• 공업화학
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• 제25권2호
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• pp.147-151
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• 2014

많은 고분자 공정에서 고분자에서의 유기 용매와 같은 저분자 물질의 확산은 중요하다. 고분자에서의 저분자 물질의 이동은 중합 반응기의 효율성과 제조된 고분자의 특성을 결정한다. 공정을 설계하고 최적화하는데 중요한 물성값은 고분자/용매 상호확산 계수이다. 용매의 농도가 매우 낮은 무한희석 상태에서의 고분자/용매 계의 무한확산계수를 측정하기 위해서 capillary column inverse gas chromatography (CCIGC) 기법이 흔히 사용된다. 이 기법을 사용하면 비교적 짧은 시간에 확산계수와 분배계수를 측정하는 것이 가능하다. 본 연구에서는 CCIGC 기법을 사용해서 styrene/butadiene/styrene (SBS) 블록 공중합체에서 환형 구조를 가지는 용매의 확산계수와 분배계수를 다양한 온도 범위에서 측정하였다.

• KSBB Journal
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• 제32권1호
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• pp.29-34
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• 2017

The completion of the Human Genome Project that identified all 3 billion base pairs in the human genome can be seen as a step towards understanding the relay of information and intention within an organism, or in other words, the language of life. The faculty of human language, key to differentiating humans from other animate species, works for conveying information to others by mapping meaning to sound based on syntactic structures. This resemblance between life and language has not gone unnoticed; the literature on RNA transcription and translation research regularly uses linguistic metaphors and the biolinguistic perspective of language has also been studied. By examining the biological characteristics of language and the linguistic characteristics of life, this study aims to identify key mechanisms shared between the two systems in order to promote a stronger connection between them. It furthers this goal by pointing out two general messages to which these mechanisms aim, productivity and accuracy, and discovers what lesson these messages give to a human society geared for sustainability.

• International Journal of Control, Automation, and Systems
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• 제4권3호
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• pp.382-393
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• 2006

Mechanical system dynamics plays an important role in the area of computational structural biology. Elastic network models (ENMs) for macromolecules (e.g., polymers, proteins, and nucleic acids such as DNA and RNA) have been developed to understand the relationship between their structure and biological function. For example. a protein, which is basically a folded polypeptide chain, can be simply modeled as a mass-spring system from the mechanical viewpoint. Since the conformational flexibility of a protein is dominantly subject to its chemical bond interactions (e.g., covalent bonds, salt bridges, and hydrogen bonds), these constraints can be modeled as linear spring connections between spatially proximal representatives in a variety of coarse-grained ENMs. Coarse-graining approaches enable one to simulate harmonic and anharmonic motions of large macromolecules in a PC, while all-atom based molecular dynamics (MD) simulation has been conventionally performed with an aid of supercomputer. A harmonic analysis of a macroscopic mechanical system, called normal mode analysis, has been adopted to analyze thermal fluctuations of a microscopic biological system around its equilibrium state. Furthermore, a structure-based system optimization, called elastic network interpolation, has been developed to predict nonlinear transition (or folding) pathways between two different functional states of a same macromolecule. The good agreement of simulation and experiment allows the employment of coarse-grained ENMs as a versatile tool for the study of macromolecular dynamics.

• 한국지능시스템학회논문지
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• 제16권2호
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• pp.222-227
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• 2006

현재 막대한 병렬성을 갖는 DNA 컴퓨팅을 이용하여 Traveling Salesman Problem (TSP)를 해결하기 위한 연구가 진행되고 있다. 하지만 기존의 방법은 그래프 문제의 표현에서 DNA의 특성을 고려하지 않아, 실제 생물학적 실험 결과와의 차이가 발생하고 있다. 따라서 DNA의 특성을 반영하고 생물학적 실험 오류를 줄일 수 있는 DNA 서열 생성 알고리즘이 필요하다. 본 논문에서는 DNA 컴퓨팅에 진화 모델의 하나인 DNA 코딩 방법을 적용한 DNA 서열 생성 알고리즘을 제안한다. 제안한 알고리즘은 TSP에 적용하여 기존에 단순 유전자 알고리즘과 비교하였다. 그 결과 제안한 알고리즘은 오류를 최소화한 우수한 서열을 생성하고 생물학적 실험 오류율도 줄일 수 있었다.

• 한국산학기술학회논문지
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• 제11권3호
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• pp.971-977
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• 2010

본 바이오데이터들이 홍수처럼 쏟아지면서 컴퓨터를 활용해 해결해야 할 많은 문제들이 야기되고 있다. 생체분자들과 연관된 정보들을 대량으로 분석하는 전산기술 응용분야인 생명정보학은 학제간 학문분야로서 현재 확고히 자리매김하고 있으며. 구조생물학, 유전체학, 단백질체학, 시스템 생물학, 생물통계학 및 전산학 등 광범위한 학문영역을 포괄한다. 본 총설에서는 생명정보학에 대한 최근 상황과 전반적인 응용분야에 대해 소개하고자 한다. 일반적으로 널리 사용되는 생명정보 및 바이오데이터베이스들의 유형을 살펴보고, 전산학 분야와 긴밀한 관계가 있는 몇가지 생명정보학 응용 분야들을 다루고자 한다.

• Toxicological Research
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• 제30권3호
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• pp.179-184
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• 2014

Xenobiotics causing a variety of toxicity in biological systems could be classified as two types, inorganic and organic chemicals. It is estimated that the organic xenobiotics are responsible for approximately 80~90% of chemical-induced toxicity in human population. In the class for toxicology, we have encountered some difficulties in explaining the mechanisms of toxicity caused especially by organic chemicals. Here, a simple flowchart was introduced for explaining the mechanism of toxicity caused by organic xenobiotics, as the central dogma of molecular biology. This flowchart, referred to as a central dogma, was described based on a view of various aspects as follows: direct-acting chemicals vs. indirect-acting chemicals, cytochrome P450-dependent vs. cytochrome P450-independent biotransformation, reactive intermediates, reactivation, toxicokinetics vs. toxicodynamics, and reversibility vs. irreversibility. Thus, the primary objective of this flowchart is to help better understanding of the organic xenobiotics-induced toxic mechanisms, providing a major pathway for toxicity occurring in biological systems.

• Molecules and Cells
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• 제42권2호
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• pp.166-174
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• 2019

Bacterial species in the genus Xanthomonas infect virtually all crop plants. Although many genes involved in Xanthomonas virulence have been identified through molecular and cellular studies, the elucidation of virulence-associated regulatory circuits is still far from complete. Functional gene networks have proven useful in generating hypotheses for genetic factors of biological processes in various species. Here, we present a genome-scale co-functional network of Xanthomonas oryze pv. oryzae (Xoo) genes, XooNet (www.inetbio.org/xoonet/), constructed by integrating heterogeneous types of genomics data derived from Xoo and other bacterial species. XooNet contains 106,000 functional links, which cover approximately 83% of the coding genome. XooNet is highly predictive for diverse biological processes in Xoo and can accurately reconstruct cellular pathways regulated by two-component signaling transduction systems (TCS). XooNet will be a useful in silico research platform for genetic dissection of virulence pathways in Xoo.

• Genomics & Informatics
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• 제6권4호
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• pp.210-222
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• 2008

Due to the polygenic nature of cancer, it is believed that breast cancer is caused by the perturbation of multiple genes and their complex interactions, which contribute to the wide aspects of disease phenotypes. A systems biology approach for the identification of subnetworks of interconnected genes as functional modules is required to understand the complex nature of diseases such as breast cancer. In this study, we apply a 3-step strategy for the interpretation of microarray data, focusing on identifying significantly perturbed metabolic pathways rather than analyzing a large amount of overexpressed and underexpressed individual genes. The selected pathways are considered to be dysregulated functional modules that putatively contribute to the progression of disease. The subnetwork of protein-protein interactions for these dysregulated pathways are constructed for further detailed analysis. We evaluated the method by analyzing microarray datasets of breast cancer tissues; i.e., normal and invasive breast cancer tissues. Using the strategy of microarray analysis, we selected several significantly perturbed pathways that are implicated in the regulation of progression of breast cancers, including the extracellular matrix-receptor interaction pathway and the focal adhesion pathway. Moreover, these selected pathways include several known breast cancer-related genes. It is concluded from this study that the present strategy is capable of selecting interesting perturbed pathways that putatively play a role in the progression of breast cancer and provides an improved interpretability of networks of protein-protein interactions.

• 한국지능시스템학회:학술대회논문집
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• 한국퍼지및지능시스템학회 2000년도 추계학술대회 학술발표 논문집
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• pp.452-455
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• 2000

There are increasingly important financial incentives and environmental consideration to improve the effluent quality of wastewater from domestic and industrial users. The activated sludge process is a widely used biological wastewater treatment process. The activated sludge process is complicated due to the many factors such as the variation of influent flowrate and concentration, the complexity of biological reactions and the various operation conditions. Nowadays, not only suspended solids and residual carbon, but also nitrogen and phosphorous concentration of the effluent water must be taken into account for the design and operation of wastewater treatment plants. Also, the effluent quality to be met are more stringent. Therefore, an intelligent control approach is required in order to successful biological nitrogen removal. In this paper, the strategies for dosage of extra carbon in the anoxic zone and DO concentration in the aerobic zone are presented and evaluated through the simulation using the denitrification layout of the IWA simulation benchmark implemented by Matlab$\^$/5.3/Simulink$\^$/3.0. The control strategy to achieve sufficient denitrification rates in an anoxic zone. Methanol is used as an external extra carbon source. The external extra carbon source is required for the nitrogen removal process because nitrogen and organic concentration are fluctuated in the influent flowrate. The dissolved oxygen is calculated by So concentration in the activated sludge model NO.1. The air flowrate of each aerobic reactor is intelligently controlled to achieve the predefined setpoints. Air flowrate is adjusted by the fuzzy logic controller that includes two inputs and one output. The objective function for the optimization procedure is designed to improve effluent quality and reduce the operating cost.

• 한국농공학회논문집
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• 제60권3호
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• pp.135-148
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• 2018

Reservoir sedimentation is a major environmental issue, and various sediment load controls and plans have been proposed to secure clean and safe water resources. The objectives of this study were to estimate soil loss in the upper basins and predict sediment deposition in Ipjang reservoir using hydrologic and hydraulic model. To do so, SWAT (Soil and Water Assessment Tool) and EFDC (Environmental Fluid Dynamics Code) was used to estimate soil loss in two upper basins and to predict spatial distribution and amount of sediment deposition in the Ipjang reservoir, respectively. The hydrologic modeling results showed that annual average soil loss from the upper basins was 500 ton. The hydraulic modeling results demonstrated that sediment particles transported to the reservoir were mostly trapped in the vicinity of the reservoir inlet and then moved toward the bank over time. If long-term water quality monitoring and sediment survey are performed, this study can be used as a tool for predicting the dredging amount, dredging location and proper dredging cycle in the reservoir. The study findings are expected to be used as a basis to establish management solutions for sediment reduction.