A5052753769- Genomics and Chromatin Dynamics
- RNA Research and Splicing
- RNA modifications and cancer
- Chromatin Remodeling and Cancer
- Neuroscience and Neuropharmacology Research
- Amino Acid Enzymes and Metabolism
- Epigenetics and DNA Methylation
- Pluripotent Stem Cells Research
- RNA regulation and disease
- RNA and protein synthesis mechanisms
- Educational Technology and Assessment
- DNA and Nucleic Acid Chemistry
- Genetics, Aging, and Longevity in Model Organisms
- Protein Interaction Studies and Fluorescence Analysis
- Higher Education and Teaching Methods
- Cancer Genomics and Diagnostics
- Educational Tools and Methods
- Porphyrin and Phthalocyanine Chemistry
- FOXO transcription factor regulation
- MicroRNA in disease regulation
- Cell Adhesion Molecules Research
- Chromosomal and Genetic Variations
- Cancer-related gene regulation
- TGF-β signaling in diseases
- Circular RNAs in diseases
University of Miami
2023-2025
Korea Advanced Institute of Science and Technology
2015-2024
Sylvester Comprehensive Cancer Center
2023-2024
Howard Hughes Medical Institute
2023-2024
Kyungwoon University
2012
Abstract Triple-negative breast cancer (TNBC) is a malignant subtype with high risk of recurrence and an aggressive phenotype compared to other subtypes. Although many studies conducted date have investigated genetic variations differential target gene expression, how 3D chromatin architectures are reorganized in TNBC has been poorly elucidated. Here, using situ Hi-C technology, we characterized the organization cells representing five distinct subtypes (including TNBC) that normal cells. We...
CCCTC-binding factor (CTCF) is essential for chromatin organization. CTCF interacts with endogenous RNAs, and deletion of its ZF1 RNA-binding region (∆ZF1) disrupts loops in mouse embryonic stem cells (ESCs). However, the functional significance CTCF-ZF1 RNA interactions during cell differentiation unknown. Using an ESC-to-neural progenitor (NPC) model, we show that crucial maintaining cell-type-specific loops. Expression CTCF-∆ZF1 leads to disrupted dysregulation genes within these loops,...
Inositol polyphosphate multikinase (IPMK), a key enzyme in inositol (IP) metabolism, is pleiotropic signaling factor involved major biological events, including transcriptional control. In the yeast, IPMK and its IP products promote activity of chromatin remodeling complex SWI/SNF, which plays critical role gene expression by regulating accessibility. However, direct link between remodelers remains unclear, raising question how contributes to regulation mammals. By employing unbiased...
Promoter-proximal pausing of RNA polymerase II (RNAPII) is a critical step for the precise regulation gene expression. Despite apparent close relationship between promoter-proximal and nucleosome, role chromatin remodeler governing this has mainly remained elusive.Here, we report highly confined RNAPII enrichments downstream transcriptional start site in Saccharomyces cerevisiae using PRO-seq experiments. This non-uniform distribution exhibits both similar different characteristics with...
CCCTC-binding factor (CTCF) critically contributes to 3Dchromatin organization by determining topologically associated domain (TAD) borders.Although CTCF primarily binds at TAD borders, there also exist putative CTCF-binding sites within TADs, which are spread throughout the genome retrotransposition.However, detailed mechanism responsible for masking remains largely elusive.Here, we show that ATPdependent chromatin remodeler, chromodomain helicase DNA-binding 4 (CHD4), regulates...
Summary The 3D architecture that the genome is folded into regulated by CTCF, which determines domain borders, and cohesin, generates interactions within domains. However, organisms lacking CTCF have been reported to still cohesin-mediated structures with strong borders. How this can be achieved precisely are yet unknown. Using in situ Hi-C, we found 3’-end RNA processing factors coupled proper transcription termination a cis-acting determinant regulates localization dynamics of cohesin on...
The binding mode of a porphyrin dimer to double stranded native DNA was investigated in this study using normal electric absorption, circular dichroism (CD) and linear (LD) spectroscopies. At the time mixing, spectral properties upon its association with were characterized by hypochromism red shift absorption spectrum complicated CD negative LD Soret region. As elapsed, became single band signal increased. These changes suggested that majority both moieties intercalated between base-pairs....
Abstract Promoter-proximal pausing of RNA polymerase II (RNAPII) is a critical step in early transcription elongation for the precise regulation gene expression. Here, we provide evidence promoter-proximal pausing-like distributions RNAPII S. cerevisiae . We found that genes bearing an alternative site utilize Ino80p to properly localize at first and suppress accumulation second site, which tightly associated with +1 nucleosome. This determination was dependent on remodeling activity...
Abstract CTCF plays a critical role in the 3D chromatin organization by determining TAD borders. Although primarily binds at borders, there also exist putative CTCF-binding sites within TADs, which are spread throughout genome retrotransposition. However, detailed mechanism responsible for masking these remains elusive. Here, we show that ATP-dependent remodeler, CHD4, regulates accessibility to conceal aberrant embedded H3K9me3-enriched heterochromatic B2 SINEs mouse embryonic stem cells...
ABSTRACT Inositol polyphosphate multikinase (IPMK), a key enzyme in the inositol (IP) metabolism, is pleiotropic signaling factor involved major biological events including transcriptional control. In yeasts, IPMK and its IP products were known to promote activity of SWI/SNF chromatin remodeling complex, which plays critical role gene expression by regulating accessibility. However, direct linkage between remodelers remains unclear, raising question on how contributes regulation mammals. By...