• Proceedings of the Korean Society for Bioinformatics Conference
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• 2005.09a
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• pp.151-155
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• 2005

Recently, systems biology has been increasingly applied to gain insights into the complexity of living organisms. Many inaccessible biological information and hidden evidences fur example flux distribution of the metabolites are simply revealed by investigation of artificial cell behaviors. Most bio-models are models of single cell organisms that cannot handle the multi-cellular organisms like plants. Herein, a structured and multi-cellular model of potato was developed to comprehend the root starch biosynthesis. On the basis of simplest plant cell biology, a potato structured model on the platform of Berkley Madonna was divided into three parts: photosynthetic (leaf), non-photosynthetic (tuber) and transportation (phloem) cells. The model of starch biosynthesis begins with the fixation of CO$_2$ from atmosphere to the Calvin cycle. Passing through a series of reactions, triose phosphate from Calvin cycle is converted to sucrose which is transported to sink cells and is eventually formed the amylose and amylopectin (starch constituents). After validating the model with data from a number of literatures, the results show that the structured model is a good representative of the studied system. The result of triose phosphate (DHAP and GAP) elevation due to lessening the aldolase activity is an illustration of the validation. Furthermore, the representative model was used to gain more understanding of starch production process such as the effect of CO$_2$ uptake on qualitative and quantitative aspects of starch biosynthesis.

• The Journal of Korean Physical Therapy
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• v.26 no.6
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• pp.436-441
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• 2014

Purpose: The objective of this study was to offer clinical primary data that it's aims to examine effects of transcranial direct current stimulation (tDCS) on cognitive function and biochemical change of rat with alzheimer's disease(AD) induced by injecting scopolamine. Methods: Subjects were instructed cognitive dysfunction model, rat of Sprague-Dawley system was injected with scopolamine and each experimental group was classified into three; group I (n=16) is non-treatment groups; group II (n=16) is applied with the tacrine; group III (n=16) is applied with the tDCS. The ziggurat task test was conducted to observe behavioral changes and cognitive function ability and 7, 14, 21, 28 days after the model. Acetylcholine Esterase (Ach E) activity was examined for biochemical assessment of which the results are followed. Results: Participants showed as to behavioral change, tacrine application group was the most significantly responded, following tDCS application group. As to biochemical change, same as above, tacrine application group was the most significantly responded, following tDCS application group. Conclusion: From these results, confirm that tDCS application to rat with alzheimer's disease leads to positive effects on behavioral, cognitive function changes, and biochemical changes, lasting for certain period of time. This study, in particular, tDCS, which can change excitability of brain cells non-invasively, could provide basic data that is useful as a new treatment way for the patients with cognitive dysfunction.

• Journal of Korean Neurosurgical Society
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• v.51 no.6
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• pp.323-327
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• 2012

Objective : The purpose of this study was to verify the appropriateness of ovariectomized rats as the osteoporosis animal model. Methods : Twelve female Sprague-Dawley rats underwent a sham operation (the sham group) or bilateral ovariectomy [the ovariectomy (OVX) group]. Eight weeks after operations, serum biochemical markers of bone turnover were analyzed; osteocalcin and alkaline phosphatase, which are sensitive biochemical markers of bone formation, and C-terminal telopeptide fragment of type I collagen C-terminus (CTX), which is a sensitive biochemical marker of bone resorption. Bone histomorphometric parameters and microarchitectural properties of 4th lumbar vertebrae were determined by micro-computed tomographic (CT) scan. Results : The OVX group showed on average 75.4% higher osteocalcin and 72.5% higher CTX levels than the sham group, indicating increased bone turnover. Micro-CT analysis showed significantly lower bone mineral density (BMD) (p=0.005) and cortical BMD (p=0.021) in the OVX group. Furthermore, the OVX group was found to have a significantly lower trabecular bone volume fraction (p=0.002). Conclusion : Our results showed that bone turnover was significantly increased and bone mass was significantly decreased 8 weeks after ovariectomy in rats. Thus, we propose that the ovariectomized rat model be considered a reproducible and reliable model of osteoporosis.

• Membrane and Water Treatment
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• v.9 no.6
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• pp.455-462
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• 2018

The measurement and monitoring of the biochemical oxygen demand (BOD) play an important role in the planning and operation of wastewater treatment plants. The most basic method for determining biochemical oxygen demand is direct measurement. However, this method is both expensive and takes a long time. A five-day period is required to determine the biochemical oxygen demand. This study has been carried out in a wastewater treatment plant in Turkey (Hurma WWTP) in order to estimate the biochemical oxygen demand a shorter time and with a lower cost. Estimation was performed using artificial neural network (ANN) method. There are three different methods in the training of artificial neural networks, respectively, multi-layered (ML-ANN), teaching learning based algorithm (TLBO-ANN) and artificial bee colony algorithm (ABC-ANN). The input flow (Q), wastewater temperature (t), pH, chemical oxygen demand (COD), suspended sediment (SS), total phosphorus (tP), total nitrogen (tN), and electrical conductivity of wastewater (EC) are used as the input parameters to estimate the BOD. The root mean squared error (RMSE) and the mean absolute error (MAE) values were used in evaluating performance criteria for each model. As a result of the general evaluation, the ML-ANN method provided the best estimation results both training and test series with 0.8924 and 0.8442 determination coefficient, respectively.

• Journal of KIISE:Databases
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• v.30 no.6
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• pp.573-584
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• 2003

Recent massive data generation by genomics and proteomics requires bioinformatic tools to extract the biological meaning from the massive results. Here we introduce ROSPath, a database system to deal with information on reactive oxygen species (ROS)-mediated cell signaling pathways. It provides a structured repository for handling pathway related data and tools for querying, displaying, and analyzing pathways. ROSPath data model provides the extensibility for representing incomplete knowledge and the accessibility for linking the existing biochemical databases via the Internet. For flexibility and efficient retrieval, hierarchically structured data model is defined by using the object-oriented model. There are two major data types in ROSPath data model: ‘bio entity’ and ‘interaction’. Bio entity represents a single biochemical entity: a protein or protein state involved in ROS cell-signaling pathways. Interaction, characterized by a list of inputs and outputs, describes various types of relationship among bio entities. Typical interactions are protein state transitions, chemical reactions, and protein-protein interactions. A complex network can be constructed from ROSPath data model and thus provides a foundation for describing and analyzing various biochemical processes.

• Korean Journal of Agricultural and Forest Meteorology
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• v.1 no.1
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• pp.52-59
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• 1999

Vegetation canopy plays an important role in $CO_2$/$H_2$O exchange between the biosphere and the atmosphere by controlling leaf stomata. In this study, rice (Oryza sativa L.), a staple crop in Asia was investigated to formulate its single leaf model of photosynthesis and stomatal conductance. Photosynthesis and stomatal conductance were measured with a portable infrared gas analyzer system. Other plant and meteorological variables were also measured. To evaluate empirical constants in this biochemical leaf model, nonlinear least squares technique was used. The maximum catalytic activity of enzyme and the maximum rate of electron transport were $ 100\mu$㏖ $m^{-2}$ $s^{-1}$ and $140 \mu$㏖ m$^{-2}$ s$^{-1}$ (@ 35$^{\circ}C$), respectively. The empirical constants, m and b, associated with stomatal conductance model were 9.7 and $0.06 m^{-2}$ $s^{-1}$ , respectively. On a leaf scale, agreements between the modeled and the measured values of photosynthesis and stomatal conductance were on average within 20%, and the simulation of diurnal variation was also satisfactory On a canopy scale, the Simple Biosphere model(SiB2) was tested using the derived parameters. The modeled energy fluxes were compared against the micrometeorologically measured fluxes over a rice canopy. Agreements between the modeled and the measured values of net radiation, sensible heat and latent heat fluxes, and $CO_2$ flux (i.e., net canopy photosynthesis) were on average within 25%.

• 제어로봇시스템학회:학술대회논문집
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• 2003.10a
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• pp.1826-1829
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• 2003

Fine chemical production must assure high-standard product quality as well as characterized as multi-product production in small volumes. Installing high-precision batch distillation is one of the common elements in the successful manufacturing of fine chemicals, and the importance of the process operation strategy with quality assurance cannot be overemphasized. In this study, we investigate the optimal operation strategy and production planning of a sequential multi-purpose plants consisting of batch processes and batch distillation with unlimited intermediate storage. We formulated this problem as an MILP model. A mixed-integer linear programming model is developed based on the time slot, which is used to determine the production sequence and the production path of each batch. Illustrative examples show the effectiveness of the approach.

• Proceedings of the Korea Water Resources Association Conference
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• 2004.05b
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• pp.90-101
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• 2004

The present trend of disposing treated sewage water by allowing it to infiltrate the soil brings a new dimension to environmental problems. It is therefore necessary to identify the chemicals likely to be present in treated sewage water. A soil column experiment was conducted to determine the behavior of chemical species in soil columns applied with secondary treated sewage water. To predict the behavior of chemical species, a multicomponent solute transport model that includes the biochemical redox process and cation exchange process was developed. The model computes changes in concentration over time caused by the processes of advection, dispersion, biochemical reactions and cation exchange reactions. The solute transport model was able to predict the behavior of the different chemical species. The model reproduced the sequential reduction reaction. To design the safe depth of plow layer where $NO_3^-$ is totally reduced, a numerical study of $NO_3^-$ leach was done and it was found out that the pore velocity and concentration of $CH_2O$ at the inject water was found to affect $NO_3^-$ reduction in the mobile pore water phase. It is revealed that the multicomponent solute transport model is useful to design the land treatment system for $NO_3^-$ removal from wastewater.

• Journal of Microbiology and Biotechnology
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• v.34 no.5
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• pp.1154-1163
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• 2024

Glucosylation is a well-known approach to improve the solubility, pharmacological, and biological properties of flavonoids, making flavonoid glucosides a target for large-scale biosynthesis. However, the low yield of products coupled with the requirement of expensive UDP-sugars limits the application of enzymatic systems for large-scale. C. glutamicum is a Gram-positive and generally regarded as safe (GRAS) bacteria frequently employed for the large-scale production of amino acids and biofuels. Due to the versatility of its cell factory system and its non-endotoxin producing properties, it has become an attractive system for the industrial-scale biosynthesis of alternate products. Here, we explored the cell factory of C. glutamicum for efficient glucosylation of flavonoids using apigenin as a model flavonoid, with the heterologous expression of a promiscuous glycosyltransferase, YdhE from Bacillus licheniformis and the endogenous overexpression of C. glutamicum genes galU1 encoding UDP-glucose pyrophosphorylase and pgm encoding phosphoglucomutase involved in the synthesis of UDP-glucose to create a C. glutamicum cell factory system capable of efficiently glucosylation apigenin with a high yield of glucosides production. Consequently, the production of various apigenin glucosides was controlled under different temperatures yielding almost 4.2 mM of APG1(apigenin-4'-O-β-glucoside) at 25℃, and 0.6 mM of APG2 (apigenin-7-O-β-glucoside), 1.7 mM of APG3 (apigenin-4',7-O-β-diglucoside) and 2.1 mM of APG4 (apigenin- 4',5-O-β-diglucoside) after 40 h of incubation with the supplementation of 5 mM of apigenin and 37℃. The cost-effective developed system could be used to modify a wide range of plant secondary metabolites with increased pharmacokinetic activities on a large scale without the use of expensive UDP-sugars.

• Proceedings of the Korean Society of Applied Pharmacology
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• 1996.04a
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• pp.178-178
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• 1996

Hepatitis B virus (HBV) infection is one of the serious problems in Southeast Asia including Korea because it causes chronic hepatitis, which can easily be transformed In fatal conditions such as cirrhosis and hepatoma. Even though lots of informations on structural characteristics and gene expression mechanisms have been accumulated, the mechanism for HBV-induced hepatocellular injury which is believed to be the consequences of the immunological response is not well understood. In order tn perform immunopathological studies for prevention and treatment of HBV infection, we designed transgenic mice as a disease model which can mimic HBV infection, In this study, a promoter-HBV DNA fragment for the preparation of HBV transgenic mice has been constructed. To add a proper enzyme site on 5' end of HBV gene, total HBV (subtype adr) gene was inserted into BamHI site of pBluescript SK vector and reextracted by PstI-SacI treatment A liver-specific promoter, rat ${\alpha}$ 2u globulin gene promoter, was insrted to pBluescript SK vector and reextracted by BamHI-PstI treatment, Promoter-HBV DNA was constructed by ligation of two fragments using identical PstI sites. For large scale production of promoter-HBV DNA, it was inserted to BamHI-SacI site of pBluescript SK vector.