Comment[ArrayExpressAccession]	E-GEOD-58362
MAGE-TAB Version	1.1							
Public Release Date	2014-06-11
Investigation Title	Regulation of gene expression through genome-wide co-binding of Hoxa9 and C/EBPα in transformed HSCs							
Comment[Submitted Name]	Regulation of gene expression through genome-wide co-binding of Hoxa9 and C/EBPα in transformed HSCs
Experiment Description	This SuperSeries is composed of the SubSeries listed below. Refer to individual Series							
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	Hess							
Person First Name	Jay							
Person Mid Initials	L.							
Person Email	jayhess@iu.edu							
Person Affiliation	Indiana University							
Person Address	School of Medicine, Indiana University, 340 West 10th Street, Fairbanks 6200, Indianapolis, IN, USA							
Person Roles	submitter							
Protocol Name	P-GSE58362-1	P-GSE58362-6	P-GSE58362-4	P-GSE58362-8	P-GSE58362-3	P-GSE58362-5	P-GSE58362-7	P-GSE58362-2
Protocol Description	Cells transformed by continuous culture with 100nM 4OHT were washed 3x and cultured for 72hrs in EtOH or 100nM 4OHT.	none	Cells treated with EtOH (vehicle) or 5nM 4OHT for 72 hours.	Lysates were clarified from sonicated cells and histone-DNA complexes were isolated with antibody. Immunoprecipitated chromatin was RNase treated and column purified. Libraries were generated using Illumina ChIP-seq Library Preparation Kit	RNA was purified using Qiagen RNeasy Kit with on-column DNase digestion. Libraries were generated from purified RNA using Illumina TruSeq RNA Sample Preparation Kit	Bone marrow from Cebpaf/f;CreER mice was lineage depleted using the EasyStep Mouse Hematopoietic Progenitor Cell Enrichment Kit (Stem Cell Tech) and retrovirally transduced with MIGR1-HA-Hoxa9 and MIGR1-Flag-Meis1. Cells cultured in the presence of IL3. Continous treatment with 4OHT (5nM) leads to excision of Cepbaand loss of protein levels. EtOH is the vehicle for 4OHT.	Bone marrow from C57B6 mice was lineage depleted using the EasyStep Mouse Hematopoietic Progenitor Cell Enrichment Kit (Stem Cell Tech) and retrovirally transduced with MIGR1-HA-Hoxa9 and MIGR1-Flag-Meis1. Cells cultured in the presence of IL3.	Bone marrow from C57B6 mice was lineage depleted using the EasyStep Mouse Hematopoietic Progenitor Cell Enrichment Kit (Stem Cell Tech) and retrovirally transduced with MIGR1-HA-Hoxa9-ER and MIGR1-Flag-Meis1. Cells cultured in the presence of IL3 and 4OHT (100nM). Withdrawal of 4OHT, and culture in EtOH (vehicle) leads to loss of nuclear Hoxa9-ER.
Protocol Type	sample treatment protocol	sample treatment protocol	sample treatment protocol	nucleic acid library construction protocol	nucleic acid library construction protocol	growth protocol	growth protocol	growth protocol
Experimental Factor Name	CHIP ANTIBODY CAT. #	CHIP ANTIBODY VENDOR	CHIP ANTIBODY	TREATED WITH	CELL TYPE	CULTURED WITH		
Experimental Factor Type	chip antibody cat. #	chip antibody vendor	chip antibody	treated with	cell type	cultured with		
Comment[SecondaryAccession]	GSE58362							
Comment[GEOReleaseDate]	2014-06-11							
Comment[ArrayExpressSubmissionDate]	2014-06-10							
Comment[GEOLastUpdateDate]	2014-06-12							
Comment[AEExperimentType]	RNA-seq of coding RNA							
Comment[AEExperimentType]	ChIP-seq							
SDRF File	E-GEOD-58362.sdrf.txt