README.md

S.purp_MeDIP

scripts and files for JEMBE

These scripts use DESeq2 to analyze methylation counts of genes and promoters (1kb above gene region). These scripts also output files for GOMWU analysis (see https://github.com/z0on/GO_MWU) and DAPC.

Citation: Strader et al. 2019, Journal of Experimental Marine Biology and Ecology Parental environments alter DNA methylation in offspring of the purple sea urchin, Strongylocentrotus purpuratus. https://doi.org/10.1016/j.jembe.2019.03.002

note on naming scheme. Samples were initially labeled using (B) Blue: non-upwelling conditions (650 uatm, 17C); (R) Red: upwelling conditions (1330 uatm, 13C), with the first letter denoting the maternal environment and the second letter denoting the developmental environment (B: 450 uatm, R: 1050 uatm). The naming scheme was updated for the manuscript for clarity. BB=NL, BR=NH, RB=UL, RR=UH