A5002440433- Advanced Proteomics Techniques and Applications
- Metabolomics and Mass Spectrometry Studies
- Mass Spectrometry Techniques and Applications
- Glycosylation and Glycoproteins Research
- Genetics, Aging, and Longevity in Model Organisms
- Endoplasmic Reticulum Stress and Disease
- Peptidase Inhibition and Analysis
- Ubiquitin and proteasome pathways
- Genetics and Neurodevelopmental Disorders
- Asthma and respiratory diseases
- DNA Repair Mechanisms
- RNA modifications and cancer
- Biomedical and Chemical Research
- Galectins and Cancer Biology
- Pharmacy and Medical Practices
- Advanced Glycation End Products research
- Allergic Rhinitis and Sensitization
- Effects of Radiation Exposure
- Air Quality and Health Impacts
- Pharmaceutical Practices and Patient Outcomes
- Poisoning and overdose treatments
- Interstitial Lung Diseases and Idiopathic Pulmonary Fibrosis
- Atherosclerosis and Cardiovascular Diseases
- Autophagy in Disease and Therapy
- Neonatal and fetal brain pathology
Asan Medical Center
2019-2025
Ulsan College
2021-2023
University of Ulsan
2021-2023
Weatherford College
2022
Korea Institute of Science and Technology
2010-2021
Convergence
2019
National Medical Center
2019
Korea University of Science and Technology
2010-2018
Bio-Medical Science (South Korea)
2018
University of Science and Technology
2011
The redox-dependent inhibition of thioredoxin (TRX) by thioredoxin-interacting protein (TXNIP) plays a pivotal role in various cancers and metabolic syndromes. However, the molecular mechanism this regulation is largely unknown. Here, we present crystal structure TRX–TXNIP complex demonstrate that TRX TXNIP mediated an intermolecular disulphide interaction resulting from novel bond-switching mechanism. Upon binding to TRX, undergoes structural rearrangement involves switching head-to-tail...
Another N-end rule to add Proteins that emerge from a ribosome bear the N-terminal methionine (Met) residue. In bacteria, Met is formylated before translation starts, whereas in eukaryotes, most nascent proteins seemed start with unmodified Met. Working yeast, Kim et al. found formylation of eukaryotic detectable even under normal conditions and greatly increased upon specific stresses, which cause some Fmt1 formyltransferase be retained cytoplasm. The retention this normally mitochondrial...
Abstract The prognostic and therapeutic relevance of molecular subtypes for the most aggressive isocitrate dehydrogenase 1/2 ( IDH ) wild-type glioblastoma (GBM) is currently limited due to high heterogeneity tumors that impedes patient stratification. Here, we describe a distinct binary classification GBM derived from quantitative proteomic analysis 39 GBMs as well mutant low-grade glioma controls. Specifically, cluster 1 (GPC1) exhibit Warburg-like features, neural stem-cell markers,...
Various forms of protein (proteoforms) are generated by genetic variations, alternative splicing, translation initiation, co- or post-translational modification and proteolysis. Different proteoforms in part discovered characterizing their N-terminal sequences. Here, we introduce an N-terminal-peptide-enrichment method, Nrich. Filter-aided negative selection formed the basis for use two N-blocking reagents endoproteases this method. We identified 6,525 acetylated (or partially acetylated)...
Renal dysfunction, a major complication of type 2 diabetes, can be predicted from estimated glomerular filtration rate (eGFR) and protein markers such as albumin concentration. Urinary biomarkers may used to monitor or predict patient status. Urine samples were selected patients enrolled in the retrospective diabetic kidney disease (DKD) study, including 35 with good 19 poor prognosis. After removal immunoglobulin, remaining proteins reduced, alkylated, digested, analyzed qualitatively...
Proteomic techniques are mostly used these days to identify proteins in a biological sample. Quantification of the differences between two or more physiological conditions, such as disease no disease, has become an increasingly challenging task proteomics. Mass tags introducing stable isotopes into peptides provide means for quantification mass spectrometry. The recognized by spectrometry and at same time quantitative information. In current study, we introduce mTRAQ purpose full MS scans....
DNA double-strand breaks (DSBs) are the most severe type of damage and primarily repaired by non-homologous end joining (NHEJ) homologous recombination (HR) in G1 S/G2 phase, respectively. Although CtBP-interacting protein (CtIP) is crucial resection during HR following DSBs, little known about how CtIP levels increase an S phase-specific manner. Here, we show that Serpine mRNA binding 1 (SERBP1) regulates expression at translational level phase. In response to camptothecin-mediated CHK1...
The 5-year survival rate in the early and late stages of ovarian cancer differs by 63%. In addition, a liquid biopsy is necessary because there are no symptoms stage tissue collection difficult without using invasive methods. Therefore, need for biomarkers to achieve this goal. study, we found blood-based metabolite or protein biomarker candidates diagnosis 20 clinical samples (10 patients 10 healthy control subjects). Plasma metabolites proteins were measured quantified mass spectrometry...
The circadian clock orchestrates behavior and physiology through the oscillation of key proteins like PERIOD (PER). Here, we investigate role ubiquitin-specific peptidase 14 (USP14) in modulating PER stability rhythms Drosophila. We find that overexpression USP14 cells reduces protein levels without altering its mRNA whereas knockdown increases levels, suggesting regulates post-translationally. Interestingly, despite these alterations neither nor significantly impacts behavioral rhythms,...
HMGB1 is a nuclear protein that overexpressed and secreted in cancer cells. However, little known about the roles of cytoplasm secretory pathway To clarify this aspect function, we fractionated HCT116 colon cells used proteomic approach to analyze cytoplasmic HMGB1-binding proteins. Pull-down experiments using recombinant as bait, followed by mass spectrometry analysis identified 162 interacting Among them were 74 proteins be localized exclusively extra-nuclear region, 60 both extranuclear...
Mesenchymal stromal cells (MSCs) release extracellular vesicles (MSC-EVs) containing various cargoes. Although MSC-EVs show significant therapeutic effects, the low production of EVs in MSCs hinders MSC-EV-mediated development. Here, we developed an advanced three-dimensional (a3D) dynamic culture technique with exogenous transforming growth factor beta-3 (TGF-β3) treatment (T-a3D) to produce potent MSC-EVs. Our system enabled preparation a highly concentrated EV-containing medium for...
We propose to use cRFP (common Repository of FBS Proteins) in the MS (mass spectrometry) raw data search cell secretomes. is a small supplementary sequence list highly abundant fetal bovine serum proteins added reference database use. The aim behind using prevent contaminant from being misidentified as other database, just we would cRAP Adventitious present either by accident or through unavoidable contacts proteins. expect it be widely used experiments where are obtained serum-free media...
Background: Exploiting synthetic lethality (SL) relationships between protein pairs has emerged as an important avenue for the development of anti-cancer drugs. Nicotinamide phosphoribosyltransferase (NAMPT) is rate-limiting enzyme NAD+ salvage pathway, having SL relationship with nicotinic acid (NAPRT), key in Preiss-Handler pathway. NAMPT inhibitor holds clinical potential not only a promising cancer treatment but also means protection against chemotherapy-induced-peripheral-neuropathy...
Major depressive disorder (MDD) is a leading cause of global disability with chronic and recurrent course. Recognition biological markers that could predict monitor response to drug treatment personalize clinical decision-making, minimize unnecessary exposure, achieve better outcomes. Four longitudinal plasma samples were collected from each ten patients MDD treated antidepressants for 10 weeks. Plasma proteins analyzed qualitatively quantitatively nanoflow LC-MS/MS technique. Of 1153...
Abstract Damage to normal tissue can occur over a long period after cancer radiotherapy. Free radical by radiation initiate or accelerate chronic inflammation, which lead atherosclerosis. However, the underlying mechanisms remain unclear. Vascular smooth muscle cells (VSMCs) proliferate in response JAK/STAT3 signalling. C‐reactive protein (CRP) induce VSMCs apoptosis via triggering NADPH oxidase (NOX). Apoptotic promote instability and inflammation of atherosclerotic lesions. Herein, we...
Abstract Background Protein quantification is an essential step in many proteomics experiments. A number of labeling approaches have been proposed and adopted mass spectrometry (MS) based relative quantification. The mTRAQ, one the stable isotope methods, amine-specific available triplex format, so that sample throughput could be doubled when compared with duplex reagents. Methods results Here we propose a novel data analysis algorithm for peptide mTRAQ It improved accuracy two features....
MON-2, which mediates Golgi-endosome trafficking, mitochondrial inhibition–induced longevity by enhancing autophagy.
The identification of blood biomarkers to diagnose acute exacerbation chronic obstructive pulmonary disease (AECOPD) will have clinical utility. Here, we used a proteomics-based approach identify capable identifying AECOPD.This prospective, single-center pilot study enrolled 12 patients who came Asan Medical Center (South Korea) via the outpatient clinic or emergency department with symptoms AECOPD and were follow-up in during convalescence between 2015 2017. Paired samples collected from...
G protein β-like (GβL) is a member of WD repeat-containing family which are involved in various intracellular signaling events. In our previous report, we demonstrated that GβL regulates TNFα-stimulated NF-κB by interacting with and inhibiting phosphorylation IκB kinase. However, itself does not seem to regulate IKK directly, because it contains no functional domains except domains. Here, using immunoprecipitation proteomic analyses, identified phosphatase 4 as new binding partner GβL. We...
Abstract Variations in protein coding sequence may sometimes play important roles cancer development. However, since variants not express into proteins due to various cellular quality control systems, it is get protein-level evidence of the genomic variations. We present a proteogenomic strategy getting variants, which we call sequential targeted LC-MS/MS based on prediction peptide pI and Retention time (STaLPIR). Our approach shows improved identification, has potential for unbiased...
In this single-center prospective study of 20 patients receiving maintenance hemodialysis (HD), we compared the therapeutic effects medium cut-off (MCO) and high flux (HF) dialyzers using metabolomics proteomics. A consecutive dialyzer membrane was used for 15-week periods: 1st HF dialyzer, MCO 2nd 5 weeks respectively. 1H-nuclear magnetic resonance to identify metabolites liquid chromatography-tandem mass spectrometry (LC-MS/MS) analysis proteins. To compare dialyzers, orthogonal projection...