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Next generation sequencing of chicken otocyst with pharmacologicaly induced loss-of-Wnt signalling

ABSTRACT: Next generation sequencing of chicken otocyst with pharmacologicaly induced loss-of-Wnt signalling

PROVIDER: PRJNA678981 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13074800.fastq.gz	Fastqsanger.gz
	SRR13074801.fastq.gz	Fastqsanger.gz
	SRR13074802.fastq.gz	Fastqsanger.gz
	SRR13074803.fastq.gz	Fastqsanger.gz
	SRR13074804.fastq.gz	Fastqsanger.gz

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Next generation sequencing of chicken otocyst with pharmacologicaly induced loss-of-Wnt signalling

Project description:Bulk RNA-sequencing of individual E2.5 chicken otocyst incubated in media enriched with Wnt signalling inhibitor IWR-1 or control condition (DMSO) for 24h. Transcripts abundance was mapped to a chicken reference genome using Kallisto package and differentially expressed genes were identify using Sleuth package (genes with p-value < 0.05 were considered as significant). Biological Function enrichment analysis (Toppgene online tool) showed that many of these genes were associated with neurogenesis.

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Next generation sequencing of chicken otocyst with pharmacologically induced loss-of-Wnt signalling

Project description:Bulk RNA-sequencing of individual E2.5 chicken otocyst incubated in media enriched with Wnt signalling inhibitor IWR-1 or control condition (DMSO) for 24h. Transcripts abundance was mapped to a chicken reference genome using Kallisto package and differentially expressed genes were identify using Sleuth package (genes with p-value < 0.05 were considered as significant). The expression of 1340 genes was significantly changed:733 genes were up-regulated and 607 were down-regulated. Biological Function enrichment analysis (Toppgene online tool) showed that many of these genes were associated with neurogenesis.

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Project description:Bulk RNA-sequencing of individual E3 chicken otocyst, in which Wnt signaling activity was reduced by genetic manipulation. The E2 otic placodes were in ovo transfected with a construct overexpressing truncated form of B-catenin reducing Wnt activity or a control plasmid expressing mCherry and collected 24h later. Transcripts abundance was mapped to a chicken reference genome using Kallisto package and differentially expressed genes were identify using Sleuth package (genes with p-value < 0.05 were considered as significant).

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Next generation sequencing of chicken otocyst with genetically induced loss-of-Wnt signalling

Project description:Next generation sequencing of chicken otocyst with genetically induced loss-of-Wnt signalling

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Next generation sequencing of chicken otocyst with pharmacologically induced loss-of-Wnt signalling

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Project description:Bulk RNA-sequencing of individual chicken otocysts, in which Notch activity was either stimulated or blocked. To stimulate Notch activity, the E2 otic placodes were in ovo transfected with a construct overexpressing Notch1 Intracellular domain (NICD1) or a control plasmid expressing mRFP1 and collected 6h or 24h later. To pharmacologically block Notch activity, E2.5 chicken otocysts were incubated in media enriched with γ-secretase Inhibitor or control condition (DMSO) for 6h or 24h. Transcripts abundance was mapped to a chicken reference genome using Kallisto package.

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