EXPERIMENT_TITLE: GSM6311235: naïve CD4+ T cells, resting unstimulated, rep3; Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: T cells were FACS sorted from human peripheral blood samples of three healthy donors. Naive T cells were defined as CD4+CD127+CD25-CD45RA+; memory Th2 cells as CD4+CD127+CD25-CD45RA-CCR6-CXCR3/5-CCR4+ Cells were collected and crosslinked with 1% formaldehyde. Nuclei were digested with MboI followed by fill-in with bio-dATP, in-situ ligation and DNA extraction. DNA was sonicated and libraries were constructed using the the NEBNext DNA Library Prep Kit (New England Biolabs). Libraries were amplified for 8-12 cycles using Illumina TruSeq primers. Amplified libraries were purified and size-selected (>250bp) using Ampure XP beads.
STUDY_DESCRIPTOR_STUDY_ABSTRACT: During T cell responses, a fraction of activated cells adopts a memory phenotype and returns to quiescence. These long-lived memory T cells retain an irreversible molecular imprint that enables them to mount a secondary recall response to the same antigen that is faster and greater in magnitude than the primary response of a naive cell. Memory T cells provide long-lasting immunological protection, forming the foundation for vaccination strategies and representing prime targets for immunotherapies to treat diseases characterized by dysfunctional memory T cells - including cancer and chronic inflammation. The molecular circuitry that endows memory T cells with their rapid recall ability remains incompletely understood. Here, we applied a multi-layered 1D-3D epigenomics approach to systematically dissect the molecular program driving rapid recall in primary human Th2 cells. Overall design: Various omics datasets were generated from purified human naive and memory CD4+ T cells (n=3 donors) prior to and after T cell receptor stimulation. Findings were validated using flowcytometry, inhibitor studies and CRISPR-Cas9 genome editing in primary human CD4+T cells.
SAMPLE_TITLE: naïve CD4+ T cells, resting unstimulated, rep3
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "Peripheral blood"}, {"TAG": "individual", "VALUE": "healthy donor 3"}, {"TAG": "tissue", "VALUE": "Peripheral blood"}, {"TAG": "cell type", "VALUE": "primary T cells"}, {"TAG": "cell subtype", "VALUE": "na\u00efve CD4+ T cells"}, {"TAG": "treatment", "VALUE": "none"}, {"TAG": "geo_loc_name", "VALUE": "missing"}, {"TAG": "collection_date", "VALUE": "missing"}]
Pool_Member_@attributes_sample_title: naïve CD4+ T cells, resting unstimulated, rep3
RUN_SET_RUN_Pool_Member_@attributes_sample_title: naïve CD4+ T cells, resting unstimulated, rep3
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