E-MTAB-6271:gDNA_fC_p
NextSeq 500 paired end sequencing; DNA- and RNA-seq to study the impact of 5-formylcytosine on nucleosome organization and gene expression in embryonic mouse tissues and stem cells
DNA- and RNA-seq to study the impact of 5-formylcytosine on nucleosome organization and gene expression in embryonic mouse tissues and stem cells
gDNA_fC_p
Tissues were collected from timed matings with the day of the copulation plug as E0.5. Embryos were dissected into hindbrain and heart. Genomic DNA was extracted from mouse embryonic tissues at 11.5 days using the DNeasy Blood & Tissue kit (Qiagen) Indexed DNA libraries were obtained by end repair, A-tailing and adapter ligation (NEBNext Ultra II DNA library Prep kit) following the manufacturer's guideline. Per indexed library, cytosine or fully modified 5mC, 5hmC or 5fC DNA was subsequently generated by PCR (25 cycles) using the Taq polymerase and dCtp, dmCtp, dhmCtp and dfCtp and purified by GeneJET PCR Purification Kit and eluted with ultra pure water to generate gDNA_C, gDNA_mC, gDNA_hmC and gDNA_fC input samples.
Senior research associate
E-MTAB-6271:gDNA_fC_p
Experimental Factor: protocol
DNA-seq
Experimental Factor: organism
Mus musculus
Experimental Factor: genotype
wild type genotype
Experimental Factor: organism part
hindbrain
Experimental Factor: compound
5-formylcytosine
Experimental Factor: immunoprecipitate
none