Comment[ArrayExpressAccession]	E-GEOD-45174
MAGE-TAB Version	1.1				
Public Release Date	2014-12-22
Investigation Title	Genome-wide maps of chromatin histone methylation marks in neonatal and adult cardiomyocytes				
Comment[Submitted Name]	Genome-wide maps of chromatin histone methylation marks in neonatal and adult cardiomyocytes
Experiment Description	Epigenetic changes in DNA and chromatin are implicated in organogenesis and cell differentiation. Through a genome-wide chromatin-immunoprecipitation DNA-sequencing approach (ChIP-seq) we analyses the enrichment of H3K79me2 and H3K4me3 (histone methylation marks associated with transcriptional activation) and H3K27me3 and H3K9me3 (histone methylation marks associated with transcriptional repression) in neonatal and adult cardiomyocytes. The histone methylation profile obtained was correlated with an Illumina gene expression profile from the same samples. Our results demonstrate that histone methylation, and in particular the DOT1L-mediated H3K79me2 mark, drives cardiomyogenesis through the definition of a specific transcriptional landscape Profiling of H3K79me2, H3K4me3, H3K27me3 and H3K9me3 in neonatal and adult cardiomyocytes				
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	Kunderfranco	Cattaneo	Papait	Kunderfranco	Condorelli
Person First Name	Paolo	Paola	Roberto	Paolo	Gianluigi
Person Email	Paolo.Kunderfranco@humanitasresearch.it				
Person Affiliation	Humanitas Clinical and Research Center				
Person Address	Cardiology, Humanitas Clinical and Research Center, Via Manzoni, 113, Rozzano, Milano, Italy				
Person Roles	submitter				
Protocol Name	P-GSE45174-1	P-GSE45174-3	P-GSE45174-2		
Protocol Description	none	Primary 1-day-old cardiomyocytes and 2-month-old cardiomyocytes have been isolated to single cells and purified after sequential enzymatic digestions using standard protocols. The chromatin obtained after nuclei isolation has been sonicated to obtain an average chromatin length of 300bp; immunoprecipitation was performed by incubating the chromatin at 4°C overnight with antibodies anti-H3K4me3, anti-H3K79me2, anti-H3K27me3 and anti-H3K9me3. After decrosslinking of the chromatin, the enriched DNA was extracted and control of quantity and quality was assessed before sequencing. Sequencing libraries have been prepared and barcoded according to the Lifetech ChIP-Seq Alpha protocol and amplified with a total of 15 PCR cycles. All sequencing libraries have been quantified with the Qubit Fluorometer (Life Technologies), protocol DNA HS, and checked with the Agilent 2100 Bioanalyzer instrument, protocol DNA 1000	none		
Protocol Type	sample treatment protocol	nucleic acid library construction protocol	growth protocol		
Experimental Factor Name	developmental stage	chip antibody	cell type		
Experimental Factor Type	developmental stage	chip antibody	cell type		
Comment[SecondaryAccession]	GSE45174				
Comment[GEOReleaseDate]	2014-12-22				
Comment[ArrayExpressSubmissionDate]	2013-03-14				
Comment[GEOLastUpdateDate]	2014-12-23				
Comment[AEExperimentType]	ChIP-seq				
Comment[AdditionalFile:Data1]	GSE45174_H3K27me3_CMp-CMa.txt				
Comment[AdditionalFile:Data2]	GSE45174_H3K27me3_mES-CMa.txt				
Comment[AdditionalFile:Data3]	GSE45174_H3K27me3_mES-CMp.txt				
Comment[AdditionalFile:Data4]	GSE45174_H3K4me3_CMp-CMa.txt				
Comment[AdditionalFile:Data5]	GSE45174_H3K4me3_mES-CMa.txt				
Comment[AdditionalFile:Data6]	GSE45174_H3K4me3_mES-CMp.txt				
Comment[AdditionalFile:Data7]	GSE45174_H3K79me2_CMp-CMa.txt				
Comment[AdditionalFile:Data8]	GSE45174_H3K79me2_mES-CMa.txt				
Comment[AdditionalFile:Data9]	GSE45174_H3K79me2_mES-CMp.txt				
Comment[AdditionalFile:Data10]	GSE45174_H3K9me3_CMp-CMa.txt				
Comment[AdditionalFile:Data11]	GSE45174_H3K9me3_mES-CMa.txt				
Comment[AdditionalFile:Data12]	GSE45174_H3K9me3_mES-CMp.txt				
Comment[AdditionalFile:Data13]	GSE45174_README.txt				
Comment[AdditionalFile:Data14]	GSE45174_mES_H3K27me3_MACS.bed				
Comment[AdditionalFile:Data15]	GSE45174_mES_H3K27me3_SICER.bed				
Comment[AdditionalFile:Data16]	GSE45174_mES_H3K4me3_MACS.bed				
Comment[AdditionalFile:Data17]	GSE45174_mES_H3K4me3_SICER.bed				
Comment[AdditionalFile:Data18]	GSE45174_mES_H3K79me2_MACS.bed				
Comment[AdditionalFile:Data19]	GSE45174_mES_H3K79me2_SICER.bed				
Comment[AdditionalFile:Data20]	GSE45174_mES_H3K9me3_MACS.bed				
Comment[AdditionalFile:Data21]	GSE45174_mES_H3K9me3_SICER.bed				
Comment[SecondaryAccession]	SRP019373				
SDRF File	E-GEOD-45174.sdrf.txt