GSM3732314: Dnmt3ab_DKO_E65_ExE_B6DBAxPWK_RNAseq_embryo4; Mus musculus; RNA-Seq
As all libraries generated in this study involved low-input techniques, samples collected were directly put into lysis buffer for further library construction. RNA-seq (Sample 1-13): For low-input RNA-seq libraries, SMARTer Ultra Low Input RNA cDNA preparation kit (Clontech, 643890) was used for reverse transcription and cDNA amplification. cDNA were then fragmented, adaptor-ligated and amplified using Nextera XT DNA Library Preparation Kit (Illumina) according to the manufacturer's instructions. Single-end 100bp sequencing was performed on a HiSeq 2500 sequencer (Illumina). Bisulfite-seq (Sample 24-25): For low-input whole genome bisulfite sequencing (WGBS), the libraries were constructed using the PBAT method (Clark SJ et al., Nature Protocol. 2017 Mar; 12(3):534-547, PMID:28182018). Bisulfite-seq (reduced representation) (Sample 14-19): For low-input RRBS, the libraries were prepared as previously described (Shen L et al., Cell Stem Cell. 2014 Oct 2; 15(4):459-471. PMID:25280220). H3K27me3 and H3K4me3 profiling using CUT&RUN (Sample 20-23, 26-31): Eed CTR and matKO embryos H3K4me3 and H3K27me3 CUT&RUN libraries were constructed as previously described (Skene and Henikoff, 2017 eLife. 2017; 6: e21856, PMID: 28079019).
GEO Accession
GSM3732314