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Series GSE228950 Query DataSets for GSE228950
Status Public on Sep 08, 2023
Title 3D genome organization coordinates key regulators of lineage specification in mammary epithelial cells [T8_CUT&Tag]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary In order to understand gene regulation of epithelial cells in the mouse mammary gland, we have generated a comprehensive epigenetic atlas from freshly sorted myoepithelial (basal), luminal progenitor (LP) and mature luminal (ML) from adult mice (9 week-old) encompassing gene expression profiling, histone and polymerase II CUT&Tag sequencing, chromatin accessibility via ATAC-seq and chromatin interactions. We further studied the basal compartment by sorting to additional cell type population: Tspan8+ (quiescent basal, QBa) and Tspan8- (active basal, ABa) cells.
 
Overall design We then performed CUT&Tag on mouse epithelial mammary gland cell types in the basal compartment: sorted Tspan8+ (quiescent basal, QBa, Lin-/CD29hi/CD24+/Tspan8+) and Tspan8- (active basal, ABa, Lin-/CD29hi/CD24+/Tspan8-) with antibodies for: H3K27me3, H3K4me1, H3K4me3, H3K36me3, H2AK119ub, H3K9ac, H3K9me2, H3K9me3, H3K27ac, PolII and IgG.
 
Contributor(s) Smyth GK, Coughlan HD, Milevskiy M
Citation(s) 38020976
Submission date Apr 04, 2023
Last update date Dec 08, 2023
Contact name Gordon K Smyth
E-mail(s) smyth@wehi.edu.au
Phone (+61 3) 9345 2326
Fax (+61 3) 9347 0852
URL http://www.wehi.edu.au
Organization name Walter and Eliza Hall Institute of Medical Research
Department Bioinformatics
Lab Smyth
Street address 1G Royal Pde
City Parkville
State/province Vic
ZIP/Postal code 3052
Country Australia
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (44)
GSM7145315 Tspan8+ Basal cells H3K27me3 bio rep 1 [P7_H3K27me3_1]
GSM7145316 Tspan8+ Basal cells H3K27me3 bio rep 2 [P7_H3K27me3_2]
GSM7145317 Tspan8+ Basal cells H3K4me1 bio rep 1 [P7_H3K4me1_1]
This SubSeries is part of SuperSeries:
GSE227750 3D genome organization coordinates key regulators of lineage specification in mammary epithelial cells
Relations
BioProject PRJNA952235

Download family Format
SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE228950_RAW.tar 1.1 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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