• Proceedings of the PSK Conference
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• 2002.10a
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• pp.406.3-407
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• 2002

Analysis of interferon alpha (IFN) modified with high molecular weight branched PEG was performed by capillary electrophoresis (CE) and MALDI-TOF mass spectrometry (MALDI-TOF MS). IFN was modified by the reaction of amine residues with an active ester of monomethoxy polyethylene glycol at various molar ratios. As a CE method. capilary electrophoresis sodium dodecyl sulfate nongel sieving (CE-SDS NGS) was performed using an uncoated capilary filled with a hydrophilic replaceable polymer network matrix. (omitted)

• Proceedings of the Korean Society of Crop Science Conference
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• 2017.06a
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• pp.58-58
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• 2017

The advent of next generation sequencing technology has elicited plenty of sequencing data available in agriculturally relevant plant species. For most crop species, it is too expensive to obtain the whole genome sequence data with sufficient coverage. Thus, many approaches have been developed to bring down the cost of NGS. Genotyping-by-sequencing (GBS) is a cost-effective genotyping method for complex genetic populations. GBS can be used for the analysis of genomic selection (GS), genome-wide association study (GWAS) and constructing haplotype and genetic linkage maps in a variety of plant species. For efficiently dealing with plant GBS data, the TASSEL-GBS pipeline is one of the most popular choices for many researchers. TASSEL-GBS is JAVA based a software package to obtain genotyping data from raw GBS sequences. Here, we describe application of GBS and bioinformatics pipeline of TASSEL-GBS for analyzing plant genetics data.

• Journal of Dairy Science and Biotechnology
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• v.36 no.2
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• pp.125-131
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• 2018

The present study aimed to investigate the microbial diversity in Gouda cheese within the four months of ripening, via next-generation sequencing (NGS). Lactococcus (96.03%), and Leuconostoc (3.83%), used as starter cultures, constituted the majority of bacteria upon 454 pyrosequencing based on 16S rDNA sequences. However, no drastic differences were observed among other populations between the center and the surface portions of Gouda cheese during ripening. Although the proportion of subdominant species was <1%, slight differences in bacterial populations were observed in both the center and the surface portions. Taken together, our results suggest that environmental and processing variables of cheese manufacturing including pasteurization, starter, ripening conditions are important factors influencing the bacterial diversity in cheese and they can be used to alter nutrient profiles and metabolism and the flavor during ripening.

• Korean Journal of Plant Taxonomy
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• v.46 no.1
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• pp.60-64
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• 2016

Scopolia parviflora of the family Solanaceae is an endemic species of Korea and a traditional Korean medicinal plant. The plastid genome was sequenced by next-generation sequencing (NGS) method. The characterized cp genome is 156,193 bp in size; the large single-copy (LSC) region is 86,364 bp, the inverted repeat (IR) is 25,905 bp, and the small single copy (SSC) region is 18,019 bp. The overall GC content of the plastid genome amounts to 37.61%. The cp genome contains 113 genes and 21 introns, including 80 proteincoding genes, four RNA genes, 30 tRNA genes, 20 group II introns, and one group I intron. A phylogenetic analysis showed that Scopolia parviflora was closely related to Hyoscyamus niger.

• Proceedings of the Korea Information Processing Society Conference
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• 2019.10a
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• pp.1107-1109
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• 2019

차세대 게놈 시퀀싱(NGS) 기술이 발전하면서 방대하게 축적된 유전체 데이터를 분석하기 위해 다양한 시퀀스 정렬 연구가 진행되고 있다. 시퀀스 정렬 중 잘 알려진 BLAST에서는 휴리스틱 기반의 시퀀스 정렬을 수행하여 긴 리드 시퀀스에 대해 속도와 안정성이 보장되지만 짧은 리드 시퀀스에 대해서는 성능이 저하되는 문제가 있다. 이 문제를 해결하기 위해 본 논문에서는 레퍼런스 시퀀스와 쿼리 시퀀스를 Seed 기반으로 분리하여 정렬을 수행한다. 최종적으로는 contig를 추출하고 레퍼런스-쿼리간 유효한 contig만 선별하여 빠르게 짧은 리드 시퀀스들의 정렬을 수행할 수 있는 정렬기를 구현하고자 한다.

• Journal of Environmental Science International
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• v.28 no.10
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• pp.899-905
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• 2019

Recently, an innovative method for wastewater treatment and nutrient removal was developed by combining the sequence batch reactor and membrane bioreactor to overcome pollution caused by shipboard sewage. This system is a modified form of the activated sludge process and involves repeated cycles of mixing and aeration. In the present study, the bacterial diversity and dominant microbial community in this wastewater treatment system were studied using the MACROGEN next generation sequencing technique. A high diversity of bacteria was observed in anaerobic and aerobic bioreactors, with approximately 486 species. Microbial diversity and the presence of beneficial species are crucial for an effective biological shipboard wastewater treatment system. The Arcobacter genus was dominant in the anaerobic tank, which mainly contained Arcobacter lanthieri (8.24%), followed by Acinetobacter jahnsonii (5.81%). However, the dominant bacterial species in the aerobic bioreactor were Terrimonas lutea (7.24%) and Rubrivivax gelatinosus (4.95%).

• Journal of Plant Biotechnology
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• v.46 no.2
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• pp.71-78
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• 2019

The objective of this study was to use 'Danta PR', NGS (Next Generation Sequencing) technology for genome resequencing to develop polymorphic makers between Chinese oriental melon, 'Hyangseo 1' and Korean oriental melon. From the resequencing data that covered about 81 times of the genome size, 104,357 of SSR motifs and Indel, and 1,092,436 of SNPs were identified. 299 SSR and 307 Indel markers were chosen to cover each chromosome with 25 markers. These markers were subsequently used to identify genotypes of 'Danta PR' BC1 (F1 x 'Danta PR') population and a genetic linkage map was constructed. SSR, Indel, and SNPs identified in this study would be useful as a breeding tool to develop new oriental melon varieties.

• Proceedings of the Korea Information Processing Society Conference
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• 2013.05a
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• pp.894-897
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• 2013

서열 정렬(sequence alignment)은 유전학(genomic)에서 널리 사용되는 도구 중 하나이다. 최근에는 차세대 시퀀싱 기술(NGS)이 발달함에 따라 데이터의 생산량이 크게 증가했고, 이에 따라 높은 처리량(throughput)을 가진 서열 정렬 알고리즘의 필요성이 증가하였다. 본 논문에서 제안하는 염기 서열 정렬 알고리즘은 시퀀스(sequence)데이터를 그래프 형태로 변형시킨 다음, 마이크로소프트사의 그래프 기반인 메모리(in-memory) 분산시스템(distributed system) 트리니티(Trinity)를 이용해 서열 정렬을 수행한다. 본 논문의 알고리즘은 트리니티 시스템에서 시뮬레이션 염기 데이터를 성공적으로 정렬하였으며, 슬레이브의 개수가 늘어날수록 빠른 속도를 나타내어 확장성(scalability)을 입증했다.

• Proceedings of the Korea Information Processing Society Conference
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• 2013.11a
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• pp.1340-1342
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• 2013

최근 대량으로 발생되고 있는 유전체 정보 해석 과정 중의 하나로 유전체 내에서 유전자 기능 분석을 수행하기 위하여 본 논문에서는 C-Hunter 알고리즘을 이용하여 계통 발생 다양성을 대표하는 8종의 생물데이터를 이용하여 유전자 클러스터들을 다양한 OS에서 GUI환경으로 기능 해석을 수행 할 수 있도록 구현하였다. 본 연구를 통하여 NGS 수행 시 대량 생산되는 유전체의 유전자 기능 분석을 보다 빠르고 정확하게 다양한 환경에서 수행할 수 있을 것으로 기대한다.

• Journal of Genetic Medicine
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• v.18 no.2
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• pp.101-104
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• 2021

Xp21 contiguous gene deletion syndrome is associated with complex glycerol kinase deficiency, congenital adrenal hypoplasia, Duchene muscular dystrophy, and intellectual disability. Xp21 gene deletion syndrome is X-linked recessive, so most symptomatic patients are male, and only a few female symptomatic patients have been reported. We report the first female Korean case of an Xp21 deletion. NGS data were analyzed for copy number variation, and the Xp21 deletion (chr X: 29301056-31838200) was confirmed using real-time PCR.