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Series GSE136954 Query DataSets for GSE136954
Status Public on Jun 04, 2020
Title Glucocorticoid Regulates Mesenchymal Cell Differentiation Required for Perinatal Lung Morphogenesis and Function
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary We integrated genome-wide gene expression profiling, ATAC-seq, and single cell RNA-seq data in mice in which GR was deleted or activated to identify the cellular and molecular mechanisms by which glucocorticoids control prenatal lung maturation. GR activated differentiation of a newly defined proliferative mesenchymal progenitor cell (PMP) into matrix fibroblasts (MFB), in part by directly activating extracellular matrix-associated target genes, including Fn1, Col16a4, and Eln and modulating FGF, VEGF, JAK-STAT and WNT signaling. Loss of mesenchymal GR signaling blocked PMP differentiation into mature MFB, which in turn caused proliferation of SOX9+ alveolar epithelial progenitor cells and inhibited differentiation of more mature AT2 and AT1 cells. GR signaling controls genes required for differentiation of a subset of proliferative mesenchymal progenitors into matrix fibroblasts in turn, regulating signals controlling AT2/AT1 progenitor cell proliferation and differentiation, identifying cells and processes by which glucocorticoid signaling regulates fetal lung function.
 
Overall design Using system biology approch we integrated genome-wide gene expression profiling, ATAC-seq and single cell RNA-seq data in mice in which GR was deleted or activated to identify the cellular and molecular mechanisms by which glucocorticoids control prenatal lung maturation.
 
Contributor(s) Bridges J, Sudha P, Guo M, Du Y, Xu Y, Whitsett J
Citation(s) 32460513
Submission date Sep 05, 2019
Last update date Sep 08, 2020
Contact name Yan Xu
E-mail(s) yan.xu@cchmc.org
Phone 513-6368921
Organization name Cincinnati Children's Hospital Medical Center
Street address 3333 Burnet Ave
City Cincinnati
State/province OH
ZIP/Postal code 45229
Country USA
 
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (41)
GSM4063593 E18.5 Dex RNA 1
GSM4063594 E18.5 Dex RNA 2
GSM4063595 E18.5 Dex RNA 3
Relations
BioProject PRJNA564113
SRA SRP220505

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
GSE136954_Cd106+_Cd106-_bulk_RNAseq_counts.txt.gz 191.2 Kb (ftp)(http) TXT
GSE136954_E16.broad_control_lambda.bw 195.6 Mb (ftp)(http) BW
GSE136954_E16.broad_treat_pileup.bw 571.0 Mb (ftp)(http) BW
GSE136954_E18.5_DexVsSaline_gene_counts.txt.gz 231.0 Kb (ftp)(http) TXT
GSE136954_E18.broad_control_lambda.bw 277.4 Mb (ftp)(http) BW
GSE136954_E18.broad_treat_pileup.bw 471.8 Mb (ftp)(http) BW
GSE136954_E18_5_c1_Dex_saline_counts.txt.gz 332.8 Kb (ftp)(http) TXT
GSE136954_E18_GSE136954_Cd106+Dex_bulk_RNAseq_counts.txt.gz 100.9 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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