A5102859737- Gene expression and cancer classification
- Bioinformatics and Genomic Networks
- CRISPR and Genetic Engineering
- Pluripotent Stem Cells Research
- Gene Regulatory Network Analysis
- Adipokines, Inflammation, and Metabolic Diseases
- RNA modifications and cancer
- Epigenetics and DNA Methylation
- Innovation and Socioeconomic Development
- Cancer, Hypoxia, and Metabolism
- Advanced biosensing and bioanalysis techniques
- Adipose Tissue and Metabolism
- Asthma and respiratory diseases
- IL-33, ST2, and ILC Pathways
- Nuts composition and effects
Myongji University
2022-2024
Seoul National University
2020-2024
New Generation University College
2024
Hanyang University
2024
Korea Advanced Institute of Science and Technology
2024
Kangwon National University
2024
Convergence
2024
Abstract Gene expressions are subtly regulated by quantifiable measures of genetic molecules such as interaction with other genes, methylation, mutations, transcription factor and histone modifications. Integrative analysis multi-omics data can help scientists understand the condition or patient-specific gene regulation mechanisms. However, is challenging since it requires not only multiple omics sets but also mining complex relations among different using state-of-the-art machine learning...
Abstract Thermogenic adipocytes generate heat to maintain body temperature against hypothermia in response cold. Although tight regulation of thermogenesis is required prevent energy sources depletion, the molecular details that tune are not thoroughly understood. Here, we demonstrate adipocyte hypoxia-inducible factor α (HIFα) plays a key role calibrating thermogenic function upon cold and re-warming. In beige adipocytes, HIFα attenuates protein kinase A (PKA) activity, leading suppression...
Abstract CRISPR-Cas9 nucleases are versatile tools for genetic engineering cells and function by producing targeted double-strand breaks (DSBs) in the DNA sequence. However, unintended production of large deletions (>100 bp) represents a challenge to effective application this genome-editing system. We optimized long-range amplicon sequencing system developed k-mer sequence-alignment algorithm simultaneously detect small alteration events deletions. With workflow, we determined that...
Asthma is a heterogeneous disease where various subtypes are established and molecular biomarkers of the yet to be discovered. Recent availability multi-omics data paved way discover for subtypes. However, biomarker discovery challenging because complex interplay between different omics layers.We propose deep attention model named Gene-level from multi-Omics using graph ATtention neural network (GOAT) identifying eosinophilic asthma with data. GOAT identifies genes that discriminate by...
When used to edit genomes, Cas9 nucleases produce targeted double-strand breaks in DNA. Subsequent DNA-repair pathways can induce large genomic deletions (larger than 100 bp), which constrains the applicability of genome editing. Here we show that Cas9-mediated at varying frequencies cancer cell lines, human embryonic stem cells and primary T cells, most are produced by two repair pathways: end resection DNA-polymerase theta-mediated joining. These findings required optimization long-range...
Pharmacogenomics is the study of how genes affect a person's response to drugs. Thus, understanding effect drug at molecular level can be helpful in both discovery and personalized medicine. Over years, transcriptome data upon treatment has been collected several databases compiled before cancer cell multi-omics with sensitivity (IC50, AUC) or time-series transcriptomic after treatment. However, analyzing challenging since more than 20,000 interact complex ways. In addition, due difficulty...
<title>Abstract</title> CRISPR-Cas9 nucleases are versatile tools for genetic engineering cells and function by producing targeted double-strand breaks (DSBs) in the DNA sequence. However, unintended production of large deletions (> 100 bp) represents a challenge to effective application this genome-editing system. We optimized long-range amplicon sequencing system developed k-mer sequence-alignment algorithm simultaneously detect small alteration events deletions. With workflow, we...
Gene expression profile or transcriptome can represent cellular states, thus understanding gene regulation mechanisms help understand how cells respond to external stress. Interaction between transcription factor (TF) and target (TG) is one of the representative regulatory in cells. In this paper, we present a novel computational method construct condition-specific transcriptional networks from data. Regulatory interaction TFs TGs very complex, specifically multiple-to-multiple relations....
Understanding condition-specific biological mechanisms from RNA-seq data requires comprehensive analysis of gene expression data, the to network level. However, this computational expertise, which limits accessibility for understanding mechanisms. Therefore, development an easy-to-use and system is essential. In response issue, we present TFNetPropX, a user-friendly web-based platform designed perform gene-level, gene-set-level, network-level under two different conditions. TFNetPropX...