Transcriptomics,Genomics

Dataset Information

175

Distinct mesenchymal lineages and niches promote epithelial self-renewal and myofibrogenesis in the lung [Single cell RNA-Seq]


ABSTRACT: Single cell RNAseq using the 10x gemcode platform on bulk mesenchyme from one adult 6w old mouse. Overall design: Lungs were harvested from a 6-week old adult mouse and digested to generate a single-cell suspension. The cell suspension was stained with antibodies directed against Epcam, CD31 and CD45. DAPI was included as a live/dead stain. Cells that were negative for DAPI, EPCAM, CD31 and CD45, were sorted into collection buffer. The purified cells, referred to as bulk mesenchyme, were manually counted and subsequently loaded onto the 10x Genomics instrument, libraries were prepared according to the manufacture's protocol.

INSTRUMENT(S): Illumina NextSeq 500 (Mus musculus)

SUBMITTER: Michael Patrick Morley  

PROVIDER: GSE99714 | GEO | 2017-09-11

SECONDARY ACCESSION(S): PRJNA389398

REPOSITORIES: GEO

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Publications

Distinct Mesenchymal Lineages and Niches Promote Epithelial Self-Renewal and Myofibrogenesis in the Lung.

Zepp Jarod A JA   Zacharias William J WJ   Frank David B DB   Cavanaugh Christina A CA   Zhou Su S   Morley Michael P MP   Morrisey Edward E EE  

Cell 20170901 6


The lung is an architecturally complex organ comprising a heterogeneous mixture of various epithelial and mesenchymal lineages. We use single-cell RNA sequencing and signaling lineage reporters to generate a spatial and transcriptional map of the lung mesenchyme. We find that each mesenchymal lineage has a distinct spatial address and transcriptional profile leading to unique niche regulatory functions. The mesenchymal alveolar niche cell is Wnt responsive, expresses Pdgfrα, and is critical for  ...[more]

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