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Series GSE228917 Query DataSets for GSE228917
Status Public on Sep 08, 2023
Title 3D genome organization coordinates key regulators of lineage specification in mammary epithelial cells [MEC_ATAC]
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 ATAC-seq sorted on myoepithelial (basal, Lin-/CD29hi/CD24+), luminal progenitor (LP, Lin-/CD29low/CD24+/CD61hi) and mature luminal (ML, Lin-/CD29low/CD24+/CD61low) cellular populations from adult mice in triplicate.
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
Phone (+61 3) 9345 2326
Fax (+61 3) 9347 0852
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 (9)
GSM7142618 Basal cells, biol rep 1 [Ba_ATAC_1]
GSM7142619 Basal cells, biol rep 2 [Ba_ATAC_2]
GSM7142620 Basal cells, biol rep 3 [Ba_ATAC_3]
This SubSeries is part of SuperSeries:
GSE227750 3D genome organization coordinates key regulators of lineage specification in mammary epithelial cells
BioProject PRJNA952192

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Supplementary file Size Download File type/resource
GSE228917_RAW.tar 1.9 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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