References

Primary CasTuner paper

  1. CasTuner is a degron and CRISPR/Cas-based toolkit for analog tuning of endogenous gene expression
    Gemma Noviello, Rutger A. F. Gjaltema, and Edda G. Schulz
    Nature Communications 14, 3225 (2023).
    DOI: 10.1038/s41467-023-38909-4.

This paper introduces the CasTuner concept, compares degron and repressor designs, characterizes analog vs digital repression, and uses CasTuner to map dose–response relationships for NANOG and OCT4 in mouse ESCs.

Additional topics

The following themes are relevant for extending or interpreting this pipeline:

  • Degron systems and conditional destabilization of proteins.
  • CRISPRi/CRISPRa and dCas9-based epigenome editing.
  • Single-cell flow cytometry analysis and noise quantification.
  • Hill-based modeling of gene dose–response relationships.
  • ODE-based models of transcription factor–target dynamics and chromatin-mediated feedback.

Add specific references here as you integrate more literature into your analyses.