ABSTRACT: Analysis of nucleosides (dC, dG, 5mdC and 5hmdC) using mass spectrometry and digested DNA samples.
Experimental data description:
- 12 h restoration (corresponding to EDFig2 b, EDFig5 b,c,h), E14 mESCs, labelled samples and followed for 12h, total DNA and stranded, 4 biological replicates (rep1, rep2, rep3 and rep4) and 2 technical replicates (_1, _2).
- KST061-62-63 (corresponding to Fig1 e-f, Fig2 b-g, Fig5 b-e, EDFig5 a,f), E14 mESCs, labelled samples and followed for 8h, total DNA and stranded, 3 biological replicates (KST061, KST062 and KST063) and 2 technical replicates (_1, _2).
- KST73-74-75 (corresponding to EDFig5 d,e,g), NIH3T3 cell line, labelled samples and followed for 8h, total DNA and stranded, 3 biological replicates (KST073, KST074 and KST075) and 2 technical replicates (_1, _2).
- KST76-77-78 (corresponding to Fig6 b-e, EDFig6 b-c), E14 mESCs, ChIP mass spectrometry samples for several histone modifications antibodies, total DNA and ChIP DNA, 3 biological replicates (KST076, KST077 and KST078) and 2 technical replicates (_1, _2).
- KST035 (corresponding to Fig1 c-d), E14 mESCs, DNA abundance and methylation levels, 2 technical replicates (_1, _2)
- KST045-46-47 (corresponding to Fig3 b, EDFig3 a), E14 mESCs, labelled early S phase samples and followed for 8h, total DNA and EdU+ pull down, 3 biological replicates (KST045, KST046 and KST047) and 2 technical replicates (_1, _2).
- KST050-51-52 (corresponding to Fig3 c, EDFig3 b), E14 mESCs, labelled late S phase samples and followed for 8h, total DNA and EdU+ pull down, 3 biological replicates (KST050, KST051 and KST052) and 2 technical replicates (_1, _2).
- KST056-57-60 (corresponding to EDFig4 a), E14 mESCs, cell cycle phases sorted using EdU labelling, 3 biological replicates (KST056, KST057 and KST060) and 2 technical replicates (_1, _2).
Standard curve data used for quantification are named as MM1-MM10, 2 technical replicates (_1, _2).
Anja Groth 
