Post-Screen Analysis
When reviewing screening data, a library .chip file will be a useful resource.
How Do I Pick a .chip File
from the GPP provides a walkthrough of what a .chip file is and how to pick the correct one.
Depending on the type of screen conducted, we recommend different preliminary analyses. For an overview of analyzing CRISPRko, CRISPRa, and CRISPRi screening data, review our Pooled Screen Analysis Guide. Additionally, GPP has developed a web tool, Apron, to assist with the analysis of pooled screens. Apron currently supports analysis of single-guide Cas9 and Cas12a screens but is under development to help analyze additional types of screening data.
Base editing screen analysis guidance is described separately in our Base Editing Data Analysis Guide.
FAQs:
Q: How does GPP deconvolute sequencing data?
GPP uses an internal software tool, PoolQ, to deconvolute and quantitate perturbation barcodes in multiplexed sequencing data. For more detail on how PoolQ works, review the information on the PoolQ Software Tool Downloads page.
Q: Is there additional information available on screen analysis?
For further reading on conducting screen analysis, please see Design and analysis of CRISPR-Cas experiments.