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Title: CHANGES IN DNA ACCESSIBILITY OCCUR IN PUTATIVE ENHANCER REGIONS OF A SUBSET OF T CELL MEMORY RESPONSIVE GENES      
keywords:
Epigenomics
ID:
PRJNA269042
description:
Naive T cells exist in a resting state until activated by the antigen they are specific for. Upon activation, T cells produce cytokines and other proteins necessary to fight infections and proliferate to produce more T cells specific for that antigen. Some of these descendants will be long-lived memory T cells, which will return to a resting state but are primed for a more rapid and robust immune response upon re-exposure to the same antigen. The molecular mechanisms responsible for this enhanced response are still unclear. Using a Jurkat cell culture model of transcriptional memory we have investigated the possibility that previously stimulated cells have differences in DNA accessibility compared to non-stimulated cells. We used Formaldehyde-Assisted Isolation of Regulatory Elements (FAIRE) in conjunction with high throughput sequencing to identify changes in DNA accessibility in response to stimulation, resting and re-stimulation. We found that although many of the changes in accessibility that were induced upon stimulation, were reversed upon stimulus withdrawal and resting of the cells, a large proportion remain accessible and a subset of these are near genes that have enhanced induction upon re-stimulation. Interestingly the accessibility associated with these ‘memory-responsive’ genes was not always at the transcription start site but sometimes occurred in putative enhancers of these genes. The role of Protein Kinase C in mediating these changes in accessibility was also examined using the inhibitor rottlerin. Overall design: 8 different biological samples were analysed. FAIRE samples and a Total Input sample were obtained.
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landingpage: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA269042
authentication:
none
authorization:
none
ID:
pmid:28317936
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