A5035847757- Epigenetics and DNA Methylation
- RNA modifications and cancer
- Genomics and Phylogenetic Studies
- Genomics and Chromatin Dynamics
- RNA Research and Splicing
- Cancer-related molecular mechanisms research
- RNA and protein synthesis mechanisms
- Cancer-related gene regulation
- Cytokine Signaling Pathways and Interactions
- MicroRNA in disease regulation
- Cancer Cells and Metastasis
- Microbial Community Ecology and Physiology
- Gene expression and cancer classification
- Immune cells in cancer
- RNA regulation and disease
- Immune Cell Function and Interaction
- Computational Drug Discovery Methods
- Chromatin Remodeling and Cancer
- Genetics and Neurodevelopmental Disorders
- T-cell and B-cell Immunology
- Cancer Mechanisms and Therapy
- SARS-CoV-2 and COVID-19 Research
- Single-cell and spatial transcriptomics
- Chromosomal and Genetic Variations
- Immunotherapy and Immune Responses
Dankook University
2016-2025
Deargen (South Korea)
2025
Dankook University Hospital
2022
National Institute of Diabetes and Digestive and Kidney Diseases
2012-2021
Korea University
2020
University of Applied Sciences Kufstein
2020
Innsbruck Medical University
2020
Universität Innsbruck
2020
National Institutes of Health Clinical Center
2016
National Institutes of Health
2012-2015
The infection of a novel coronavirus found in Wuhan China (SARS-CoV-2) is rapidly spreading, and the incidence rate increasing worldwide. Due to lack effective treatment options for SARS-CoV-2, various strategies are being tested China, including drug repurposing. In this study, we used our pre-trained deep learning-based drug-target interaction model called Molecule Transformer-Drug Target Interaction (MT-DTI) identify commercially available drugs that could act on viral proteins...
AEBP2 is a zinc finger protein that has been shown to interact with the mammalian Polycomb Repression Complex 2 (PRC2). In current study, we characterized this unknown and tested its potential targeting roles for PRC2. an evolutionarily well-conserved gene found in animals ranging from flying insects mammals. The transcription of driven by two alternative promoters produces at least isoforms protein. These show developmental stage-specific expression patterns: adult-specific larger form (51...
The switch between stem/progenitor cell expansion and differentiation is critical for organ homeostasis. mammalian Hippo pathway effector oncoprotein YAP expands undifferentiated cells in various tissues. However, the YAP-associated transcription factors downstream targets underlying this stemness-promoting activity are poorly understood. Here we show that SRF-IL6 axis mediator of YAP-induced stemness mammary epithelial breast cancer. Specifically, serum response factor (SRF)-mediated...
Abstract The infection of a novel coronavirus found in Wuhan China (2019-nCoV) is rapidly spreading, and the incidence rate increasing worldwide. Due to lack effective treatment options for 2019-nCoV, various strategies are being tested China, including drug repurposing. In this study, we used our pretrained deep learning-based drug-target interaction model called Molecule Transformer-Drug Target Interaction (MT-DTI) identify commercially available drugs that could act on viral proteins...
An accurate tool enabling early diagnosis of hepatocellular carcinoma (HCC) is clinically important, given that detection HCC markedly improves survival. We aimed to investigate the molecular markers underlying progression can be detected in precancerous lesions. designed a gene selection strategy identify potential driver genes by integrative analysis transcriptome and clinicopathological data human multistage tissues, including lesions, low‐ high‐grade dysplastic nodules. The process was...
Abstract Activation of macrophage proinflammatory and antimicrobial phenotypes is regulated by IFN-γ LPS via synergistic induction canonical, inflammatory NF-κB target genes. However, whether negatively regulates components the response, how this may affect activation, still unclear. Here we use combined transcriptomic epigenomic approaches to find that selectively abrogates LPS-induced feedback alters metabolic pathways suppressing TLR4-mediated gene activation. In contrast superinduction...
Temporal lobe epilepsy (TLE) remains one of the most drug-resistant focal epilepsies. Glutamate excitotoxicity and neuroinflammation which leads to loss synaptic proteins neuronal death appear represent a pathogen that characterizes neurobiology TLE. Photobiomodulation (PBM) is rapidly growing therapy for attenuation degeneration harboring non-invasiveness benefits. However, detailed effects PBM on or remain unclear. We investigated whether tPBM exerts neuroprotective hippocampal neurons in...
Histone-modifying enzymes play a pivotal role in gene expression and repression. In human, DOT1L (Dot1-like) is the only known histone H3 lysine 79 methyltransferase. hDOT1L associated with transcriptional activation, but general mechanism connecting to active transcription remains largely unknown. Here, we report that interacts phosphorylated C-terminal domain of actively transcribing RNA polymerase II (RNAPII) through region conserved uniquely multicellular DOT1 proteins. Genome-wide...
The transcription factors Signal Transducer and Activator of Transcription (STAT) 5A/B mediate prolactin-induced mammary development during pregnancy. However, it is not clear how the different processes, expansion maturation alveolar precursor cells differential induction milk protein genes are regulated on a molecular level. We have used mouse genetics genome-wide analyses to determine altering concentrations STAT5A STAT5B impacts epithelial pregnancy regulation target genes. presence only...
Three miR-34 family members (miR-34a, miR-34b, and miR-34c) are clustered on two different chromosomal loci, Mir34a Mir34b/c. These miRNAs have identical seed sequences, which predicted to target the same set of genes. However, miR-34a miR-34c sets negatively correlated genes in lung adenocarcinoma data from The Cancer Genome Atlas. Therefore, we hypothesized that individual members, tumor suppressive miRNAs, would varying effects tumorigenesis. To show this, overexpressed each cluster...
The microRNA‐200 (miR‐200) family plays a major role in specifying epithelial phenotype by preventing expression of the transcription repressors ZEB1 and ZEB2, which are well‐known regulators epithelial‐to‐mesenchymal transition (EMT) tumors including oral squamous cell carcinoma (OSCC). Here, we elucidated whether miR‐200 members control RNA‐binding protein quaking (QKI), newly identified tumor suppressor that is regulated during EMT. We predicted miR‐200a miR‐200b could recognize QKI...
// Keren Weidenfeld 1 , Sagi Schif-Zuck Hanan Abu-Tayeh Keunsoo Kang 2 Ofra Kessler 3 Marina Weissmann Gera Neufeld Dalit Barkan Department of Human Biology, University Haifa, Israel Microbiology, Dankook University, Cheonan, Republic Korea Cancer Research and Vascular Biology Center, The Bruce Rappaport Faculty Medicine, Technion, Institute Technology, Correspondence to: Barkan, email: dalitbrk@gmail.com Keywords: dormant tumor cells, breast cancer recurrence, stem epithelial mesenchymal...
Predicting drug-target interactions (DTI) is an essential part of the drug discovery process, which expensive process in terms time and cost. Therefore, reducing DTI cost could lead to reduced healthcare costs for a patient. In addition, precisely learned molecule representation model contribute developing personalized medicine, will help many patient cohorts. this paper, we propose new based on self-attention mechanism, using our representation. The experiments show that outperforms state...
Oral squamous cell carcinoma (OSCC) is a genetic and epigenetic disease. There growing evidence to suggest that environmental factors due changes can be involved in the OSCC pathogenesis. Although tumor suppressor genes (TSGs) are commonly inactivated by promoter hypermethylation human cancers, mechanism of TSGs remain unclear. We therefore assessed methylation status TSGs, which associated with silencing lines, primary tumors, normal oral mucosa. used 14 were originally identified colon...
Enhancer RNAs (eRNAs) are long non-coding that originate from enhancers. Although eRNA transcription is a canonical feature of activated enhancers, the molecular features required for function and mechanism how eRNAs impinge on target gene have not been established. Thus, using eRNA-dependent RNA polymerase II (Pol II) pause release as model, we here investigate requirement sequence, structure length their ability to stimulate Pol by detaching NELF paused II. We find exert through common...
Aberrant adenosine-to-inosine (A-to-I) RNA editing, catalyzed by adenosine deaminase acting on double-stranded (ADAR), has been implicated in various cancers, but the mechanisms which microRNA (miRNA) editing contributes to cancer development are largely unknown. Our multistage hepatocellular carcinogenesis transcriptome data analyses, together with publicly available data, indicated that ADAR1 was most profoundly dysregulated gene among RNA-editing enzyme family members liver cancer....
Dogs have become a valuable model in exploring multifaceted diseases and biology relevant to human health. Despite large-scale dog genome projects producing high-quality draft references, comprehensive annotation of functional elements is still lacking. We addressed this through integrative next-generation sequencing transcriptomes paired with five histone marks DNA methylome profiling across 11 tissue types, deciphering the dog's epigenetic code by defining distinct chromatin states,...
Octopus-toolkit is a stand-alone application for retrieving and processing large sets of next-generation sequencing (NGS) data with single step. an automated set-up-and-analysis pipeline utilizing the Aspera, SRA Toolkit, FastQC, Trimmomatic, HISAT2, STAR, Samtools, HOMER applications. All applications are installed on user's computer when program starts. Upon installation, it can automatically retrieve original files various epigenomic transcriptomic sets, including ChIP-seq, ATAC-seq,...