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Homo sapiens

ABSTRACT: RNA-Seq analysis of NKX2.2 knockdown in human pancreatic islets

PROVIDER: PRJNA316850 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR3313330.fastq.gz	Fastqsanger.gz
	SRR3313331.fastq.gz	Fastqsanger.gz
	SRR3313326.fastq.gz	Fastqsanger.gz
	SRR3313327.fastq.gz	Fastqsanger.gz
	SRR3313328.fastq.gz	Fastqsanger.gz

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RNA-Seq analysis of NKX2.2 knockdown in human pancreatic islets

Project description:Aim:Transcriptional analysis of NKX2.2 knockdown versus control in human pancreatic islets Methods:Pancreatic islets from 3 human donors were transduced with an adenovirus encoding an shRNA directed against human NKX2.2 or a scrambled shRNA control. Total RNA was extracted.Libraries were prepared from total RNA (RIN>8) with the TruSeq RNA prep kit (Illumina) and sequenced using the HiSeq2000 (Illumina) instrument. More than 20 million reads were mapped to the human genome (Human: NCBI/build37.2)) using Tophat (version 2.0.4) with 4 mismatches and 10 maximum multiple hits. Significantly differentially expressed genes were calculated using DEseq. Results: Among the dysregulated genes with a p-value=0.05 are important genes for the maintenance of beta cell function and idenity. Conclusion: Nkx2.2 is a critical regulator of beta cell function and identity

2016-12-20 | GSE79724 | GEO

RNA-Seq analysis of the pancreatic islets of beta cell specific adult Nkx2.2 mutant mice

Project description:Aim:Transcriptional analysis of the pancreatic islets of adult Nkx2.2 flox/flox; RipCre mice versus control Methods:Pancreatic islets from 4week old Nkx2.2 mutant mice and controls were isolated and total RNA was extracted.Libraries were prepared from total RNA (RIN>8) with the TruSeq RNA prep kit (Illumina) and sequenced using the HiSeq2000 (Illumina) instrument. More than 20 million reads were mapped to the mouse genome (UCSC/mm9) using Tophat (version 2.0.4) with 4 mismatches and 10 maximum multiple hits. Significantly differentially expressed genes were calculated using DEseq. Results: Among the downregulated genes with a p-value=0.05 are important genes for beta cell function and idenity.Among the upregulated genes with a p-value=0.05 are non beta endocrine hormones. Conclusion: Nkx2.2 activates important beta cell genes and actively represses non beta cell genes

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Project description:Global transcriptomic analysis of human pancreatic islets reveals novel genes influencing glucose metabolism [RNA-seq]

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