Files and code used for de Mendoza, A., Poppe, D., Buckberry, S. et al. "The emergence of the brain non-CpG methylation system in vertebrates". Nat Ecol Evol (2021). https://doi.org/10.1038/s41559-020-01371-2
Code
- MasterScript_BrainZoo.R
- ATCGmap_GenotypeCorrector.sh
Files
DNMT3.phylogeny: Amino acid sequence alignments and phylogeny of DNMT3 orthologues.MECP2_MBD4.phylogeny: Amino acid sequence alignments and phylogeny of MECP2/MBD4/MBD1-2-3 orthologues.Kallisto_brain_samples.tar.gz: Kallisto output files for brain RNA-seq samples for every species.mCH_stats.tsv: Global mCH levels for each brain WGBS sample.all_GOs_simplified.csv.gz: gProfiler Gene Ontology lists for each species divided by top mCA, bottom mCA, top mCG, bottom mCG.