Comment[GEAAccession]	E-GEAD-474
MAGE-TAB Version	1.1
Investigation Title	Methylome analysis of human trophoblast stem-like cells derived from primed embryonic stem cells
Experiment Description	Human trophoblast cells have unique DNA methylation features, such as global hypomethylation and placenta-specific germline differentially methylated regions (gDMRs). To examine whether these unique features are observed in human trophoblast stem-like (hTSL) cells, we performed whole-genome bisulfite sequencing (WGBS) of hTSL cells derived from primed hES cells.
Experimental Design	cell type comparison design
Experimental Factor Name	biological_replicate
Experimental Factor Type	biological_replicate
Person Last Name	Arima	Kobayashi
Person First Name	Takahiro	Norio
Person Affiliation	Arima lab. Department of Informative Genetics, Environment and Genome Research Center Graduate School of Medicine, Tohoku University	
Person Roles	submitter	submitter
Public Release Date	2022-03-03
Protocol Name	P-GEAD-1054	P-GEAD-1055	P-GEAD-1056	P-GEAD-1057	P-GEAD-1058
Protocol Type	sample collection protocol	nucleic acid extraction protocol	nucleic acid library construction protocol	nucleic acid sequencing protocol	normalization data transformation protocol
Protocol Description	hTSLprimed cells were derived from primed hES cells.	DNA was purified from hTSLprimed cells with phenol/chloroform extraction and ethanol precipitation.	WGBS was performed using the post-bisulfite adaptor-tagging (PBAT) method.	PBAT libraries were sequenced on the Illumina HiSeq 2500 with 101-bp single-end reads.	The sequenced reads were aligned to the reference genome (UCSC hg38) using Bismark (v0.19.1). The methylation level of each CpG site was calculated using the Bismark methylation extractor.
SDRF File	E-GEAD-474.sdrf.txt
Comment[AEExperimentType]	Bisulfite-seq
Comment[BioProject]	PRJDB12972
Comment[Last Update Date]	2022-03-03