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Accession IconSRP072566

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

Organism Icon Homo sapiens
Sample Icon 6 Downloadable Samples
Technology Badge IconIllumina HiSeq 2000

Submitter Supplied Information

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 Overall design: mRNA profiles of the pancreatic islets from 3 human donors transduced with Ad.sh-NKX2.2 or scramble sh-RNA control vector were generated by deep sequencing , using Illumina HiSeq2000.
PubMed ID
Total Samples
6
Submitter’s Institution
No associated institution

Samples

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Additional Metadata
LG3
pancreatic islets
pancreatic islets
NA
LG6
pancreatic islets
pancreatic islets
NA
LG9
pancreatic islets
pancreatic islets
NA
LG2
pancreatic islets
pancreatic islets
NA
LG5
pancreatic islets
pancreatic islets
NA
LG8
pancreatic islets
pancreatic islets
NA
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