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Bacterial communities from kitchen dust samples

ABSTRACT: dust samples Raw sequence reads

PROVIDER: PRJNA860766 | ENA |

REPOSITORIES: ENA

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Dataset's files

Source:

			Action	DRS
	SRR20394370.fastq.gz	Fastqsanger.gz
	SRR20394371.fastq.gz	Fastqsanger.gz
	SRR20394372.fastq.gz	Fastqsanger.gz
	SRR20394373.fastq.gz	Fastqsanger.gz
	SRR20394374.fastq.gz	Fastqsanger.gz

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Whole lung transcriptomics of a house dust mite/cyclic di-GMP model of severe asthma

Project description:Purpose: Identify whole lung gene expression patterns in a house dust mite model of severe asthma Methods: Lung gene expression profiles of 10 week old BALB/c female mice were generated by ribosome-depleted, 100 nt, paired-end, stranded RNA-seq with Illumina HiSeq v4. Sequence reads were analyzed with Sailfish-cir to identify linear RNA transcripts and circular RNAs. Differential expression of linear RNAs was assessed with Deseq2 . QRT–PCR validation was performed using TaqMan and SYBR Green methods. Results: 100 million sequence reads per sample were mapped to the mouse genome (build mm10) using Sailfish-cir to identify linear and circular RNA transcripts. Pathway analysis of differentially expressed genes identified upregulation of gene sets for human Th17 high, Th2 low asthma. An LNA/DNA miR-155 antagonist upregulated interferon signaling pathways suggesting a general antiinflammatory effect of LNA/DNA oligos in the lung. Dexamethasone did not consistently reduce expression of Th2 or Th17 biomarker genes. Conclusions: Cyclic di-GMP plus house dust mite allergens elicited a Th2 low, Th17 high gene expression profile that was not consistently modified by treatment with dexamethasone.

2019-06-08 | GSE132377 | GEO

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