Genome-wide DNA damage, excision repair, and circadian rhythm

Bioinformatic pre-processing

• Damage-seq: Sequencing protocol described in this paper. Bioinformatic pipeline available here.

• XR-seq: Sequencing protocol described in this paper. Bioinformatic pipeline available here.

• RNA-seq: Bioinformatic pipeline available here.

R scripts for data analysis

• Differential damage and repair of DNA-adducts induced by anti-cancer drug cisplatin across mouse organs: scripts, paper.

• Single nucleotide resolution analysis of nucleotide excision repair of ribosomal DNA in humans and mice: scripts, paper.

• Nucleotide excision repair capacity increases during differentiation of human embryonic carcinoma cells into neurons and muscle cells: scripts, paper.

• Excision repair hotspots of UV-induced DNA damage in the human genome: scripts, paper.

Circadian rhythm detection

• Systematic evaluations and practical guidelines: vignettes, paper.