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Characterization of in vitro cultured alveolar macrophages (AM) transcriptomes and heterogeneity following Wnt3a treatment

ABSTRACT: Characterization of in vitro cultured alveolar macrophages (AM) transcriptomes and heterogeneity following Wnt3a treatment

PROVIDER: PRJNA691955 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13433126.fastq.gz	Fastqsanger.gz
	SRR13433127.fastq.gz	Fastqsanger.gz
	SRR13433156_1.fastq.gz	Fastqsanger.gz
	SRR13433156_2.fastq.gz	Fastqsanger.gz
	SRR13433157_1.fastq.gz	Fastqsanger.gz

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Characterization of in vitro cultured alveolar macrophages (AM) heterogeneity following Wnt3a treatment [single-cell RNA-seq]

Project description:Characterization of in vitro cultured alveolar macrophages (AM) heterogeneity following Wnt3a treatment [single-cell RNA-seq]

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Project description:To understand how Wnt signaling affects AM phenotype in vitro, we treated AMs pooled from 5 WT mice with or without Wnt3a for overnight and performed single-cell RNA sequencing analysis in the cells. Dimensionality reduction analysis of combined control or Wnt3a-treated AMs revealed eight clusters based on their gene expression pattern, and control or Wnt3a-treated AMs were almost mutually exclusive as visualized in UMAP plot.

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Characterization of in vitro cultured alveolar macrophages (AM) transcriptomes and heterogeneity following Wnt3a treatment

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Project description:To identify molecular characteristics of WT AM without Wnt3a, and WT, b-catenin-deficient or HIF-1a-deficient AM with Wnt3a stimulation in vitro, we isolated RNA from AMs with various treatments and examined by bulk RNA-seq. We found a large number of gene profiles were altered following Wnt3a treatment in WT AMs, while b-catenin and HIF-1a deficiency largely abolished the effects of Wnt3a treatment on AM transcription, suggesting that b-catenin and HIF-1a mediates most downstream effects of Wnt3a in AMs. Indeed,HIF-1a-deficient AMs essentially phenocopied those of b-catenin-deficient AMs, with more than 80% of differentially expressed genes in HIF-1a-deficient AMs overlapping with b-catenin-deficient AMs following Wnt3a treatment.

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