• Biotechnology and Bioprocess Engineering:BBE
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• 제10권5호
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• pp.385-399
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• 2005

The phenotypic response of a cell results from a well orchestrated web of complex interactions which propagate from the genetic architecture through the metabolic flux network. To rationally design cell factories which carry out specific functional objectives by controlling this hierarchical system is a challenge. Transcriptome analysis, the most mature high-throughput measurement technology, has been readily applied In strain improvement programs in an attempt to Identify genes involved in expressing a given phenotype. Unfortunately, while differentially expressed genes may provide targets for metabolic engineering, phenotypic responses are often not directly linked to transcriptional patterns, This limits the application of genome-wide transcriptional analysis for the design of cell factories. However, improved tools for integrating transcriptional data with other high-throughput measurements and known biological interactions are emerging. These tools hold significant promise for providing the framework to comprehensively dissect the regulatory mechanisms that identify the cellular control mechanisms and lead to more effective strategies to rewire the cellular control elements for metabolic engineering.

• Molecular & Cellular Toxicology
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• 제5권3호
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• pp.250-256
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• 2009

Toxicogenomics using microarray technology offers the ability to conduct large-scale detections and quantifications of mRNA transcripts, particularly those associated with alterations in mRNA stability or gene regulation. In this study, we developed the HazChem Human Array V2 using the Agilent Sure-Print technology-based custom array, which is expected to facilitate the identification of environmental toxicants. The array was manufactured using 600 VOCs and PAHs-specific genes identified in previous studies. In order to evaluate the viability of the manufactured HazChem human array V2, we analyzed the gene expression profiles of 9 environmental toxicants (6 VOCs chemicals and 3 PAHs chemicals). As a result, nine toxicants were separated into two chemical types-VOCs and PAHs. After the chip validations with VOCs and PAHs, we conducted an expression profiling comparison of additional chemical groups (POPs and EDCs) using data analysis methods such as hierarchical clustering, 1-way ANOVA, SAM, and PCA. We selected 58 genes that could be classified into four chemical types via statistical methods. Additionally, we selected 63 genes that evidenced significant alterations in expression with all 13 environmental toxicants. These results suggest that the HazChem Human Array V2 will expedite the development of a screening system for environmentally hazardous materials at the level of toxicogenomics in the future.

• Molecules and Cells
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• 제44권9호
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• pp.627-636
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• 2021

The three-dimensional organization of chromatin and its time-dependent changes greatly affect virtually every cellular function, especially DNA replication, genome maintenance, transcription regulation, and cell differentiation. Sequencing-based techniques such as ChIP-seq, ATAC-seq, and Hi-C provide abundant information on how genomic elements are coupled with regulatory proteins and functionally organized into hierarchical domains through their interactions. However, visualizing the time-dependent changes of such organization in individual cells remains challenging. Recent developments of CRISPR systems for site-specific fluorescent labeling of genomic loci have provided promising strategies for visualizing chromatin dynamics in live cells. However, there are several limiting factors, including background signals, off-target binding of CRISPR, and rapid photobleaching of the fluorophores, requiring a large number of target-bound CRISPR complexes to reliably distinguish the target-specific foci from the background. Various modifications have been engineered into the CRISPR system to enhance the signal-to-background ratio and signal longevity to detect target foci more reliably and efficiently, and to reduce the required target size. In this review, we comprehensively compare the performances of recently developed CRISPR designs for improved visualization of genomic loci in terms of the reliability of target detection, the ability to detect small repeat loci, and the allowed time of live tracking. Longer observation of genomic loci allows the detailed identification of the dynamic characteristics of chromatin. The diffusion properties of chromatin found in recent studies are reviewed, which provide suggestions for the underlying biological processes.

• 한국멀티미디어학회논문지
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• 제6권1호
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• pp.105-113
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• 2003

CDMA 셀룰러 시스템 내에서 고속이동체에 대한 비효율적인 채널할당으로 호 블록킹 확률이 높아진다. 이를 위하여 고속이동체의 속도에 따른 전용 채널과 큐를 할당하여 계층셀에 적용해 속도에 따른 QoS를 보장하는 방식이 제안되었다. 본 논문에서는 현재 위치한 셀에서의 이동체의 수신 신호세기에 따라 HA에 트래픽이 적을 때에 FA 내에 고속 핸드오프 전용 채널을 할당하였다 또한 FA 내 신호세기가 약한 고속 핸드오프 호에 대하여 새로운 환형 큐 LiFA를 생성하여 고속 핸드오프 호를 LiFA에 호 지속시간 동안 대기시켜 호 강제종료율을 개선하였다.

• KSII Transactions on Internet and Information Systems (TIIS)
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• 제10권3호
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• pp.950-975
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• 2016

Device-to-Device (D2D) communication underlaying cellular networks is a promising add-on component for future radio communication systems. It provides more access opportunities for local device pairs and enhances system throughput (ST), especially when mobile relays (MR) are further enabled to facilitate D2D links when the channel condition of their desired links is unfavorable. However, mutual interference is inevitable due to spectral reuse, and moreover, selecting a suitable transmission mode to benefit the correlated resource allocation (RA) is another difficult problem. We aim to optimize ST of the hybrid system via joint consideration of mode selection (MS) and RA, which includes admission control (AC), power control (PC), channel assignment (CA) and relay selection (RS). However, the original problem is generally NP-hard; therefore, we decompose it into two parts where a hierarchical structure exists: (i) PC is mode-dependent, but its optimality can be perfectly addressed for any given mode with additional AC design to achieve individual quality-of-service requirements. (ii) Based on that optimality, the joint design of MS, CA and RS can be viewed from the graph perspective and transferred into the maximum weighted independent set problem, which is then approximated by our greedy algorithm in polynomial-time. Thanks to the numerical results, we elucidate the efficacy of our mechanism and observe a resulting gain in MR-aided D2D communication.

• Molecules and Cells
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• 제40권7호
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• pp.450-456
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• 2017

Mammalian physiology and behavior are regulated by an internal time-keeping system, referred to as circadian rhythm. The circadian timing system has a hierarchical organization composed of the master clock in the suprachiasmatic nucleus (SCN) and local clocks in extra-SCN brain regions and peripheral organs. The circadian clock molecular mechanism involves a network of transcription-translation feedback loops. In addition to the clinical association between circadian rhythm disruption and mood disorders, recent studies have suggested a molecular link between mood regulation and circadian rhythm. Specifically, genetic deletion of the circadian nuclear receptor Rev-$erb{\alpha}$ induces mania-like behavior caused by increased midbrain dopaminergic (DAergic) tone at dusk. The association between circadian rhythm and emotion-related behaviors can be applied to pathological conditions, including neurodegenerative diseases. In Parkinson's disease (PD), DAergic neurons in the substantia nigra pars compacta progressively degenerate leading to motor dysfunction. Patients with PD also exhibit non-motor symptoms, including sleep disorder and neuropsychiatric disorders. Thus, it is important to understand the mechanisms that link the molecular circadian clock and brain machinery in the regulation of emotional behaviors and related midbrain DAergic neuronal circuits in healthy and pathological states. This review summarizes the current literature regarding the association between circadian rhythm and mood regulation from a chronobiological perspective, and may provide insight into therapeutic approaches to target psychiatric symptoms in neurodegenerative diseases involving circadian rhythm dysfunction.

• 한국통신학회논문지
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• 제25권10A호
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• pp.1461-1472
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• 2000

이동 통신 가입자의 수가 폭발적으로 증가하는 상황에서 좋은 품질을 갖는 서비스를 제공하기 위해서는 새로운 Cell Planning 기법이 필요하다. 따라서 차세대 이동통신 시스템인 IMT-2000 망에서 적절한 Cell Planning 기법을 이용하여 계층 셀 구조를 구성하여만 정상적인 IMT-2000 서비스 제공이 가능할 것이다. 본 논문에서는 향후 서비스 될 제 3세대 이동통신 시스템인 IMT-2000(3GPP)의 권고안을 분석하여 셀 설계에 필요한 여러 파라미터를 살펴본다. 또한 IMT-2000 무선링크 분석을 위한 모델을 설정하고 수직적으로 유도함으로써 순방향과 역방향 링크 버짓, 시스템의 용량, Call Blocking 확률, Erlang Capacity, 셀 커버리지를 분석한다. 분석을 수행하는데 있어서 계층 셀의 구조와 사용자 수, 서비스의 종류, 지역 등 여러 가지 환경의 변화에 따른 설계의 방향을 제시하였다. 본 논문을 통해 IMT-2000 상용화 시 효율적인 Cell Planning 기법 제시 및 용량 극대화를 이룰 수 있을 것이다.