• 대한화학회지
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• 제37권4호
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• pp.396-400
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• 1993

소랄렌의 광-피부증감의 구조-활성화 관계를 MM2, FMO 그리고 분자 connectivity법으로 연구하였다. DNA 염기에 끼워져 가교를 형성하는 소랄렌이 착물을 형성하는능력이 서로 다르다는 것을 DNA와 광-피부증감 소랄렌사이에 형성되는 분자착물로써 논의하였다. 광-피부증감을 소랄렌 유도체들의 활성화 자리의 입체 기하학 모델에 대해 분석하였고, 프론티어 오비탈 밀도는 광-피부증감 발암 활성도와 밀접한 관련이 있음을 알았다.

• 한국정밀공학회:학술대회논문집
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• 한국정밀공학회 2005년도 춘계학술대회 논문집
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• pp.1206-1209
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• 2005

In recent, injection molding process for features in sub-micron scale is under active development as patterning nano-scale features, which can provide the master or stamp for molding, and becomes available around the world. Injection molding has been one of the most efficient processes for mass production of the plastic product, and this process is already applied to nano-technology products successfully such as optical storage media like DVD or BD which is a large area plastic thin substrate with nano-scale features on its surface. Bio chip for like DNA sequencing may be another application of this plastic substrate. The DNA can be sequenced using order of 100 nm pore structure when making the DNA flow through the pore structure. Agarose gel and silicon based chip have been used to sequence the DNA, but injection molded plastic chip may have benefit in terms of cost. This plastic DNA sequencing chip has plenty of pillars in order of 100 nm in diameter on the substrate. When the usual features in case of DVD or BD have very low aspect ratio, even less than 0.5, but the DNA chip will have relatively high aspect ratio of about 2. It is not easy to injection mold the large area thin substrate with sub-micron features on its surface due to the characteristics of the molding process and it becomes much more difficult when the aspect ratio of the features becomes high. We investigated the effect of the molding parameters for injection molding with high aspect ratio nano-scale features and injection molded some plastic DNA sequencing chips. We also fabricated PR masters and Ni stamps of the DNA chip to be used for molding

• Asian Pacific Journal of Cancer Prevention
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• 제17권7호
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• pp.3061-3063
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• 2016

Exploiting the immune system to abolish cancer growth via vaccination is a promising strategy but that is limited by many clinical issues. For DNA vaccines, viral vectors as a delivery system mediate a strong immune response due to their protein structure, which could afflect the cellular uptake of the genetic vector or even induce cytotoxic immune responses against transfected cells. Recently, synthetic DNA delivery systems have been developed and recommended as much easier and simple approaches for DNA delivery compared with viral vectors. These are based on the attraction of the positively charged cationic transfection reagents to negatively charged DNA molecules, which augments the cellular DNA uptake. In fact, there are three major cellular barriers which hinder successful DNA delivery systems: low uptake across the plasma membrane; inadequate release of DNA molecules with limited stability; and lack of nuclear targeting. Recently, a polysaccharide polymer produced by microalgae has been synthesized in a form of polymeric fiber material poly-N-acetyl glucosamine (p-GlcNAc). Due its unique properties, the F2 gel matrix was suggested as an effective delivery system for immune and gene vaccinations.

• Journal of Microbiology and Biotechnology
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• 제19권11호
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• pp.1408-1414
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• 2009

The obtention of high yields of purified plasmid DNA is viewed as an essential issue to be considered towards efficient production of DNA vaccines and therapeutic plasmids. In this work, Escherichia coli $DH5\alpha$. bearing the pVAXI-LacZ plasmid was grown in a developed semi-defined medium at different temperatures and tryptone concentrations. Analysis of pDNA yields and E. coli morphology revealed that at higher temperatures (37 and $40^{\circ}C$), higher specific yields and E. coli filamentation were obtained. However, the best results were achieved when a lower tryptone concentration was used. This approach was shown to be a powerful tool to promote plasmid amplification, keeping the desirable plasmid structure, and favoring the attainment of quality. Our results suggest that by using tryptone alone as an amino acid source, pDNA amplification was improved and a specific yield of 20.43 mg pDNA/g dcw was achieved, proving that this strategy can improve pDNA yield even at a small scale.

• 한국정보과학회논문지:시스템및이론
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• 제31권3_4호
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• pp.145-151
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• 2004

본 논문에서는 배열에서 구간 최소값 위치를 상수 시간에 찾기 위한 효율적인 자료구조를 제시한다. 최근의 생물 정보학 분야에서 빠른 DNA 서열의 검색을 위해 접미사 배열이 많이 사용되고 있는데 이 접미사 배열을 생성하는 문제는 구간 최소값 위치 문제를 포함하고 있다. 이 접미사 배열을 생성할 때는 구간 최소값 위치 문제를 빠르게 푸는 것뿐만 아니라 공간 효율적으로 해결하는 것도 중요하다. 그 이유는 DNA 서열이 수백만 개에서 수십 억 개의 염기를 가진 굉장히 큰 데이타이기 때문이다. 배열의 구간 최소간 위치를 상수 시간에 찾기 위해 지금까지 알려진 가장 효율적인 자료구조는 배열의 구간 최소값 문제를 Cartesian 트리에서의 LCA(Lowest Common Ancestor) 문제로 바꾸고 이 트리에서의 LCA 문제를 다시 특수한 배열에서의 구간 최소값 문제로 바꾸어 푸는 방법을 이용한 자료구조이다. 이 자료구조는 이론적으로 O(n) 공간을 사용하여 O(n) 시간에 생성된다. 하지만 이 자료구조는 배열의 구간 최소값 문제를 두 번에 걸쳐 다른 문제로 변환하는 과정을 포함하고 있기 때문에 실제로 사용되는 공간은 상당히 큰 13n이며 또한 많은 시간이 요구된다. 본 논문에서 제시하는 자료구조는 배열의 구간 최소값 문제를 다른 문제로 변환하지 않고 직접 구하는 자료구조이다. 따라서 이론적으로 O(n) 공간을 차지하며 O(n) 시간에 생성될 뿐만 아니라 실제적으로도 5n의 적은 공간을 사용하며 빠른 시간에 생성된다.

• 대한전기학회:학술대회논문집
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• 대한전기학회 2004년도 학술대회 논문집 정보 및 제어부문
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• pp.370-372
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• 2004

This paper addresses the wavelet-based fuzzy PI/PD controller design using DNA coding method. A structure of fuzzy controller model is adopted as the wavelet transform of which the coefficients are identified. The proposed method overcomes some mathematical limits of conventional methods by using the fuzzy logic that is optimized by DNA coding method. The feasibility of the proposed fuzzy controller design scheme is verified by applying to the servo control of the optical disk drive.

• BMB Reports
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• 제40권2호
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• pp.135-141
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• 2007

Conjugation of the methyl group at the fifth carbon of cytosines within the palindromic dinucleotide 5'-CpG-3' sequence (DNA methylation) is the best studied epigenetic mechanism, which acts together with other epigenetic entities: histone modification, chromatin remodeling and microRNAs to shape the chromatin structure of DNA according to its functional state. The cancer genome is frequently characterized by hypermethylation of specific genes concurrently with an overall decrease in the level of 5-methyl cytosine, the pathological implication of which to the cancerous state has been well established. While the latest genome-wide technologies have been applied to classify and interpret the epigenetic layer of gene regulation in the physiological and disease states, the epigenetic testing has also been seriously explored in clinical practice for early detection, refining tumor staging and predicting disease recurrence. This critique reviews the latest research findings on the use of DNA methylation in cancer diagnosis, prognosis and staging/classification.

• Journal of Microbiology and Biotechnology
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• 제27권3호
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• pp.644-647
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• 2017

Peptidyl prolyl cis/trans isomerases (PPIases) catalyze the cis/trans isomerization of peptidyl-prolyl peptide bonds preceding prolines. We investigated the protein-protein interaction between a 22 kDa PPIase (VaFKBP22, an FK506-binding protein) and the molecular chaperone DnaK derived from Vibrio anguillarum O1 (VaDnaK) using GST pull-down assays and a bacterial two-hybrid system for in vivo and in vitro studies, respectively. Furthermore, we analyzed the three-dimensional structure of the protein-protein interaction. Based on our results, VaFKBP22 appears to act as a cochaperone of VaDnaK, and contributes to protein folding and stabilization via its peptidyl-prolyl cis/trans isomerization activity.

• Applied Biological Chemistry
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• 제36권4호
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• pp.315-317
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• 1993

To understand the molecular structure and pathogenesis mechanism of Korean garlic viruses (GV), virus particles were isolated from field-grown garlic leaves and RNA genome was isolated from them. It was used for constructing cDNA library for GV. Several cDNA clones for GV were isolated and classified into 4 different groups on the basis of cross Southern hybridization. Northern blot analysis of GV RNA with one of these cDNA clones shows that the clone is a cDNA for GV RNA.

• International journal of advanced smart convergence
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• 제5권3호
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• pp.8-15
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• 2016

In recent years, one of deep learning models called Deep Belief Network (DBN) which formed by stacking restricted Boltzman machine in a greedy fashion has beed widely used for classification and recognition. With an ability to extracting features of high-level abstraction and deal with higher dimensional data structure, this model has ouperformed outstanding result on image and speech recognition. In this research, we assess the applicability of deep learning in dna classification level. Since the training phase of DBN is costly expensive, specially if deals with DNA sequence with thousand of variables, we introduce a new encoding method, using decimal-binary vector to represent the sequence as input to the model, thereafter compare with one-hot-vector encoding in two datasets. We evaluated our proposed model with different contrastive algorithms which achieved significant improvement for the training speed with comparable classification result. This result has shown a potential of using decimal-binary vector on DBN for DNA sequence to solve other sequence problem in bioinformatics.