• Korean Journal of Microbiology
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• v.54 no.3
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• pp.188-199
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• 2018

Genomic epidemiology exploits various basic microbial research areas. High-throughput sequencing technologies dramatically have been expanding the number of microbial genome sequences available. Abundant genomic data provide an opportunity to perform strain typing more effectively, helping identify microbial species and strains at a higher resolution than ever before. Genomic epidemiology needs to find antimicrobial resistance genes in addition to standard genome annotations. Strain typing and antimicrobial resistance gene finding are static aspects of genomic epidemiology. Finding which hosts infected which other hosts requires the inference of transient transmission routes among infected hosts. The strain typing, antimicrobial resistance gene finding, and transmission tree inference would allow for better surveillance of microbial infectious diseases, which is one of the ultimate goals of genomic epidemiology. Among several high-throughput sequencing technologies, genomic epidemiology will benefit from the more portability and shorter sequencing time of the Oxford Nanopore Technologies's MinION, the third-generation sequencing technology. Here, this study reviewed computational methods for quantifying antimicrobial resistance genes and inferring disease transmission trees. In addition, the MinION's applications to genomic epidemiology were discussed.

• The KIPS Transactions:PartA
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• v.9A no.3
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• pp.387-398
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• 2002

As whole genome sequences of many organisms have been revealed by small-scale genome projects, the intensive research on individual genes and their functions has been performed. However on-memory algorithms are inefficient to analysis of whole genome sequences, since the size of individual whole genome is from several million base pairs to hundreds billion base pairs. In order to effectively manipulate the huge sequence data, it is necessary to use the indexed data structure for external memory. In this paper, we introduce a workbench system for analysis and visualization of whole genome sequence using string B-tree that is suitable for analysis of huge data. This system consists of two parts : analysis query part and visualization part. Query system supports various transactions such as sequence search, k-occurrence, and k-mer analysis. Visualization system helps biological scientist to easily understand whole structure and specificity by many kinds of visualization such as whole genome sequence, annotation, CGR (Chaos Game Representation), k-mer, and RWP (Random Walk Plot). One can find the relations among organisms, predict the genes in a genome, and research on the function of junk DNA using our workbench.

• Journal of Life Science
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• v.21 no.3
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• pp.459-463
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• 2011

The genome of the rhesus monkey has diverged as an average sequence identity of ~93%. The rhesus monkey has been widely used as a non-human primate in the field of biomedical and evolutional research. Insertion of transposable elements (TEs) induced several events such as transcriptional diversity and different expression in host genes. In this study, 112 transcripts were identified from a full-length cDNA library of brain tissues of the rhesus monkey. One transcript (R54) showed a different expression pattern between human and rhesus monkey tissues. This phenomenon can be an explanation that R54 transcript was acquired by splicing a donor site derived from exonization of the L2A element. Therefore, integration of TEs during primate radiation could contribute to transcriptional diversity and gene regulation.

• Journal of the Korean Crystal Growth and Crystal Technology
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• v.20 no.1
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• pp.25-29
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• 2010

Thulium oxide-doped barium titanate ceramics for MLCCs with perovskite structure were prepared by a sintering process at $1320^{\circ}C$ for 2 h in a reduced atmosphere. The effect of $Tm_2O_3$ addition on dielectric property of barium titanate ceramics has been studied in terms of their microstructures. Moreover, the phase identification of the dielectric specimens was conducted to define the secondary phase (pyrochlore). The specimen doped with 1 mol% $Tm_2O_3$ exhibited the highest dielectric constant. However, the dielectric constants of specimens with more than 2 mol% $Tm_2O_3$ to $BaTiO_3$ were the lower values than that of 1 mol% doped one. The grain size and the formation of pyrochlore phase associated with the dielectric properties were examined through morphology development and the structural analysis. Furthermore, these data were compared with the property of the dielectric material doped with $Er_2O_3$. It could be concluded that the dielectric property of ceramic capacitors were attributed to the change of pyrochlore phase and the tetragonality of $BaTiO_3$ with doping.

• Journal of Plant Biotechnology
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• v.42 no.4
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• pp.336-341
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• 2015

Blueberry (Vaccinium spp.) is a bush that grows well at special cultural environments such as acid soil, high organic matter content, and a good drainage and aeration compared to other general crops. Blueberries are well known to contain high amounts of anthocyanins and phenolic compounds, resulting in high antioxidant activity that provides health benefits, and expanding the cultivation areas and consumer's demand in the worldwide. However, the full genome of blueberry has not been announced until now. Furthermore, the genomic analysis and transcriptome approaches are not so popular compare to major crops such as orange, apple, and grape. The aim of the review about blueberry genomic research is to establish the platform for setting blueberry breeding target, increasing proficiency of blueberry research, and making the practical cultivation techniques in Korea. The main topics in the blueberry genomic research including transcriptome, genetic mapping, and various markers are related with cold hardiness, chilling requirement, hot tolerance, anthocyanin content, and flavonoid synthesis pathway on various tissues like flower bud, leaf bud, shoot, root, and berry fruit. The review of the current status of blueberry genomic research will provide basic information to the breeders and researchers and will contribute to development of blueberry industry with sustainable productions and increase of blueberry consumption as new profitable crops in Korea.

• Proceedings of the Korea Multimedia Society Conference
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• 2003.05b
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• pp.571-574
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• 2003

서열 정렬(sequence alignment)은 새로운 서열의 기능적, 구조적, 진화적 분석을 용이하게 하기 때문에 분자 생물학(molecular biology) 등에서 널리 사용된다. 지금까지 서열 정렬 알고리즘들에 대한 연구는 활발히 진행되어 왔다. 특히, 생물학 데이터양의 기하급수적인 증가와 전체 유전체 서열의 분석이 이루어진 종(species)들이 증가하면서, 보다 빠르고 정확하게 서열 정력을 수행하는 알고리즘이 필요하게 되었다. 본 논문에서는 동적 프로그래밍 방식에서부터 전체 유전체 서열 알고리즘에 이르기까지 서열 정렬 알고리즘의 연구 동향을 분석하고자 한다.

• Korean Journal of Optics and Photonics
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• v.26 no.3
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• pp.139-146
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• 2015

The effects of a dielectric multilayer mirror on the efficiency of organic light-emitting diodes (OLEDs) were investigated by using optical simulation. Adoption of a dielectric mirror consisting of alternating SiN and $SiO_2$ layers narrowed the emission spectrum due to the microcavity effect, and increased the outcoupling efficiency by a few percent. The layer thicknesses of the dielectric mirror were adjusted to change the wavelength of the resonance mode, which may be used to increase the color purity.

• The Journal of Korean Institute of Electromagnetic Engineering and Science
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• v.10 no.2
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• pp.187-195
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• 1999

A series feedback DRO operating at 3.2 GHz applicable to the spectrum analyzer as the second local oscillator, is designed and fabricated. We can obtain a low noise by utilizing the small signal S-parameter of the transistor and adjusting the reflection coefficient from the coupling coefficient between dielectric resonator and microstrip line. The results show that output power is 10.50 dBm, a stable low phase noise is -116 dBc/Hz at a 10 kHz offset frequency and a harmonic characteristic is 19.33 dBc.

• Proceedings of the Korean Vacuum Society Conference
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• 2014.02a
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• pp.301.2-301.2
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• 2014

집적회로의 밀도가 높이기 위해 단일 소자의 크기를 줄이는 과정에서 발생하는 소자의 성능 저하를 줄이기 위해 새로운 구조 및 구성 물질을 변경하는 연구가 활발하게 진행되고 있다. 기존의 평면 구조를 변형한 3차원 구조의 n-channel FinFet는 소자의 구성 물질을 바꾸지 않고도 쇼트 채널효과와 누설전류를 줄일 수 있다. 다양한 구조의 유전 물질을 응용한 n-channel FinFEET은 기존의 n-channel FinFET보다 소자의 크기를 줄일 수 있는 가능성을 제시하고 있다. FinFETs에 관한 많은 연구가 진행되어 왔지만, 유전체 물질을 이용한 n-channel FinFETs의 구조에 대한 연구는 매우 적다. 본 연구는 FinFET의fin channel 영역에 유전 물질을 삽입하여 그 영향을 분석한 연구이다. FinFET의 fin channel 영역에 유전 물질을 삽입하여 평면 구조의 MOSFET에서 fully depletion SOI 구조와 같은 동작을 하도록 만들었다. 유전 물질을 삽입한 FinFET 소자의 전기적 특성을 3차원 TCAD 시뮬레이션을 툴을 이용하여 계산하였다. 유전 물질을 삽입한 n-channel FinFET에서 전자 밀도와 측면 전계의 영향이 기존의 FinFET보다 좋은 특성을 확인하였다. 또한 유전물질을 삽입한 FinFETs은 subthershold swing, 누설전류, 소비전력을 줄여 주었다. 이러한 결과는 n-Channel FinFETs의 성능을 향상시키는데 많은 도움이 될 것이다.

• Korean Journal of Microbiology
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• v.53 no.4
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• pp.344-346
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• 2017

Lactobacillus plantarum is widely found in fermented foods and has various phenotypic and genetic characteristics to adapt to the environment. Here we report the complete annotated genome sequence of the L. plantarum strain JBE245 (= KCCM43243) isolated for malolactic fermentation of apple juice. The genome comprises a single circular 3,262,611 bp chromosome with 2907 coding regions, 45 pseudogenes, and 91 RNA genes. The genome contains 4 malate dehydrogenase genes, 3 malate permease genes and various types of plantaricin-synthesizing genes. These genetic traits meet the selection criteria of the strains that should prevent the spoilage of apple juice during fermentation and efficiently convert malate to lactic acid.