Comment[ArrayExpressAccession]	E-GEOD-67498
MAGE-TAB Version	1.1			
Public Release Date	2016-10-21
Investigation Title	Maintenance of Leukemic Cell Identity by the Activity of the Polycomb Complex PRC1 (ChIP-seq)			
Comment[Submitted Name]	Maintenance of Leukemic Cell Identity by the Activity of the Polycomb Complex PRC1 (ChIP-seq)
Experiment Description	These data include the genome wide occupancy of H2AUbq by ChIP sequencing in Cdkn2a-/- Lin- HSC cells non-transduced or transduced with MLL-AF9, HOXA9 and PML-RARa. Immuno-precipitation of formaldehyde cross-linked chromatin prepared from Cdkn2a-/- Lin- HSC cells non-transduced or transduced with MLL-AF9, HOXA9 and PML-RARa using H2AK119Ubq antibody.			
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	Jammula	Rossi	Jammula	Pasini
Person First Name	Sri Ganesh	Alessandra	Sri	Diego
Person Mid Initials			G	
Person Email	sriganesh.jammula@ieo.eu			
Person Affiliation	IFOM-IEO			
Person Address	IFOM-IEO, Via Adamello 16, Milan, Italy			
Person Roles	submitter			
Protocol Name	P-GSE67498-3	P-GSE67498-1	P-GSE67498-2	
Protocol Description	Alignment: Short reads were mapped onto the mouse July, 2007 genome release (mm9) using Bowtie allowing to retain only reads with unique alignment. Peaks: Peak calling was performed with the Model-based Analysis of ChIP-Seq (MACS2) algorithm Genome_build: mm9 Supplementary_files_format_and_content: bed files containing locus of enriched regions for target of interest	LIN- HSCs were cross-linked with 1% formaldehyde and chromatin sonicated to an average size of 200-300 bp. Chromatin was precipitated with H2AK119Ubq antibody, which was further purified using magnetic protein A coupled beads, and recovered DNA was used for high-throughput sequencing.	The LIN- HSCs were isolated from the bone marrow of the indicated mice using the hematopoietic progenitor enrichment kit (StemCell Technologies), infected and kept in liquid culture Libraries were prepared according to Illumina's instructions accompanying the DNA Sample Kit (Part# 0801-0303).	
Protocol Type	normalization data transformation protocol	sample treatment protocol	nucleic acid library construction protocol	
Experimental Factor Name	transduction	antibody		
Experimental Factor Type	transduction	antibody		
Publication Title	Maintenance of leukemic cell identity by the activity of the Polycomb complex PRC1 in mice.			
Publication Author List	Rossi A, Ferrari KJ, Piunti A, Jammula S, Chiacchiera F, Mazzarella L, Scelfo A, Pelicci PG, Pasini D			
PubMed ID	27730210			
Publication DOI	10.1126/sciadv.1600972			
Comment[SecondaryAccession]	GSE67498			
Comment[GEOReleaseDate]	2016-10-21			
Comment[ArrayExpressSubmissionDate]	2015-04-01			
Comment[GEOLastUpdateDate]	2016-10-21			
Comment[AEExperimentType]	ChIP-seq			
Comment[SecondaryAccession]	SRP056797			
Comment[SequenceDataURI]	http://www.ebi.ac.uk/ena/data/view/SRR1950316-SRR1950320			
SDRF File	E-GEOD-67498.sdrf.txt