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Series GSE228944 Query DataSets for GSE228944
Status Public on Sep 08, 2023
Title 3D genome organization coordinates key regulators of lineage specification in mammary epithelial cells [T8_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 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+) cellular populations from adult mice in duplicate.
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 (4)
GSM7143100 Tspan8- Basal cells, biol rep 1 [P6_ATAC_1]
GSM7143101 Tspan8- Basal cells, biol rep 2 [P6_ATAC_2]
GSM7143102 Tspan8+ Basal cells, biol rep 1 [P7_ATAC_1]
This SubSeries is part of SuperSeries:
GSE227750 3D genome organization coordinates key regulators of lineage specification in mammary epithelial cells
BioProject PRJNA952230

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Supplementary file Size Download File type/resource
GSE228944_RAW.tar 749.6 Mb (http)(custom) TAR (of BW)
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Raw data are available in SRA
Processed data provided as supplementary file

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