Select Page

ChIP-exo

In the ChIP-exo simulation, you will perform the chromatin immunoprecipitation with exonuclease treatment (ChIP-exo) protocol. Will you be able to prepare the target DNA to understand how E. coli survive in acid stress conditions?
Watch Video
Purchase Access

About This Simulation

In the ChIP-exo simulation, you will perform the chromatin immunoprecipitation with exonuclease treatment (ChIP-exo) protocol in order to get a DNA sequence to elucidate the acid stress mechanism of Escherichia coli. You will fix the protein-DNA interactions and lyse the cells using a sonicator, add magnetic beads to the sample and perform different on-bead and off-bead enzymatic modifications, learning how the exonucleases work. Will you be able to prepare the target DNA to understand how E. coli survive in acid stress conditions?

Screenshots

Collaborators

Learning Objectives

  • Understanding the use of exonuclease treatment in ChIP-exo technique.
  • Learning the key steps for performing the ChIP-exo technique as well as the importance of each reagent:
    • Adding formaldehyde to the culture to fix the bonds between proteins and DNA.
    • Lysing the cells using lysozyme and sonication.
    • Addition of specific antibodies.
    • Use of magnetic beads.
    • On-bead enzymatic modifications.
    • Off-bead enzymatic modifications.
  • Understanding the molecular mechanism of ChIP-exo.

Techniques

  • Cell lysis
  • Immunodetection
  • PCR
  • Sonication
  • Immunoprecipitation
  • DNA editing

 

Collaborator

List of all our learning simulations

View All Simulations