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Title: Genome structure and organization in mouse CD8 T cells [Hi-C-seq]      
keywords:
Other
ID:
PRJNA338789
description:
Our experiments aimed to investigate the landscape of enhancers and super-enhancers in naïve, effector and memory CD8+ T cells. Here we mapped four histone modification marks and gene expression in naive, effector, and memory cells after viral infection. Our results suggest that the chromatin environment at regulatory DNA sequences in TCM is more permissive than in TN and TE. We further predicted the enhancers and their targets, and constructed transcriptional regulatory networks (TRNs) in three T cell stages. We have identified a highly dynamic repertoire of the enhancers and their targets during CD8 T cell responses, as 77% of the enhancers and 82% of the enhancer-promoter interactions are stage-specific. Our results suggest the dynamic change of enhancer activity during cell stage transition leads to TRN rewiring, which explains the expression change of the key factors of T cell function. Overall design: We performed RNA-Seq experiments in WT and Tcf1/Lef1 difficient CD8+ T cells, and performed Hi-C experiments in WT cells.
accesstypes:
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landingpage: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA338789
authentication:
none
authorization:
none
ID:
pmid:27986453
name:
Mus musculus
ncbiID:
ncbitax:10090
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
  • I01 BX002903/BX/BLRD VA/United States

  • R01 GM104369/GM/NIGMS NIH HHS/United States

  • R21 AI105351/AI/NIAID NIH HHS/United States

  • R21 AI119160/AI/NIAID NIH HHS/United States

  • P30 CA086862/CA/NCI NIH HHS/United States

  • R01 AI042767/AI/NIAID NIH HHS/United States

  • R01 AI112579/AI/NIAID NIH HHS/United States

  • R01 GM113961/GM/NIGMS NIH HHS/United States

  • R01 HG006130/HG/NHGRI NIH HHS/United States

  • R21 AI115149/AI/NIAID NIH HHS/United States

  • R01 AI114543/AI/NIAID NIH HHS/United States

  • R01 GM108716/GM/NIGMS NIH HHS/United States

  • R01 AI121080/AI/NIAID NIH HHS/United States

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