A5017634865- Genomics and Chromatin Dynamics
- Genomics and Phylogenetic Studies
- Immunotherapy and Immune Responses
- RNA and protein synthesis mechanisms
- Nuclear Receptors and Signaling
- Neutrophil, Myeloperoxidase and Oxidative Mechanisms
- Immune Cell Function and Interaction
- RNA Research and Splicing
- Chromosomal and Genetic Variations
- Immune Response and Inflammation
- Cancer Immunotherapy and Biomarkers
- Blood disorders and treatments
- Cell Adhesion Molecules Research
- Mast cells and histamine
- Advanced battery technologies research
- T-cell and B-cell Immunology
- Single-cell and spatial transcriptomics
- Cancer-related molecular mechanisms research
- Protein Hydrolysis and Bioactive Peptides
- S100 Proteins and Annexins
- Ubiquitin and proteasome pathways
- Protein Degradation and Inhibitors
- CRISPR and Genetic Engineering
- IL-33, ST2, and ILC Pathways
- Plant Molecular Biology Research
Korea Advanced Institute of Science and Technology
2016-2024
Korea Institute of Brain Science
2017-2023
Three-dimensional (3D) chromatin structure is an emerging paradigm for understanding gene regulation mechanisms. Hi-C (high-throughput conformation capture), a method to detect long-range interactions, allows extensive genome-wide investigation of 3D structure. However, broad application data have been hindered by the level complexity in processing and large size raw sequencing data. In order overcome these limitations, we constructed database named 3DIV (a 3D-genome Interaction Viewer...
Parkinson’s disease (PD) is a progressive neurodegenerative disorder. However, cell type–dependent transcriptional regulatory programs responsible for PD pathogenesis remain elusive. Here, we establish transcriptomic and epigenomic landscapes of the substantia nigra by profiling 113,207 nuclei obtained from healthy controls patients with PD. Our multiomics data integration provides type annotation 128,724 cis-regulatory elements (cREs) uncovers type–specific dysregulations in cREs strong...
Abstract Homeostasis of neutrophils—the blood cells that respond first to infection and tissue injury—is critical for the regulation immune responses regulated through granulopoiesis, a multi-stage process by which neutrophils differentiate from hematopoietic stem cells. Granulopoiesis is highly dynamic altered in certain clinical conditions, such as pathologic iatrogenic neutropenia, described demand-adapted granulopoiesis. The granulopoiesis under stress not completely understood because...
The spatiotemporal regulation of immune cells in lymph nodes (LNs) is crucial for mounting protective T-cell responses, which are orchestrated by dendritic (DCs). However, it unclear how the DC subsets altered inflammatory milieu LNs. Here, we show that inflamed LNs Listeria-infected mice characterized clustering neutrophils and monocytes IFN-γ production. Significantly, early responses coupled with differentiation not one, but two types CD64+CD11c+MHCII+ DCs. Through assessment chemokine...
Super-enhancers or stretch enhancers are clusters of active that often coordinate cell-type specific gene regulation during development and differentiation. In addition, the enrichment disease-associated single nucleotide polymorphism in super-enhancers indicates their critical function disease-specific regulation. However, little is known about beyond this study, through a comprehensive analysis 30 human cell/tissue types, we identified new class which constitutively across most types....
Abstract Motivation The importance of chromatin loops in gene regulation is broadly accepted. There are mainly two approaches to predict loops: transcription factor (TF) binding-dependent approach and genomic variation-based approach. However, neither these provides an adequate understanding human tissues. To address this issue, we developed a deep learning-based loop prediction model called Deep Learning-based Universal Chromatin Interaction Annotator (DeepLUCIA). Results Although DeepLUCIA...
ABSTRACT Large scale efforts to sequence whole human genomes provide extensive data on the non-coding portion of genome. We used variation information from 11,257 describe spectrum conservation in population. established genome-wide variability for each nucleotide context surrounding order identify departure expectation at population level (context-dependent conservation). characterized diversity functional elements genome and identified coordination conserved sequences distal cis enhancers,...
Abstract Basophils are essential effector cells in many allergic disorders, but the terminal developmental processes through which basophils acquire their unique functional properties not fully understood. Here, we report identification of a novel population late-stage mitotic basophil precursor expressing high levels IgE receptor FcεRI alpha chain, termed ‘transitional basophils’ (tBasos). These tBasos produce type 2 cytokines more robustly than mature basophils, despite being less...
Abstract Super-enhancers or stretch enhancers are clusters of active that often coordinate cell-type specific gene regulation. However, little is known about the function super-enhancers beyond In this study, through a comprehensive analysis in 30 human cell/tissue types, we identified new class which constitutively across most types. These ‘common’ associated with universally highly expressed genes contrast to canonical definition assert addition, genome sequence these conserved by...