• The Korean Journal of Applied Statistics
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• v.16 no.2
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• pp.195-202
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• 2003

Haplotype analysis in SNP is very useful for the study of complex genetic disease due to low cost and high efficiency comparing to individual analysis of each SNP, and is functionally important in biological view. But, the gametic phase of haplotypes is usually unknown in SNP group, and it is difficult to predict haplotype proportions. In this study, haplotype proportions were estimated using EM algorithm from diploid data of SNP group in solid tumor group and normal group. From these results, linkage disequilibrium among SNPs was analyzed.

• Food Science of Animal Resources
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• v.32 no.6
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• pp.776-782
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• 2012

Marbling (intramuscular fat) is the most economically important meat quality trait in Hanwoo (Korean cattle). The endothelial differentiation G-protein coupled receptor 1 (EDG1) gene, involved in blood vessel formation, is located within the genomic region of a quantitative trait locus (QTL) for marbling on bovine chromosome 3. Thus, the EDG1 gene can be considered as a positional and functional candidate gene for meat quality in beef cattle. This study aimed to identify single nucleotide polymorphisms (SNPs) in the EDG1 gene and to evaluate their associations with carcass traits in Hanwoo population. We have sequenced a fragment of 5'-UTR of the EDG1 gene and identified one SNP. Genotyping of the g.166A>G SNP marker was carried out using PCR-RFLP analysis in 309 Hanwoo steers in order to evaluate their association with carcass traits. The g.166A>G SNP marker showed a significant effect on the marbling score. Animals with the GG genotype had higher marbling score compared with AA and AG genotypes (p<0.05). This SNP marker also showed a significant additive effects for the marbling score (p<0.05). These results suggest that the EDG1 gene can be used as a molecular marker for DNA marker-assisted selection in order to increase the levels of the marbling score in Hanwoo.

• Journal of the Korea Academia-Industrial cooperation Society
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• v.21 no.1
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• pp.240-246
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• 2020

This study was conducted to develop specific Single Nucleotide Polymorphism (SNP) markers to identify the genetic characteristics and breed of White Hanwoo (WH) using a molecular biological method. SNP genotyping was performed with an Illumina Bovine HD 777K SNP chip using DNA extracted from 48 Hanwoo and 22 WH. The minor allele frequency (MAF) difference of each SNP was calculated and the statistical significance (P-value) of the MAF difference was calculated through Fisher's Exact test (Genotype). SNPs with 100% difference in the MAF difference were selected based on marker selection criteria. The nine SNP markers with genetic differences were selected. The selected markers have different alleles as being Hanwoo- and WH- specific. Therefore, based on these results, it can be concluded that the Hanwoo and WH varieties can be clearly distinguished by using these SNPs. So, the patent of the WH breed identification markers was registered. WH is a breed that shows the characteristics of a Korean native species that is separate from the native Hanwoo. It is expected that genetic characteristics research on the WH can be used to identify the breed and as a knowledge base for enhancing the value of breeding stock.

• Korean Journal of Biological Psychiatry
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• v.13 no.4
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• pp.279-288
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• 2006

Objectives : We investigated the association of SNP A and P1763 polymorphisms on dystrobrevin binding protein 1(DTNBP1) gene with smooth pursuit eye movement(SPEM) abnormality in Korean schizophrenic patients. Methods : We measured SPEM function in 217 Korean schizophrenics(male 116, female 101) and divided them into two groups, one is a good SPEM function group and the other is a poor SPEM function group. We then analyzed SNP A polymorphism and P1763 polymorphism on DTNBP1 gene from their DNAs extracted from their blood. We compared the differences of genotype and allele distributions of the two polymorphisms on DTNBP1 gene between the two groups. Results : The Ln S/N ratio(mean${\pm}$SD) of the good SPEM function group was $4.39{\pm}0.33$ and the ratio of poor SPEM function group was $3.17{\pm}0.71$. There were no statistically significant differences of age and male/female ratio between the two groups. There were no significant differences of genotype or allele distributions of the SNP A polymorphism and P1763 polymorphism on DTNBP1 gene between the two schizophrenic groups divided by SPEM function. Conclusion : The results suggest that SNP A polymorphism and P1763 polymorphism on DTNBP1 gene might not be related to SPEM function abnormality in schizophrenia.

• Genomics & Informatics
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• v.9 no.3
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• pp.138-141
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• 2011

Here, we report a computer program written in Python, which phases SNP genotypes and infers inherited deletions based on the pattern of Mendelian inheritance within a trio pedigree. When tiered trio genotypes that encompass three generations are available, it narrows a recombination event down to a region between two consecutive heterozygous markers. In addition, the phase information that is inferred from the upper trio that is formed by one of the parents and grandparents can be propagated to phase the genotypes of the lower trio that is formed by the parents and an offspring.

• Proceedings of the Korean Institute of Electrical and Electronic Material Engineers Conference
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• 2003.11a
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• pp.224-226
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• 2003

In this paper, we succeeded SNP discrimination of DNA hybridization on microarray using new electrochemical system. Using the electrochemical method with a label-free DNA has Performed DNA chip microarray. This method is based on redox of an electrochemical ligand. We developed scanning system with high performance.

• Proceedings of the Korean Society for Bioinformatics Conference
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• 2004.11a
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• pp.279-285
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• 2004

In the disease association study, the tagSNP selection problem is important at the view of time and cost. We developed the new tagSNP selection system that has also facilities for the haplotype reconstruction and missing data processing. In our system, we improved biological meanings using LD coefficients as well as dynamic programming method. And our system has capability of processing large -scale dataset, such as the total SNPs on a chromosome. We have tested our system with various dataset from daly et al., patil et al., HapMap Project, artificial dataset, and so on.

• Biomolecules & Therapeutics
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• v.8 no.2
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• pp.113-118
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• 2000

TEA, glibenclamide, L-NAME and SKF 525A-induced reversible contraction were investigated using acetylcholine, sodium nitroprusside (SNP) and pinacidil in rat abdominal and thoracic aorta. Acetylcho-line, SNP or pinacidil produced in a dose dependent manner relaxation on phenylephrine-induced contraction In rat aorta. TEA, SKF 525A, and L-NAME produced reversible contractions on acetylcholine-induced relaxation, but not on SNP- or pinacidil-induced relaxation. Glibenclamide significantly produced reversible con- traction on pinacidll-induced relaxation. The reversible effect of TEA on the acetylcholine-induced relaxation was reduced by SKF 525A. These results indicate that the acetylcholine-induced relaxation may be mediated by NO, cytochrome P$_{450}$-dependent epoxygenase pathway, or $Ca^{2+}$ activated $K^{+}$ channel, and the pinacidil-induced relaxation may be mediated by ATP-sensitive $K^{+}$ channel.annel.

• Proceedings of the Korean Society for Emotion and Sensibility Conference
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• 2009.05a
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• pp.23-26
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• 2009

한국인 최초 전체 유전체 서열(KOREF; Koreanindividualgenomesequence) 은 한국인을 위한 참조 서열로써 사용될 수 있다. 2009년 1월에 남성 한국인 유전체를 솔렉사(Solexa)를 통해 전장서열을 결정하였다. 이는 NCBI의 인간게놈프로젝트에서 생산한 게놈의 99.83%를 커버하며, 또한 NCBI게름서열의 약 20배를 커버할 정도의 유전체 서열을 결정하여 매우 높은 정확도를 가진 한국인 고유유전체이다. 한국인 유전체 서열의 분석결과 현재까지 밝혀지지 않았던 한국인 특이적인 3백만 개의 SNP를 밝혀냈다. 먼저 보고된 중국인 게놈은 한국인 게놈과 매우 가까운 민족 그룹임에도 불구하고 38%(3,186,352 SNP중에 1,217,362 SNP) 의 특이적인 차이를 나타내었으며, 또한 미토콘드리아 서열 비교를 통해서도 특이적인 다양성을 보여주는 SNP데이터를 확인 할 수 있었다. 차세대 게놈서열결정의 기술은 적은 노력과 비용으로 인간 유전체 데이터를 얻을 수 있게 되었으며, 이러한 개인유전체 데이터는 개인유전체 의학으로 가는 초석이 될 것이다.

• Journal of the Korean Institute of Electrical and Electronic Material Engineers
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• v.17 no.4
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• pp.410-414
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• 2004

High throughput analysis using a DNA chip microarray is powerful tool in the post genome era. Less labor-intensive and lower cost-performance is required. Thus, this paper aims to develop the multi-channel type label-free DNA chip and detect SNP (Single nucleotide polymorphisms). At first, we fabricated a high integrated type DNA chip array by lithography technology. Various probe DNAs were immobilized on the microelectrode array. We succeeded to discriminate of DNA hybridization between target DNA and mismatched DNA on microarray after immobilization of a various probe DNA and hybridization of label-free target DNA on the electrodes simultaneously. This method is based on redox of an electrochemical ligand.