risk.

Main Results:

  • Essential FOXA1 binding sites function as enhancers, regulating nearby essential genes via lineage-specific transcription factors.
  • Essential CTCF binding sites were classified into two groups: enhancer-like sites and sites at topologically associated domain (TAD) boundaries.
  • A predictive model accurately identified essential cis-elements and linked FOXA1 essentiality to cancer risk and progression variants.

Conclusions:

  • CRISPR screens of cis-regulatory elements can define the essential cistrome for specific transcription factors.
  • The developed predictive model accurately identifies functional cis-elements and their roles in cancer.
  • This approach advances the understanding of cis-regulatory element function and aids in predicting disease-associated variants.