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Series GSE122330 Query DataSets for GSE122330
Status Public on Jan 06, 2019
Title Preparing for the first breath at single cell level [single cell Fluidigm C1]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary The respiratory system undergoes remarkable structural, biochemical, and functional changes necessary for adaptation to air breathing at birth. To identify dynamic changes in gene expression in the diverse pulmonary cells at birth, we performed Drop-seq based massive parallel single-cell RNA sequencing. An iterative cell type identification strategy was used to unbiasedly identify the heterogeneity of murine pulmonary cell types on postnatal day 1. Distinct populations of epithelial, endothelial, mesenchymal, and immune cells were identified, each containing distinct subpopulations. Cell type predictions and signature genes identified using Drop-seq were cross-validated using an independent single cell isolation platform. Temporal changes in RNA expression patterns were compared before and after birth to identify signaling pathways selectively activated in specific pulmonary cell types, demonstrating activation of UPR signaling during perinatal adaptation of the lung. Present data provide the first single cell view of the adaptation to air breathing after birth. All data from the present study are freely accessed at
Overall design Left and right lobes of PND1 mouse lungs were rapidly dissected in ice-cold PBS. Cell concentration was examined with a hemocytometer and adjusted to around 300 cells per microliter for Fluidigm C1.
Contributor(s) Xu Y, Whitsett J, Potter SS, Guo M, Du Y
Citation(s) 30604742
Submission date Nov 08, 2018
Last update date Mar 21, 2019
Contact name Yan Xu
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 (4)
GSM3464103 mouse whole lung at PND1_Pool1
GSM3464104 mouse whole lung at PND1_Pool2
GSM3464105 mouse whole lung at PND1_Pool3
This SubSeries is part of SuperSeries:
GSE122332 Preparing for the first breath at single cell level
BioProject PRJNA504644
SRA SRP168241

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Supplementary file Size Download File type/resource
GSE122330_file.txt.gz 3.3 Kb (ftp)(http) TXT
GSE122330_mouse_scRNAseq_PND1_expression_TPM_.xlsx 12.4 Mb (ftp)(http) XLSX
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