• BMB Reports
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• v.47 no.9
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• pp.475-482
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• 2014

Ubiquitin (Ub) is a versatile signaling molecule that plays important roles in a variety of cellular processes. Cellular Ub pools, which are composed of free Ub and Ub conjugates, are in dynamic equilibrium inside cells. In particular, increasing evidence suggests that Ub homeostasis, or the maintenance of free Ub above certain threshold levels, is important for cellular function and survival under normal or stress conditions. Accurate determination of various Ub species, including levels of free Ub and specific Ub chain linkages, have become possible in biological specimens as a result of the introduction of the proteomic approach using mass spectrometry. This technology has facilitated research on dynamic properties of cellular Ub pools and has provided tools for in-depth investigation of Ub homeostasis. In this review, we have also discussed the consequences of the disruption of Ub pool dynamics and homeostasis via deletion of polyubiquitin genes or mutations of deubiquitinating enzymes. The common consequence was a reduced availability of free Ub and a significant impact on the function and viability of cells. These observations further indicate that the levels of free Ub are important determinants for cellular protection.

• International Journal of Stem Cells
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• v.17 no.3
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• pp.270-283
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• 2024

Glutathione (GSH), the main cellular antioxidant, dynamically influences tumor growth, metastasis, and resistance to therapy in the tumor microenvironment (TME), which comprises cancer cells, immune cells, stromal cells, and non-cellular components, including the extracellular matrix, metabolites, hypoxia, and acidity. Cancer stem cells (CSCs) and T cells are minor but significant cell subsets of the TME. GSH dynamics influences the fate of CSCs and T cells. Here, we explored GSH dynamics in CSCs and T cells within the TME, as well as therapeutic approaches that could target these dynamics.

• Korean System Dynamics Review
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• v.1 no.1
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• pp.133-157
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• 2000

This paper deals with the social system from the point of system thinking consisting the fundamental construct of system dynamics. The Bertalanffy's general system theory, having been criticized because of its ambiguity, and the complex science theory, emerging system theory, are integrated by using the system thinking which is characterized with three concepts, 'feedback thinking', 'dynamic thinking', 'operational thinking'. In the integration, system thinking suggests the dynamic pattern of the social system have not only an equilibrium status but also complex status. The science of complexity gives an implication to system dynamics the important of the uncertainty and complexity if we interpret the social system as an open system. To show more concrete description, I simulate the cooperation model based on the iterated prisoner dilemma. The simulation results show the diverse patterns of cooperation and betrayal. Especially the sensitivity of initial payoff will cause the chaotic strategic landscapes as the game gose on. These results mean that we should not give the hasty prescription to control social system artificially. Because social system retains the self-organizing force in itself.

• Development and Reproduction
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• v.13 no.1
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• pp.13-23
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• 2009

Recent advances in cell biological and genetic researches have revealed that mitochondrial morphology is highly dynamic and regulated by multiple molecular factors including dynamin-related proteins (DRPs). Considering that the mitochondria play critical roles in the cellular metabolism via ATP synthesis, calcium homeostasis in cooperation with endoplasmic reticulum, and apoptosis, the failure of mitochondrial dynamics is infrequently related to the failure in the normal growth and cellular integrity. In this respect, alteration of mitochondrial dynamics may greatly affect the development of nervous system. In this short review, we discussed molecules involved in the control of mitochondrial dynamics, and provide some perspectives on their significance in the neuronal development.

• BMB Reports
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• v.50 no.4
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• pp.162-163
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• 2017

RNA polymerase II-interacting the Set2 methyltransferase co-transcriptionally methylates histone H3 at lysine 36 within the body of genes. This modification facilitates histone deacetylation by Rpd3S HDAC in 3' transcribed regions to suppress cryptic initiation and slow elongation. Although this pathway is important for global deacetylation, no strong effects have been seen on genome-wide transcription under optimized laboratory conditions. In contrast, this pathway slows the kinetics of mRNA induction when target genes are induced upon environmental changes. Interestingly, a majority of Set2-repressed genes are overlapped by a lncRNA transcription that targets H3K36 methylation and deacetylation by Rpd3S HDAC to mRNA promoters. Furthermore, this pathway delays the induction of many cryptic transcripts upon environmental changes. Therefore, the Set2-Rpd3S HDAC pathway functions to fine-tune expression dynamics of mRNAs and ncRNAs.

• Proceedings of the Korean System Dynamics Society
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• 1999.08a
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• pp.133-157
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• 1999

시스템 다이나믹스는 전통적인 단선론적 인과론을 극복하고 시스템의 동태적 특성을 파악하는데 상당한 공헌을 하였다. 그러나 이러한 시스템의 특성을 방정식에 의존하는 시뮬레이션 기법(Equation-Based Simulation:EBS)을 이용하여 분석하는 경우 방정식으로 묘사하기 어려운 복잡적응시스템(Complex Adaptive System)에서는 한계를 갖고 있다. 따라서 시스템의 동태적 특성을 좀더 정확히 파악을 하기 위해서는 시스템을 구성하는 개체(agent)들의 행동이 시스템 전체에 미치는 영향들을 모형화 함으로써 파악하는 것이 바람직하다고 할 수 있다. 본 연구는 이러한 개체지향 시뮬레이션(Agent-eased Simulation: ABS)의 기법을 복잡성과학의 패러다임을 소개함으로써 그 중요성을 설명하고자 한다. 특히 카오스 이론으로부터 복잡성과학으로의 발전 과정을 개념을 중심으로 논의함으로서 복잡적응시스템의 이해를 돕고자 한다. 또한 ABS가 실제로 전통적인 EBS가 묘사하는 생태계 시스템의 변화를 잘 묘사할 수 있다는 사실을 보여주기 위하여 3개체가 있는 Lotka-Voltera 모형을 Cellular Automata 라는 ABS에 기반 한 시뮬레이션 기법을 활용하여 그 사용가능성을 제시하고자 한다.

• BMB Reports
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• v.53 no.7
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• pp.357-366
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• 2020

Currently, most biological research relies on conventional experimental techniques that allow only static analyses at certain time points in vitro or ex vivo. However, if one could visualize cellular dynamics in living organisms, that would provide a unique opportunity to study key biological phenomena in vivo. Intravital microscopy (IVM) encompasses diverse optical systems for direct viewing of objects, including biological structures and individual cells in live animals. With the current development of devices and techniques, IVM addresses important questions in various fields of biological and biomedical sciences. In this mini-review, we provide a general introduction to IVM and examples of recent applications in the field of immunology, oncology, and vascular biology. We also introduce an advanced type of IVM, dubbed real-time IVM, equipped with video-rate resonant scanning. Since the realt-ime IVM can render cellular dynamics with high temporal resolution in vivo, it allows visualization and analysis of rapid biological processes.

• The Korea Genome Conference
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• 2005.09a
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• pp.57-57
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• 2005

• Nuclear Engineering and Technology
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• v.43 no.3
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• pp.243-256
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• 2011

This paper considers the concept of analog computing based on a cellular neural network (CNN) paradigm to simulate nuclear reactor dynamics using a time-dependent second order form of the neutron transport equation. Instead of solving nuclear reactor dynamic equations numerically, which is time-consuming and suffers from such weaknesses as vulnerability to transient phenomena, accumulation of round-off errors and floating-point overflows, use is made of a new method based on a cellular neural network. The state-of-the-art shows the CNN as being an alternative solution to the conventional numerical computation method. Indeed CNN is an analog computing paradigm that performs ultra-fast calculations and provides accurate results. In this study use is made of the CNN model to simulate the space-time response of scalar flux distribution in steady state and transient conditions. The CNN model also is used to simulate step perturbation in the core. The accuracy and capability of the CNN model are examined in 2D Cartesian geometry for two fixed source problems, a mini-BWR assembly, and a TWIGL Seed/Blanket problem. We also use the CNN model concurrently for a typical small PWR assembly to simulate the effect of temperature feedback, poisons, and control rods on the scalar flux distribution.

• BMB Reports
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• v.49 no.11
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• pp.598-606
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• 2016

ARF is an alternative reading frame product of the INK4a/ARF locus, inactivated in numerous human cancers. ARF is a key regulator of cellular senescence, an irreversible cell growth arrest that suppresses tumor cell growth. It functions by sequestering MDM2 (a p53 E3 ligase) in the nucleolus, thus activating p53. Besides MDM2, ARF has numerous other interacting partners that induce either cellular senescence or apoptosis in a p53-independent manner. This further complicates the dynamics of the ARF network. Expression of ARF is frequently disrupted in human cancers, mainly due to epigenetic and transcriptional regulation. Vigorous studies on various transcription factors that either positively or negatively regulate ARF transcription have been carried out. However, recent focus on posttranslational modifications, particularly ubiquitination, indicates wider dynamic controls of ARF than previously known. In this review, we discuss the role and dynamic regulation of ARF in senescence and cancer.