Snakemake workflow for G-quadruplex and R-loop CUT&Tag + RNA-seq integration in DHX36/FANCJ knockout mESCs — peak calling, sequence-level G4 topology, promoter-centric analysis (mm10)

Fine-tuning and interpreting the HyenaDNA genomic language model on DNA-structure tasks (Z-DNA, G-quadruplexes, promoters) using Explainable-AI attribution methods.

scRNA-seq analysis of pyridostatin (G-quadruplex stabiliser) + checkpoint blockade in murine B16 melanoma