Epigenetic remodeling in innate immunity and inflammation

Q Zhang, X Cao - Annual review of immunology, 2021 - annualreviews.org
The innate immune response is a rapid response to pathogens or danger signals. It is
precisely activated not only to efficiently eliminate pathogens but also to avoid excessive …

Three-dimensional genome organization in immune cell fate and function

S Cuartero, G Stik, R Stadhouders - Nature Reviews Immunology, 2023 - nature.com
Immune cell development and activation demand the precise and coordinated control of
transcriptional programmes. Three-dimensional (3D) organization of the genome has …

[HTML][HTML] Nonpeptidergic neurons suppress mast cells via glutamate to maintain skin homeostasis

S Zhang, TN Edwards, VK Chaudhri, J Wu, JA Cohen… - Cell, 2021 - cell.com
Cutaneous mast cells mediate numerous skin inflammatory processes and have anatomical
and functional associations with sensory afferent neurons. We reveal that epidermal nerve …

[HTML][HTML] Competition for active TGFβ cytokine allows for selective retention of antigen-specific tissue-resident memory T cells in the epidermal niche

T Hirai, Y Yang, Y Zenke, H Li, VK Chaudhri, S Jacinto… - Immunity, 2021 - cell.com
Following antigen-driven expansion in lymph node, transforming growth factor-β (TGFβ) is
required for differentiation of skin-recruited CD8+ T cell effectors into epidermal resident …

ATAC-STARR-seq reveals transcription factor–bound activators and silencers within chromatin-accessible regions of the human genome

TJ Hansen, E Hodges - Genome research, 2022 - genome.cshlp.org
Massively parallel reporter assays (MPRAs) test the capacity of putative gene regulatory
elements to drive transcription on a genome-wide scale. Most gene regulatory activity occurs …

FoxP3 associates with enhancer-promoter loops to regulate Treg-specific gene expression

RN Ramirez, K Chowdhary, J Leon, D Mathis… - Science …, 2022 - science.org
Gene expression programs are specified by higher-order chromatin structure and enhancer-
promoter loops (EPLs). T regulatory cell (Treg) identity is dominantly specified by the …

A flexible repertoire of transcription factor binding sites and a diversity threshold determines enhancer activity in embryonic stem cells

G Singh, S Mullany, SD Moorthy, R Zhang… - Genome …, 2021 - genome.cshlp.org
Transcriptional enhancers are critical for development and phenotype evolution and are
often mutated in disease contexts; however, even in well-studied cell types, the sequence …

An IRF4–MYC–mTORC1 integrated pathway controls cell growth and the proliferative capacity of activated B cells during B cell differentiation in vivo

DG Patterson, AK Kania, MJ Price, JR Rose… - The Journal of …, 2021 - journals.aai.org
Cell division is an essential component of B cell differentiation to Ab-secreting plasma cells,
with critical reprogramming occurring during the initial stages of B cell activation. However, a …

Network approaches for dissecting the immune system

H Shi, KK Yan, L Ding, C Qian, H Chi, J Yu - Iscience, 2020 - cell.com
The immune system is a complex biological network composed of hierarchically organized
genes, proteins, and cellular components that combat external pathogens and monitor the …

Pre-mitotic genome re-organisation bookends the B cell differentiation process

WF Chan, HD Coughlan, JHS Zhou… - Nature …, 2021 - nature.com
During cellular differentiation chromosome conformation is intricately remodelled to support
the lineage-specific transcriptional programs required for initiating and maintaining lineage …