Dataset features

Specifications


Application: BS-seq analysis
Number of samples: 10
Release date: Jul 15 2018
Last update date: Oct 14 2018
Access: Public
Genes: MBD3, GATAD2A
Dataset link High-Resolution Dissection of Conducive Somatic Cell Reprogramming to Naïve Ground State Pluripotency in Mbd3/NuRD and Gatad2a/NuRD Depleted Systems [RRBS]

Experimental Protocol


Mbd3f/- MEFs that carry DOX-inducible OKSM cassette were used, and iPSC reprogramming was initiated by addition of DOX in FBS/LIF medium in 5% pO2 conditions. On day 3.5 after DOX initiation, medium was changed to LIF/KSR-based with the addition of two small molecule inhibitors for MEK/ERK and GSK3 signaling (2i). Cells were harvested every 24 hours until day 8, and processed for library preparation followed by high-throughput sequencing. Mbd3f/- established iPSC line (after 3 passages or more), and WT v6.5 mouse ESCs were used as positive controls. DNA methylation was measured in each time point using reduced representation bisulfite sequencing (RRBS).

Repositories


GEO

GSE107853

ENA

SRP126409

BioProject

PRJNA421719

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Contact


Noa Novershtern