A5100756103- Earthquake Detection and Analysis
- Seismic Waves and Analysis
- Methane Hydrates and Related Phenomena
- Seismology and Earthquake Studies
- Ionosphere and magnetosphere dynamics
- Geophysics and Gravity Measurements
- Glycosylation and Glycoproteins Research
- Monoclonal and Polyclonal Antibodies Research
- Advanced Proteomics Techniques and Applications
- Genomics and Chromatin Dynamics
- Epigenetics and DNA Methylation
- Galectins and Cancer Biology
- Cancer-related gene regulation
- Genomics and Phylogenetic Studies
- Mass Spectrometry Techniques and Applications
- Autophagy in Disease and Therapy
- Peptidase Inhibition and Analysis
- RNA modifications and cancer
- Nicotinic Acetylcholine Receptors Study
- Ion channel regulation and function
- Ubiquitin and proteasome pathways
- DNA and Nucleic Acid Chemistry
- RNA and protein synthesis mechanisms
- Eurasian Exchange Networks
- Advanced biosensing and bioanalysis techniques
Korea Basic Science Institute
2016-2025
Hanyang University
2024
Korea Research Institute of Bioscience and Biotechnology
2009-2024
Korea University of Science and Technology
2023-2024
Pacific Northwest National Laboratory
2019-2021
Korea University
2013-2021
Seoul National University
2017-2020
Konkuk University
2018-2019
Seoul Women's University
2017-2018
Yonsei University
2014-2015
Cytosine methylation on CpG dinucleotides is an essential epigenetic modification in eukaryotes. How DNA modulates nucleosome structure and dynamics has been a long-standing question. We implemented single-molecule method to monitor the effects of mononucleosomes. Our studies show that induces more compact rigid structure, providing physical basis for how might contribute regulating chromatin structure.
Nucleosomes are the fundamental packing units of eukaryotic genome. Understanding dynamic structure a nucleosome is key to elucidation genome packaging in eukaryotes, which tied mechanisms gene regulation. CpG methylation DNA an epigenetic modification associated with inactivation transcription and formation repressive chromatin structure. Unraveling changes nucleosomes upon essential step toward understanding repression silencing by methylation. Here we report single-molecule ensemble...
Human glycoproteins exhibit enormous heterogeneity at each N-glycosite, but few studies have attempted to globally characterize the site-specific structural features. We developed Integrated GlycoProteome Analyzer (I-GPA) including mapping system for complex N-glycoproteomes, which combines methods tandem mass spectrometry with a database search and algorithmic suite. Using an N-glycopeptide that we constructed, created novel scoring algorithms decoy glycopeptides, where 95 N-glycopeptides...
Abstract LAR-RPTPs are evolutionarily conserved presynaptic cell-adhesion molecules that orchestrate multifarious synaptic adhesion pathways. Extensive alternative splicing of LAR-RPTP mRNAs may produce innumerable isoforms act as regulatory “codes” for determining the identity and strength specific synapse signaling. However, no direct evidence this hypothesis exists. Here, using targeted RNA sequencing, we detected in diverse cell types across adult male mouse brain areas. We found...
VSTx1 is a voltage sensor toxin from the spider Grammostola spatulata that inhibits KvAP, an archeabacterial voltage-activated K(+) channel whose X-ray structure has been reported. Although receptor for and mechanism of inhibition are unknown, sequence related to hanatoxin (HaTx) SGTx, two toxins inhibit eukaryotic channels by binding sensors. recently shown interact equally well with lipid membranes contain zwitterionic or acidic phospholipids, it proposed located within region submerged in...
Variations in glycosylation levels or the glycoprofile of a certain glycoprotein tumor-related sera have been widely reported and can be used as means differentiation. However, quantitative mass analysis glycoproteins is difficult because their high structural complexity low sensitivity glycopeptides. Therefore, more powerful technologies are required for discovery these potential biomarkers. Tissue inhibitor metalloproteinase 1 (TIMP1), typically present at concentration serum, known to...
The drug FK506 (tacrolimus, fujimycin) exerts its immunosuppressive effects by regulating the nuclear factor of activated T-cell (NFAT) family transcription factors. However, also exhibits neuroprotective effects, but direct target proteins that mediate these have not been determined. To identify responsible for FK506's affinity responsive stability (DARTS) method was performed using label-free FK506, and LC–MS/MS analysis FK506-treated proteome performed. Using DARTS analyses in combination...
Glycoprotein conformations are complex and heterogeneous. Currently, site-specific characterization of glycopeptides is a challenge. We sought to establish an efficient method N-glycoprotein using mass spectrometry (MS). Using alpha-1-acid glycoprotein (AGP) as model N-glycoprotein, we identified its tryptic N-glycopeptides examined the data reproducibility in seven laboratories running different LC-MS/MS platforms. used three test samples one blind sample evaluate instrument performance...
In the Chromosome-Centric Human Proteome Project (C-HPP), false-positive identification by peptide spectrum matches (PSMs) after database searches is a major issue for proteogenomic studies using liquid-chromatography and mass-spectrometry-based large proteomic profiling. Here we developed simple strategy protein identification, with controlled false discovery rate (FDR) at level, an integrated pipeline (IPP) that consists of four engrailed steps as follows. First, three different search...
<title>Abstract</title> Atherosclerosis is driven by chronic lipid accumulation, oxidative stress, and impaired autophagy, yet effective therapies targeting these pathways remain elusive. Oxidized low-density lipoprotein (oxLDL), a major contributor to atherosclerosis, disrupts cellular homeostasis promoting the formation of mitochondria-associated ER membrane (MAM), which regulate essential processes such as calcium transport, metabolism, mitochondrial dynamics, autophagy—critical...
Whether and how regulatory events at the translation stage shape cellular metabolic features of thermogenic adipocytes is hardly understood. In this study, we report two hitherto unidentified cross-talk pathways between translational regulation in beige adipocytes. By analysing temporal profiles activity protein level changes during precursor-to-beige differentiation, found selective down-regulation OXPHOS component-coding mRNAs. The restricted to Complexes I, III, IV, V, coordinated with...
Background: N-type Ca 2+ channels (Ca v 2.2) play an important role in the transmission of pain signals to central nervous system. ω-Conotoxin (CTx)-MVIIA, also called ziconotide (Prialt®), effectively alleviates pain, without causing addiction, by blocking pores these channels. Unfortunately, CTx-MVIIA has a narrow therapeutic window and produces serious side effects due poor reversibility its binding channel. It would thus be desirable identify new analgesic blockers with characteristics...
Abstract Protein glycosylation is known to be involved in biological progresses such as cell recognition, growth, differentiation, and apoptosis. Fucosylation of glycoproteins plays an important role for structural stability function N-linked glycoproteins. Although many clinical studies protein fucosylation by fucosyltransferases has been reported, classification fucosylated N-glycoproteins core or outer isoforms remains a challenge. Here, we report the first time N-glycopeptides core-...
A simple mass spectrometric approach for the discovery and validation of biomarkers in human plasma was developed by targeting nonglycosylated tryptic peptides adjacent to glycosylation sites an N-linked glycoprotein, one most important early detection, prognoses, disease therapies. The novel requires complex sample pretreatment steps, such as depletion highly abundant proteins, enrichment desired or development new antibodies. current study exploited steric hindrance glycan units...
We characterized the effect of histone acetylation on structure a nucleosome and interactions between two nucleosomes. In this study, nucleosomes reconstituted with Selex "Widom 601" sequence were acetylated Piccolo NuA4 complex, which acetylates mainly H4 N-terminal tail lysine residues some H2A/H3 residues. Upon acetylation, we observed directional unwrapping nucleosomal DNA that accompanies topology change DNA. Interactions in solution also monitored to discover multiple transient...
Cockayne syndrome protein B (CSB) belongs to the SWI2/SNF2 ATP-dependent chromatin remodeler family, and CSB is only essential for transcription-coupled nucleotide excision DNA repair. alone remodels nucleosomes ∼10-fold slower than ACF remodeling complex. Strikingly, NAP1-like histone chaperones interact with greatly enhance CSB-mediated remodeling. While by proteins crucial efficient repair, mechanism which remains unknown. Here we studied CSB's DNA-binding nucleosome-remodeling activities...
Abstract Purpose: Alpha‐fetoprotein (AFP) is a widely used serological marker that associated with hepatocellular carcinoma (HCC). Although the level of AFP increased in HCC, its sensitivity for diagnosis poor because levels are also liver diseases. Changes glycoform, especially fucosylation, have been reported to be development HCC. Experimental design: The authors introduce monitoring fucosylated glycopeptides by liquid chromatography (LC)‐mass spectrometry (MS) combined...