Comment[ArrayExpressAccession]	E-GEOD-44918
MAGE-TAB Version	1.1		
Public Release Date	2014-12-08
Investigation Title	High resolution nulceotide level methylation map of female mouse primary keratinocytes		
Comment[Submitted Name]	High resolution nulceotide level methylation map of female mouse primary keratinocytes
Experiment Description	We determined the high resolution methylation maps of female mouse primary keratinocytes and compared these maps at nucleotide level with the female mouse primary dermal fibroblasts. Single nucleotide level methylation maps led us to identify several additional features of CG methylation. We have detected that differentially methylated regions are epigenetically marked in other cells including embryonic stem cells and neuronal progeniator cells. Different new charecteristics and functions were also discovered with these methylation maps. Determinationof whole genome DNA methylation profiles (BS-seq) of primary mouse keratinocytes		
Term Source Name	ArrayExpress	EFO
Term Source File	http://www.ebi.ac.uk/arrayexpress/	http://www.ebi.ac.uk/efo/efo.owl	
Person Last Name	Chatterjee	Chatterjee	Vinson
Person First Name	Raghunath	Raghunath	Charles
Person Email	raghuchatterjee@gmail.com		
Person Affiliation	NCI, NIH		
Person Address	LM, NCI, NIH, 9000 Rockville Pike, Bldg. 37/ 3128, Bethesda, MD, USA		
Person Roles	submitter		
Protocol Name	P-GSE44918-3	P-GSE44918-2	P-GSE44918-1
Protocol Description	Illumina RTA 1.7.45 and Casava 1.8 were used for base calling Novoalign Bisulfite module was used for mapping to the mouse assembly mm9 The base calls per reference position on each strand were used to identify methylated cytosines in the context of CpG, CHG and CHH. Genome_build: mm9 Supplementary_files_format_and_content: tab-delimited text files include methylation percent for mouse keratinocytes	Primary mouse keratinicytes were cultured for 3 days. DNA was extractes using Qiagen DNA purification kit from the primary cells. . Methylome libraries were prepared for sequencing using standard Illumina protocols	Primary mouse keratinocytes were cultured for 3 days in SMEM medium (Invitrogen) with 10% chealetd FBS.
Protocol Type	normalization data transformation protocol	nucleic acid library construction protocol	growth protocol
Comment[SecondaryAccession]	GSE44918		
Comment[GEOReleaseDate]	2014-12-08		
Comment[ArrayExpressSubmissionDate]	2013-03-06		
Comment[GEOLastUpdateDate]	2014-12-08		
Comment[AEExperimentType]	methylation profiling by high throughput sequencing		
Comment[SecondaryAccession]	SRP018963		
Comment[SequenceDataURI]	http://www.ebi.ac.uk/ena/data/view/SRR768516-SRR768523		
SDRF File	E-GEOD-44918.sdrf.txt