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Series GSE227749 Query DataSets for GSE227749
Status Public on Sep 08, 2023
Title 3D genome organization coordinates key regulators of lineage specification in mammary epithelial cells [RNASeq_T8]
Organism Mus musculus
Experiment type Expression 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.
We then performed gene expression profiling analysis using data obtained from RNA-seq of 2 different cell types Tspan8+ and Tspan8- cells.
 
Overall design RNA-seq profiles of 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 triplicate.
 
Contributor(s) Chen Y, Smyth GK, Coughlan HD, Milevskiy M
Citation(s) 38020976
Submission date Mar 20, 2023
Last update date Dec 08, 2023
Contact name Yunshun Chen
E-mail(s) yuchen@wehi.edu.au
Organization name Walter and Eliza Hall Institute of Medical Research
Department ACRF Cancer Biology and Stem Cells
Lab Chen
Street address 1G Royal Parade
City Parkville
State/province VIC
ZIP/Postal code 3052
Country Australia
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (6)
GSM7106775 Tspan8- Basal cells, biol rep 1
GSM7106776 Tspan8- Basal cells, biol rep 2
GSM7106777 Tspan8- Basal cells, biol rep 3
This SubSeries is part of SuperSeries:
GSE227750 3D genome organization coordinates key regulators of lineage specification in mammary epithelial cells
Relations
BioProject PRJNA946754

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

Supplementary file Size Download File type/resource
GSE227749_GeneCountMatrix.txt.gz 367.0 Kb (ftp)(http) TXT
GSE227749_RAW.tar 1.1 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

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