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Title: RNA-Seq analysis of NKX2.2 knockdown in human pancreatic islets      
keywords:
Transcriptome or Gene expression
ID:
PRJNA316850
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.
accesstypes:
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landingpage: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA316850
authentication:
none
authorization:
none
ID:
pmid:27941248
name:
Homo sapiens
ncbiID:
ncbitax:9606
abbreviation:
NCBI
homePage: http://www.ncbi.nlm.nih.gov
ID:
SCR:006472
name:
National Center for Biotechnology Information
homePage: http://www.ncbi.nlm.nih.gov/bioproject
ID:
SCR:004801
name:
NCBI BioProject
  • P30 CA016087/CA/NCI NIH HHS/United States

  • P30 CA015704/CA/NCI NIH HHS/United States

  • P30 DK020541/DK/NIDDK NIH HHS/United States

  • R01 DK082590/DK/NIDDK NIH HHS/United States

  • R01 DK088383/DK/NIDDK NIH HHS/United States

  • P30 DK063608/DK/NIDDK NIH HHS/United States

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