Do Yup Lee

Do Yup Lee
Seoul National University | SNU · Department of Agricultural Biotechnology

PhD

About

108
Publications
28,851
Reads
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4,048
Citations
Citations since 2016
38 Research Items
2950 Citations
20162017201820192020202120220100200300400500
20162017201820192020202120220100200300400500
20162017201820192020202120220100200300400500
20162017201820192020202120220100200300400500
Introduction
Do Yup Lee currently works at the Department of Bio and Fermentation Covergence Technology, Kookmin University. Do does research in Systems Biology. Their most recent publication is 'Comparative assessment of Graves’ disease and main extrathyroidal manifestation, Graves’ ophthalmopathy, by non-targeted metabolite profiling of blood and orbital tissue'.
Additional affiliations
March 2013 - present
Kookmin University
February 2010 - January 2013
January 2009 - January 2010
University of California, Davis
Position
  • UC Davis Genome Center

Publications

Publications (108)
Article
Full-text available
Rice (Oryza sativa L.) is a widely consumed food source, and its geographical origin has long been a subject of discussion. In our study, we collected 44 and 20 rice samples from different regions of the Republic of Korea and China, respectively, of which 35 and 29 samples were of white and brown rice, respectively. These samples were analyzed usin...
Article
Fatty acid esters of hydroxyl fatty acids (FAHFAs) are a new family of endogenous lipids that exert anti-inflammatory action. Among the various FAHFA isomers, the dietary source of oleic acid-hydroxy stearic acid (OAHSA) and its anti-inflammatory functions are poorly understood. This study investigated the composition of OAHSA isomers in dietary oi...
Article
The objective of this study was to identify predictable maternal serum signatures of cortisol metabolism during the first trimester of women who are expected to deliver small-for-gestational-age (SGA) neonates. This prospective cohort study included 112 pregnant women (with and without SGA, n = 56 each). Maternal serum samples were collected at 10–...
Article
The root bark of Morus alba L. has cytotoxic activity against several types of cancer cells. However, little is known about its chemopreventive mechanisms and bioactive metabolites. In this study, we showed that M. alba L. root bark extracts (MRBE) suppressed β-catenin response transcription (CRT), which is aberrantly activated in various cancers,...
Preprint
Full-text available
Background: Abnormal maternal hypothalamus-pituitary-adrenal axis is associated with fetal growth, and we hypothesized that the alteration in metabolic signatures of cortisol might be detectable during early pregnancy. The objective of this study was to identify predictable maternal serum signatures of cortisol metabolism during the first trimester...
Article
Full-text available
The precise determination of the chemical composition in crops is important to identify their nutritional and functional value. The current study performed a systematic delineation of the rice metabolome, an important staple in Asia, to investigate the following: (1) comparative features between brown and white rice; (2) variety-specific compositio...
Article
Full-text available
With the increase in soybean trade between countries, the intentional mislabeling of the origin of soybeans has become a serious problem worldwide. In this study, metabolic profiling of soybeans from the Republic of Korea and China was performed by nuclear magnetic resonance (NMR) spectroscopy coupled with multivariate statistical analysis to predi...
Article
Full-text available
Most extremophilic anaerobes possess a sulfur formation (Suf) system for Fe–S cluster biogenesis. In addition to its essential role in redox chemistry and stress responses of Fe–S cluster proteins, the Suf system may play an important role in keratin degradation by Fervidobacterium islandicum AW‐1. Comparative genomics of the order Thermotogales re...
Article
Full-text available
Early identification of patients at risk of developing preeclampsia (PE) would allow providers to tailor their prenatal management and adopt preventive strategies, such as low-dose aspirin. Nevertheless, no mid-trimester biomarkers have as yet been proven useful for prediction of PE. This study investigates the ability of metabolomic biomarkers in...
Article
Sesame seeds are an oil crop mainly cultivated in Asian and African countries. Identification of the geographical origin of sesame seeds is an important issue for preventing adulteration and for quality assurance. This study was performed to establish a discrimination model and investigate potential biomarkers for differentiating the geographical o...
Article
Nutrition-compositional evaluation is critical for quality control and value determination of agricultural products. Sesame seed is an important crop worldwide, enriched with primary nutrients and bioactive compounds. Here, we metabo-typed sesame seeds cultivated in Korea (N = 20) and imported from China (N = 11), South Asia (India and Pakistan), a...
Article
Full-text available
Particulate matter (PM) exposure is related to an increased risk of sporadic Alzheimer's disease (AD), the pathogenesis of which is explained by chronic neurometabolic disturbance. Therefore, PM-induced alterations in neurometabolism might herald AD. We aimed to identify brain region-specific changes in metabolic pathways associated with ultrafine...
Article
Fermentation has recently re-emerged as an approach for improved functionality of food products in addition to the traditional roles such as shelf life, taste, and texture. Here, we report dynamic changes in metabolite profiles of the Achyranthes japonica Nakai by Lactobacillus plantarum fermentation. Primarily, the significant increases in represe...
Article
Full-text available
Bioconversion of lignocellulosic biomass into ethanol requires efficient xylose fermentation. Previously, we developed an engineered Saccharomyces cerevisiae strain, named SR8, through rational and inverse metabolic engineering strategies, thereby improving its xylose fermentation and ethanol production. However, its fermentation characteristics ha...
Article
Internet Gaming Disorder (IGD) is characterized by uncontrollable and persistent playing of internet games despite the occurrence of negative consequences. Although there is a worldwide treatment demand, IGD still doesn't have an explicit biomarker. The primary goal of the study is to characterize lipidomic profiles specific to internet gaming diso...
Article
Full-text available
The basis for region-specific neuronal toxicity in Huntington disease is unknown. Here, we show that region-specific neuronal vulnerability is a substrate-driven response in astrocytes. Glucose is low in HdhQ(150/150) animals, and astrocytes in each brain region adapt by metabolically reprogramming their mitochondria to use endogenous, non-glycolyt...
Article
Classification and characterization of agricultural products at molecular levels are important but often impractical with genotyping, particularly for soybeans that have numerous types of variety and landraces. Alternatively, metabolic signature, a determinant for nutritional value, can be the good molecular indicator, which reflects cultivation re...
Article
Full-text available
Guillain–Barré syndrome (GBS) is an acute fatal progressive disease caused by autoimmune mechanism mainly affecting peripheral nervous system. Although the syndrome is clinically sub-classified into several variants, specific biomarker and exact pathomechanism of each subtypes are not well elucidated yet. In current study, integrative metabolomic a...
Article
Full-text available
In this study, an evolved Saccharomyces cerevisiae HJ7-14 with high ability of algae-based ethanol production was characterized by multi-omic approaches. Genome sequencing of the HJ7-14 revealed a point mutation in the GAL83 gene (G703A) involved in the catabolite repression as well as the galactose metabolism. Cultural and transcriptional analyses...
Article
Full-text available
Graves' disease (GD) is an autoimmune disorder that causes the overproduction of thyroid hormones and consequent cascade of systemic metabolism dysfunction. Moreover, Graves' ophthalmopathy (GO) is the main extrathyroidal manifestation of Graves' disease (GD). The goal of the study was to identify metabolic signatures in association with diagnostic...
Article
Yeast with multiple tolerance onto harsh conditions has a number of advantages for bioethanol production. In this study, an alcohol yeast of Issatchenkia orientalis MTY1 was isolated in a Korean winery and its multiple tolerance against high temperature and acidic conditions was characterized in microaerobic batch cultures and by metabolomic analys...
Article
The main aim of the current research is to characterize the molecular dynamics related to internet gaming disorder (IGD) using non-targeted plasma metabolite profiling based on gas-chromatography time-of-flight mass spectrometry (GC-TOF MS). IGD is a psychiatric disorder instigated by excessive and prolonged internet gaming, which shared many patho...
Article
Full-text available
Central nervous system (CNS) inflammatory demyelinating diseases (IDDs) are a group of disorders with different aetiologies, characterized by inflammatory lesions. These disorders include multiple sclerosis (MS), neuromyelitis optica spectrum disorder (NMOSD), and idiopathic transverse myelitis (ITM). Differential diagnosis of the CNS IDDs still re...
Data
Subject and sample characteristics by subject group. (TIF)
Data
Principal component analysis of metabolomic profiles of CSF samples. Score scatter plots show no significant effect of therapeutic treatments regardless of IDDs types. (TIF)
Data
ROC curves with the 95% confidence intervals using 500 bootstrappings. (TIF)
Data
Shared-and-unique-structures (SUS) plots with the p(corr) values in the OPLS-DA model. The SUS plot analysis for the relative contribution of metabolite variables to the discriminant models of control versus remission (X-axis) and control versus relapse (Y-axis) in merged data set (control vs all disease). (TIF)
Data
Optimal number of metabolites in the biomarker panel. The X-axis indicates the number of metabolites within the biomarker panel. To optimize this number, area under the curve (AUC) values were calculated using receiver operating characteristic (ROC) analysis, as depicted on the Y-axis. (TIF)
Article
The goal of this study is to identify systematic biomarker panel for primary nephrotic syndromes from urine samples by applying a non-target metabolite profiling, and to validate their utility in independent sampling and analysis by multiplex statistical approaches. Nephrotic syndrome (NS) is a nonspecific kidney disorder, which is mostly represent...
Article
The microalga-sourced bioactive metabolites are of particular interest related to new product strategy for medicinal, nutritional, cosmetic, and food industries. Conventional approach is to introduce physical stimuli such as pH and luminescence for the algal production. However, considering the specificity and effectiveness, it would be the best wa...
Article
Full-text available
Transient receptor potential (TRP) cation channels are highly conserved in humans and insects. Some of these channels are expressed in internal organs and their functions remain incompletely understood. By direct knock-in of the GAL4 gene into the trpA1 locus in Drosophila, we identified the expression of this gene in the subesophageal ganglion (SO...
Article
Full-text available
An essential question in cancer is why individuals with the same disease have different clinical outcomes. Progress toward a more personalized medicine in cancer patients requires taking into account the underlying heterogeneity at different molecular levels. Here, we present a model in which there are complex interactions at different cellular and...
Article
Full-text available
Huntington's Disease (HD) is caused by inheritance of a single disease-length allele harboring an expanded CAG repeat, which continues to expand in somatic tissues with age. The inherited disease allele expresses a toxic protein, and whether further somatic expansion adds to toxicity is unknown. We have created an HD mouse model that resolves the e...
Article
For the analysis of multiple-reaction intermediates for long-chain dicarboxylic acid biotransformation, simple and reproducible methods of extraction and derivatization were developed on the basis of gas chromatography with flame ionization detector (GC-FID) instead of mass spectrometer (MS). In the derivatization step, change of the ratio of pyrid...
Article
Full-text available
Trinucleotide repeats (TNRs) expansion disorders are severe neurodegenerative and neuromuscular disorders that arise from inheriting a long tract (30–50 copies) of a trinucleotide unit within or near an expressed gene (Figure 1a). The mutation is referred to as ‘trinucleotide expansion’ since the number of triplet units in a mutated gene is greater...
Article
Full-text available
Metabolomic results on human blood plasma largely depend on the sample preparation protocols employed for protein precipitation and metabolite extraction. Five different extraction methods were examined, which can be grouped into two categories, liquid-liquid extraction and protein precipitation methods, including long-standing protocols such as th...
Article
Full-text available
Stress is now recognized as a universal premorbid factor associated with many risk factors of various chronic diseases. Acute stress may induce an individual's adaptive response to environmental demands. However, chronic, excessive stress causes cumulative, negatively impacts on health outcomes through "allostatic load". Thus monitoring of quantifi...
Article
Full-text available
Loss of cholesterol homeostasis and altered vesicle trafficking have been detected in Huntington's disease (HD) cellular and animal models, yet the role of these dysfunctions in pathophysiology of HD is unknown. We demonstrate here that defects in caveolar-related cholesterol trafficking directly contribute to the mechanism of HD in vivo. We genera...
Article
Full-text available
Many hereditary diseases are characterized by region-specific toxicity, despite the fact that disease-linked proteins are generally ubiquitously expressed. The underlying basis of the region-specific vulnerability remains enigmatic. Here, we evaluate the fundamental features of mitochondrial and glucose metabolism in synaptosomes from four brain re...
Data
Simplified diagram of glycolysis and oxidative phosphorylation and inhibitors. Glycolysis converts glucose to cytosolic pyruvate, which is either converted to lactic acid or enters the mitochondrial matrix as a substrate for oxidative phosphorylation, measured as oxygen consumption rate (OCR, red). Rotenone, antimycin A, and oligomycin are the inhi...
Data
Mass spectrometry data transformation. (A) The distribution of metabolite intensities after logarithmic normalization. (B) The distribution of metabolite intensities following quantile normalization. X and Y-axis indicate frequency and normalized abundances of metabolites respectively. (TIF)
Data
Relative pool size of primary metabolites of the hippocampus region. The metabolic network shows relative abundance of primary metabolites of the cortex compared to those of other brain regions. Blue = down regulated metabolites, red = up regulated metabolites at 0%<median false discovery rate <0.5% from SAM (n = 5 or 6). Ball sizes reflect magnitu...
Data
GC/MS profiles of TCA cycle intermediates. The abundance of TCA cycle intermediates among four different brain regions is measured using gas-chromatography mass spectrometry (GC/MS) (n = 5 or 6) (cerebellum: till, hippocampus: blue, striatum: red, cortex: light green). Data are displayed by box-whisker plots, giving the arithmetic mean for each cat...
Data
Identification of metabolites with significant differences in abundance using Significance Analysis of Microarray. Scatter plot of the observed relative difference versus the expected relative difference. The solid line indicates the line for the condition, where the observed relative difference is identical to the expected relative difference. The...
Data
Relative pool size of primary metabolites of the cortex region. The metabolic network shows relative abundance of primary metabolites of the cortex compared to those of other brain regions. Blue = down regulated metabolites, red = up regulated metabolites at a median false discovery rate <0.5% from SAM (n = 5 or 6). Ball sizes reflect magnitude of...
Data
Contains: Table S1, S2, S3. (XLSX)
Data
GC/MS profiles of glycolytic intermediates. The abundance of glycolytic intermediates among four different brain regions is measured using gas-chromatography mass spectrometry (GC/MS) (n = 5 or 6) (cerebellum: till, hippocampus: blue, striatum: red, cortex: light green). Data are displayed by box-whisker plots, giving the arithmetic mean for each c...
Data
Relative pool size of primary metabolites of the striatum region. The metabolic network shows relative abundance of primary metabolites of the cortex compared to those of other brain regions. Blue = down regulated metabolites, red = up regulated metabolites at 0%<median false discovery rate <0.5% from SAM (n = 5 or 6). Ball sizes reflect magnitude...
Data
Full-text available
Relative pool size of primary metabolites of the cerebellum region. The metabolic network shows relative abundance of primary metabolites of the cortex compared to those of other brain regions. Blue = down regulated metabolites, red = up regulated metabolites at 0%<median false discovery rate <0.5% from SAM (n = 5 or 6). Ball sizes reflect magnitud...
Article
Full-text available
Current tandem mass spectral libraries for lipid annotations in metabolomics are limited in size and diversity. We provide a freely available computer-generated tandem mass spectral library of 212,516 spectra covering 119,200 compounds from 26 lipid compound classes, including phospholipids, glycerolipids, bacterial lipoglycans and plant glycolipid...