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Series GSE121600 Query DataSets for GSE121600
Status Public on Sep 20, 2019
Title Single-cell RNA-seq reveals novel cell differentiation dynamics during human airway epithelium regeneration
Organisms Homo sapiens; Sus scrofa; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary The upper airway epithelium is mainly composed of 4 cell types: multiciliated, goblet, secretory and basal cells. It constitutes an efficient first line of defense of the respiratory tract against a large panel of inhaled substances. Upon injury, regeneration of this epithelium through proliferation and differentiation events can restore a proper mucociliary function. In chronic airway diseases, such as chronic obstructive pulmonary disease or asthma, the injured epithelium frequently displays defective repair leading to tissue remodeling, characterized by a loss of multiciliated cells and mucus hyper-secretion. This situation emphasizes the need to accurately delineate the drivers of differentiation dynamics and cell fate in human airway epithelium. We have used single cell transcriptomics to characterize the sequence of cellular and molecular processes taking place during human airway mucociliary epithelium regeneration in vitro. A comparison with single-cell data from fresh human and pig airway samples, and from in vitro mouse tracheal epithelial cells confirmed our findings in several distinct mammalian species. Single-cell RNA-seq in the airways provides novel insights in differentiation dynamics with the identification of alternative cell trajectories, novel cell subpopulations and by mapping the activation and repression of key signaling pathways.
 
Overall design Single-cell RNA-seq of airway epithelial cells from various origins: human in vitro time course differentiation, human bronchial biopsy, human nasal brushing, human nasal turbinate, mouse in vitro differentiation and pig trachea
 
Contributor(s) Ruiz-Garcia S, Deprez M, Lebrigand K, Paquet A, Cavard A, Caballero I, Arguel MJ, Leroy S, Marquette CH, Barbry P, Zaragosi LE
Citation(s) 31558434
Submission date Oct 22, 2018
Last update date Feb 28, 2021
Contact name Kevin Lebrigand
Organization name IPMC/CNRS
Lab Functional Genomics Platform of Nice-Sophia-Antipolis, France.
Street address 660 route des lucioles
City Valbonne - Sophia-Antipolis
ZIP/Postal code 06560
Country France
 
Platforms (3)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
GPL19057 Illumina NextSeq 500 (Mus musculus)
GPL20983 Illumina NextSeq 500 (Sus scrofa)
Samples (22)
GSM3439913 HAECs_BEGM_ALI2
GSM3439914 HAECs_BEGM_ALI4
GSM3439915 HAECs_BEGM_ALI7
Relations
BioProject PRJNA498675
SRA SRP166983

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Supplementary file Size Download File type/resource
GSE121600_RAW.tar 830.1 Mb (http)(custom) TAR (of H5)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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