• 한국전산유체공학회:학술대회논문집
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• 한국전산유체공학회 2008년 추계학술대회논문집
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• pp.84-91
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• 2008

Generalized hydrodynamic (GH) theory for multi-species gas and the computational models are developed for the numerical simulation of hypersonic rarefied gas flow on the basis of Eu's GH theory. The rotational non-equilibrium effect of diatomic molecules is taken into account by introducing excess normal stress associated with the bulk viscosity. The numerical model for the diatomic GH theory is developed and tested. Moreover, with the experience of developing the dia-tomic GH computational model, the GH theory is extended to a multi-species gas including 5 species; $O_2,\;N_2$, NO, O, N. The multi-species GH model includes diffusion relation due to the molecular collision and thermal phenomena. Two kinds of GH models are developed for an axisymmetric flow solver. By compar-ing the computed results of diatomic and multi-species GH theories with those of the Navier-Stokes equations and the DSMC results, the accuracy and physical consistency of the GH computational models are examined.

• BMB Reports
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• 제44권3호
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• pp.158-164
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• 2011

Gliomas are the most frequently occurring primary malignancies in the central nervous system, and glioblastoma multiforme (GBM) is the most common and most aggressive of these tumors. Despite vigorous basic and clinical studies over past decades, the median survival of patients with this disease remains at about one year. Recent studies have suggested that GBMs contain a subpopulation of tumor cells that displays stem cell characteristics and could therefore be responsible for in vivo tumor growth. We will summarize the major oncogenic pathways abnormally regulated in gliomas, and review the recent findings from mouse models that our laboratory as well as others have developed for the study of GBM. The concept of cancer stem cells in GBM and their potential therapeutic importance will also be discussed.

• 한국미생물생명공학회:학술대회논문집
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• 한국미생물생명공학회 2005년도 2005 Annual Meeting & International Symposium
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• pp.54-62
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• 2005

While genomics (the set of experimental and computational tools that allows the blueprints of life to be read) opens the doors to a more rational approach to the design and use of living cells to bring about desirable chemical transformations, genomics is, by itself, insufficient. We need tools that allow us to relate genomic and molecular information to cellular physiology and then to the response of a population of cells. We propose the development of hybrid computer cellular models. In such models genomics and chemical detail for a cellular subsystem (e.g. pathogenesis) is embedded in a coarse-grain cell model. Such a construct allows the quantitative and explicit linkage of genomic detail to cell physiology to the extracellular environment. To illustrate the principles involved we are constructing a model for a minimal cell. A minimal cell is a bacterial cell with the fewest number of genes necessary to sustain life as a free living microbe.

• 한국연소학회:학술대회논문집
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• 한국연소학회 2002년도 제25회 KOSCI SYMPOSIUM 논문집
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• pp.173-184
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• 2002

In order to evaluate the devolatilization models of pulverized coal, various devolatilization models are examined for the numerical analysis of Drop Tube Furnace.The results of analysis are compared with the experimental results. A numerical study was conducted to explore the sensitivities of the predictions to variation of the model parameters. It helps to elucidate the source of the discrepancies. Three different wall temperature conditions of the DTF, 1100, 1300 and $1500^{\circ}C$ were considered in this analysis. Two fuels are U.S.A. Alaska coal and Australia Drayton coal. The results of analysis with constant rate model, single kinetic rate model and two competing rate modes well presented fast volatile matter release in the early devolatilization. However, in the latter devolatilization they did not coincide with experimental results which presented tardy volatile matter release on account of pyrolysis of high molecular substance. On the other hand, the results of analysis with DAEM(Distribute Activation Energy Model) coincided with experiment al results in overall devolatilization.

• Korean Journal of Hydrosciences
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• 제8권
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• pp.111-123
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• 1997

A one-dimensional eddy diffusion model and a mixed-layer model are developed and applied to simulate the vertical temperature profiles in lakes. Also the running result of each method are compared and analyzed. In an eddy diffusion model, molecular diffusivity is neglected and eddy diffusivity which does not need lake-specific fitting parameter and constant lake's level are applied. The heat exchanges at the water surface and the bottom are formulated by the energy balance and zero energy gradient, respectively. In a mixed-layer model, two layers approach which has a constant thickness is adopted. The application of these models which use explicit finite difference and Runge-Kutta methods respectively demonstrates that the models simulate water temperatures efficiently.

• 대한화장품학회지
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• 제26권2호
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• pp.41-50
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• 2000

- Biochemical studies show that in the process of mixed melanogenesis, cysteinyldopas are produced first which are next oxidized to give pheomelanin. After all of the cysteine is consumed, eumelanin is then deposited on the preformed pheomelanin. - In vitro and in vivo studies show that tyrosinase activity is the most important factor that regulates the switch of melanogenesis, with higher activities increasing melanogenesis, especially eumelanogenesis. - In culturted melanocytes, the tyrosine to cysteine ratio is critical in determining the eumelanin to pheomelanin ratio. - Our HPLC method to analyze eumelanin and pheomelanin has become a useful tool in the study of melanogenesis regulation. There are many problems to be solved before we fully understand the regulation of melanogenesis. Mutations in mouse models are ideal models for studying the genetic and molecular control of melanogenesis. Even in the mouse models, it is not known how cysteine is excluded from being incorporated into melanins in black and other eumelaninc mice, Conversely, it is not known how cysteine is continuously incorporated into pheomelanin in lethal yellow and recessive yellow mice.

• Bulletin of the Korean Chemical Society
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• 제33권3호
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• pp.828-832
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• 2012

We performed replica exchange molecular dynamics (REMD) simulations of the tripzip2 peptide (betahairpin) using the GB implicit and TI3P explicit solvation models. By comparing the resulting free energy surfaces of these two solvation model, we found that the GB solvation model produced a distorted free energy map, but the explicit solvation model yielded a reasonable free energy landscape with a precise location of the native structure in its global free energy minimum state. Our result showed that in particular, the GB solvation model failed to describe the tryptophan packing of trpzip2, leading to a distorted free energy landscape. When the GB solvation model is replaced with the explicit solvation model, the distortion of free energy shape disappears with the native-like structure in the lowest free energy minimum state and the experimentally observed tryptophan packing is precisely recovered. This finding indicates that the main source of this problem is due to artifact of the GB solvation model. Therefore, further efforts to refine this model are needed for better predictions of various aromatic side chain packing forms in proteins.

• Bulletin of the Korean Chemical Society
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• 제34권6호
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• pp.1823-1828
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• 2013

Tetraoxanes (1,2,4,5-tetraoxanes) have been reported to exhibit potent antimalarial activity. In the present study, the three dimensional-quantitative structure activity relationship (3D-QSAR) studies were performed on a series of tetraoxanes derivatives using comparative molecular field analysis (CoMFA) and comparative molecular similarity indices analysis (CoMSIA) techniques. The best predictive CoMFA model with atom fit alignment resulted in cross-validated coefficient ($q^2$) value of 0.719, non-cross-validated coefficient ($r^2$) value of 0.855 with standard error of estimate (SEE) 0.335. Similarly, the best predictive CoMSIA model was derived with $q^2$ of 0.739, $r^2$ of 0.847 and SEE of 0.344. The generated models were externally validated using test sets. The final QSAR models as well as the information gathered from 3D contour maps should be useful for the design of novel tetraoxanes having improved antimalarial activity.

• 한국전산유체공학회:학술대회논문집
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• 한국전산유체공학회 2009년 춘계학술대회논문집
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• pp.368-376
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• 2009

Studies on the effect of the wall-ion, wall-water, water-ion and ion-ion interaction on properties of water and ions in nano-channels have been performed through the use of different kinds of ions or different models of potential energy between wall-ion or wall-water. On this paper, we address the effect of water-wall interaction potential on the properties of confined aqueous solution by using the molecular dynamics (MD) simulations. As the interaction potential energies between water and wall we employed the models of the Weeks-Chandler-Andersen (WCA) and Lennard-Jones (LJ). On the MD simulations, 680 water molecules and 20 ions are included between uniformly charged plates that are separated by 2.6 nm. The water molecules are modeled by using the rigid SPC/E model (simple point charge/Extended) and the ions by the charged Lennard-Jones particle model. We compared the results obtained by using WCA potential with those by LJ potential. We also compared the results (e.g. ion density and electro-static potential distributions) in each of the above cases with those provided by solving the Poisson-Boltzmann equation.

• 한국생물정보학회:학술대회논문집
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• 한국생물정보시스템생물학회 2005년도 BIOINFO 2005
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• pp.249-255
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• 2005

Angiotensin-converting enzyme (ACE) is primarily responsible for human hypertension. Current ACE drugs show serious cough and angiodema health problems due to the un-specific activity of the drug to ACE protein. The availability of ACE crystal structure (1UZF) provided the plausible biological orientation of inhibitors to ACE active site (C-domain). Three-dimensional quantitative structure-activity relationship (3D-QSAR) models have been constructed using the comparative molecula. field analysis (CoMFA) and comparative molecular similarity indices analysis (CoMSIA) for a series of 28 ACE inhibitors. Alignment for CoMFA obtained by docking ligands to 1UZF protein using FlexX program showed better statistical model as compared to superposition of corresponding atoms. The statistical parameters indicate reasonable models for both CoMFA (q$^2$ = 0.530, r$^2$ = 0.998) and CoMSIA (q$^2$= 0.518, r$^2$ = 0.990). The 3D-QSAR analyses provide valuable information for the design of ACE inhibitors with potent activity towards C-domain of ACE. The group substitutions involving the phenyl ring and carbon chain at the propionyl and sulfonyl moieties of captopril are essential for specific activity to ACE.