• Journal of Gastric Cancer
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• 제22권4호
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• pp.348-368
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• 2022

Purpose: Chromosomal instability is a hallmark of gastric cancer (GC). It can be driven by single nucleotide variants (SNVs) in cell cycle genes. We investigated the associations between SNVs in candidate genes, PLK2, PLK3, and ATM, and GC risk and clinicopathological features. Materials and Methods: The genotyping study included 542 patients with GC and healthy controls. Generalized linear models were used for the risk and clinicopathological association analyses. Survival analysis was performed using the Kaplan-Meier method. The binding of candidate miRs was analyzed using a luciferase reporter assay. Results: The PLK2 C_rs15009-C_rs963615 haplotype was under-represented in the GC group compared to that in the control group (P_corr=0.050). Male patients with the PLK2 rs963615 CT genotype had a lower risk of GC, whereas female patients had a higher risk (P=0.023; P=0.026). The PLK2 rs963615 CT genotype was associated with the absence of vascular invasion (P=0.012). The PLK3 rs12404160 AA genotype was associated with a higher risk of GC in the male population (P=0.015). The ATM T_rs228589-A_rs189037-G_rs4585 haplotype was associated with a higher risk of GC (P<0.001). The ATM rs228589, rs189037, and rs4585 genotypes TA+AA, AG+GG, and TG+GG were associated with the absence of perineural invasion (P=0.034). In vitro analysis showed that the cancer-associated miR-23b-5p mimic specifically bound to the PLK2 rs15009 G allele (P=0.0097). Moreover, low miR-23b expression predicted longer 10-year survival (P=0.0066) in patients with GC. Conclusions: PLK2, PLK3, and ATM SNVs could potentially be helpful for the prediction of GC risk and clinicopathological features. PLK2 rs15009 affects the binding of miR-23b-5p. MiR-23b-5p expression status could serve as a prognostic marker for survival in patients with GC.

• 사물인터넷융복합논문지
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• 제4권2호
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• pp.21-28
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• 2018

본 연구에서는 ALK receptor tyrosine kinase (ALK) 유전자의 단일염기다형성이 뇌출혈의 발병에 관여하는 지를 연구하였다. 156명의 뇌출혈 환자와 425명의 정상인를 모집하였으며 네 개의 단일염기다형성에 대하여 상관성을 살펴보았다. 통계분석에서는 SNPstats, SPSS22.0, Haploview 프로그램을 활용하였다. Odd ratio, 95% 신뢰구간에서는 genotype 모델 및 allele 모델에서 계산하였다. 통계분석결과, rs1881421, rs1881420, rs3795850, rs2246745 의 단일염기다형성이 뇌출혈과 관련하여 유의성을 보였다. (rs1881421, OR=2.02, 95% CI=1.54-2.64, p<0.001; rs1881420, OR=0.53, 95% CI=1.16-2.01, p=0.003; rs3795850, OR=1.54, 95% CI=1.17-2.02, p=0.002; rs2246745, OR=1.95, 95% CI=1.46-2.60, p<0.001 in each allele analysis). CC, GT, and GC haplotypes 빈도 역시 유의성을 보였다. 네 개의 단일염기다형성의 minor allele 가 뇌출혈의 발병을 증가시키는데 기여하였다. 이러한 연구 결과는 ALK 유전자가 뇌출혈의 위험성과 관련 있음을 시사한다.

• Genomics & Informatics
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• 제7권2호
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• pp.57-64
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• 2009

Fibrinogen alpha chain (FGA), a subunit of fibrinogen, might be a potential player for type 2 diabetes mellitus (T2DM), since the plasma levels of fibrinogen is known to be related to the incidence of T2DM. To elucidate the potential role of FGA in T2DM, we investigated whether FGA genetic variations are relevant in T2DM in the Korean population. Seven FGA single nucleotide polymorphisms (SNPs) were genotyped in Ansung and Ansan cohorts (474 T2DM subjects and 470 normal controls) in Korea. The association between SNPs and T2DM was determined by logistic regression analysis. Genetic relevance of SNPs to T2DM-related phenotypes was investigated by multiple linear regression analysis. Statistical analysis revealed that among seven FGA SNPs, significant associations with T2DM were observed in FGA rs2070011 (p=0.013-0.034, OR=0.72${\sim}$0.79), rs6050 (p=0.026${\sim}$0.048, OR=1.24${\sim}$1.37), and rs2070022 (p=0.016${\sim}$0.039, OR=0.70${\sim}$0.72). Two SNPs, rs2070011 and rs6050, also showed significant association with T2DM-related phenotypes such as triglyceride (p=0.005${\sim}$0.011 for rs2070011 and p=0.003${\sim}$0.008 for rs6050), total cholesterol (p=0.01 for rs2070011 and p=0.024 for rs6050) and fasting glucose (p=0.035${\sim}$0.036 for rs2070011 and p=0.048 for rs6050) in 470 normal controls. Our association study implies that FGA might be an important genetic factor in T2DM pathogenesis in the Korean population by affecting plasma lipid and glucose levels.

• 한국토양비료학회지
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• 제36권1호
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• pp.41-49
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• 2003

물관리와 유기물 시용이 다른 논에서 메탄 배출을 측정하였다. 벼 식물체를 통해 배출되는 메탄을 측정하기 위하여 벼를 심은 chamber와 심지 않은 chamber를 반복으로 포장에 설치하였다. 기체시료는 벼 재배기간중 주 1회 채취하였다. 상시담수에서는 벼를 심은 NPK구, NPK(+P),는 $0.174g\;CH_4\;m^{-2}\;d^{-1}$의 배출을 보였으나 심지 않은 NPK구, NPK(-P),는 $0.046g\;CH_4\;m^{-2}\;d^{-1}$의 배출을 보였다. 벼를 심은 볏짚퇴비 시응구, RSC(+P), 는 $0.214g\;CH_4\;m^{-2}\;d^{-1}$의 배출을 보였으나 심지 않은 볏짚퇴비 시용구, RSC(-P),는 $0.076g\;CH_4\;m^{-2}\;d^{-1}$의 배출을 보였다. 볏짚을 2월에 시용하고 벼를 심은 시험구, RS2(+P), 는 $0.328g\;CH_4\;m^{-2}\;d^{-1}$의 배출을 보였으나 볏짚을 2월에 시용하고 벼를 심지 않은 시험구, RS2(-P),는 $0.1g\;CH_4\;m^{-2}\;d^{-1}$의 배출을보였다. 볏짚을 5월에 시용하고 벼를 심은 시험구, RS5(+P). 는 $0.414g\;CH_4\;m^{-2}\;d^{-1}$의 배출을 보였으나 볏짚을 2월에 시용하고 벼를 심지 않은 시험구, RS5(-P),는 $0.187g\;CH_4\;m^{-2}\;d^{-1}$의 배출을 보였다. 간단관개에서는 NPK(+P)는 $0.115g\;CH_4\;m^{-2}\;d^{-1}$의 배출을 보였으나 NPK(-P)는 $0.041g\;CH_4\;m^{-2}\;d^{-1}$의 배출을 보였다. RSC(+P)는 $0.137g\;CH_4\;m^{-2}\;d^{-1}$의 배출을 보였으나 RSC(-P)는 $0.06g\;CH_4\;m^{-2}\;d^{-1}$의 배출을 보였다. RS2(+P) 는 $0.204g\;CH_4\;m^{-2}\;d^{-1}$의 배출을 보였으나 RS2(-P)는 $0.09g\;CH_4\;m^{-2}\;d^{-1}$의 배출을 보였다. RS2(+P)는 $0.273g\;CH_4\;m^{-2}\;d^{-1}$의 배출을 보였으나 RS5(-P)는 $0.13g\;CH_4\;m^{-2}\;d^{-1}$의 배출을 보였다. 상시담수 처리에서 벼 식물체를 통한 메탄 수송은 NPK구, RSC구 (볏짚퇴비를 5월에 시용한 구), RS2구(볏짚을 2월에 시응한 구)와 RS5구 (볏짚을 5월에 시용한 구)에서 각기 73.6 %, 64.5%, 69.5%, 54.8%였었고 평균 65.6%였었다. 간단관개처리에서 벼 식물체를 통한 메탄 수송은 NPK구, RSC구, RS2구와 RS5구에서 각각 64.3, 59.2, 55.9, 52.4였다.

• Bulletin of the Korean Chemical Society
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• 제35권8호
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• pp.2311-2316
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• 2014

Conformations and vibrational frequencies of the racemic (2RS,3RS)-5-amino-3-(4-phenylpiperazin-1-yl)-1,2,3,4-tetrahydronaphthalen-2-ol-(I) [(2RS,3RS)-(I)], a precursor of benzovesamicol analogues, have been carried out using various DFT methods (M06-2X, B3LYP, B3PW91, PBEPBE, LSDA, and B3P86) with basis sets of 6-31G(d), 6-31+G(d,p), 6-311+G(d,p), 6-311++G(d,p), cc-pVTZ, and TZVP. The LSDA/6-31G(d) level of theory shows the best performance in reproducing the X-ray powder structure. However, the PBEPBE/cc-pVTZ level of theory is the best method to predict the vibrational frequencies of (2RS,3RS)-(I). The potential energy surfaces of racemic pairs (2RS,3RS)-(I) and -(II) are obtained at the LSDA/6-31G(d) level of theory in the gas phase and in water. The results indicate that (2RS,3RS)-(I) are more stable by ~0.75 kcal/mol in energy than (2RS,3RS)-(II) in water, whereas conformer AIIg and BIIg are more stable by ~0.04 kcal/mol than AIg in gas phase. In particular, the hydrogen bond distances between the N of piperazine and the OH of tetrahydronaphthalen become longer in gas, compared with those in the water phase. Vibrational frequencies calculated at the PBEPBE/cc-pVTZ level of theory in the gas phase are larger than those in water, whereas their intensities in the gas phase are weaker than those in water.

• 한국식품저장유통학회지
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• 제19권2호
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• pp.216-222
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• 2012

옥수수 전분의 인산화 가교반응에 의한 RS4 제조 시 최적 annealing 조건을 검토하였다. 전분유에 NaOH를 0.9%, 1.2%, 1.5%/st.ds의 농도가 되게 첨가하고 복합인산염(STMP/STPP 혼합)을 이용하여 인산화 가교반응 할 경우 NaOH 농도가 높을수록 반응 초기에 RS 함량이 빠르게 증가되었으나 NaOH 농도에 상관없이 반응 12시간 후에는 비슷한 RS 함량을 나타내었다. 전분유의 Annealing 처리는 인산화 가교반응 전에 실시하였다. 전분유를 pH 2-10, 온도 $40-60^{\circ}C$, 0-14시간으로 처리한 후 인산화 가교반응을 하였다. Annealing 처리시 pH가 낮을수록 RS 함량이 높아지는 결과를 보였으며 pH 2에서 annealing 온도 $50^{\circ}C$, 2시간 annealing에서 최고의 RS 함량을 나타내었다. 따라서 최적 인산화 가교반응 조건은 먼저 pH 2.0, $50^{\circ}C$에서 2시간 annealing 처리를 한 후 황산나트륨 농도 10%/st.ds, NaOH 농도 1.2%/st.ds 조건에서 12시간 인산화 가교반응을 행하는 것으로 생각된다. RS 함량은 인산염 투입량이 증가함에 따라 직선적으로 증가하였다. 본 연구결과에 의한 최적조건을 활용하여 복합인산염 10%/st.ds의 농도로 RS4를 제조한 결과 RS 함량은 72.3% 였으며 인의 함량은 0.36%/st.ds로 한국 식품첨가물 공전에 적합하여 식품용 소재로 활용이 가능할 것으로 사료된다.

• Journal of Korean Neurosurgical Society
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• 제52권1호
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• pp.7-13
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• 2012

Objective : The aim of this study was to determine whether single nucleotide polymorphisms (SNPs) of fibroblast growth factor (FGF) 2 gene and fibroblast growth factor receptor (FGFR) genes are associated with ossification of the posterior longitudinal ligament (OPLL). Methods : A total of 157 patients with OPLL and 222 controls were recruited for a case control association study investigating the relationship between SNPs of FGF2, FGFR1, FGFR2 and OPLL. To identify the association among polymorphisms of FGF2 gene, FGFR1, FGFR2 genes and OPLL, the authors genotyped 9 SNPs of the genes (FGF2 : rs1476217, rs308395, rs308397, and rs3747676; FGFR1 : rs13317 and rs2467531; FGFR2 : rs755793, rs1047100, and rs3135831) using direct sequencing method. SNPs data were analyzed using the SNPStats, SNPAnalyzer, Haploview, and Helixtree programs. Results : Of the SNPs, a SNP (rs13317) in FGFR1 was significantly associated with the susceptibility of OPLL in the codominant (odds ratio=1.35, 95% confidence interval=1.01-1.81, p=0.048) and recessive model (odds ratio=2.00, 95% confidence interval=1.11-3.59, p=0.020). The analysis adjusted for associated condition showed that the SNP of rs1476217 (p=0.03), rs3747676 (p=0.01) polymorphisms in the FGF2 were associated with diffuse idiopathic skeletal hyperostosis (DISH) and rs1476217 (p=0.01) in the FGF2 was associated with ossification of the ligament flavum (OLF). Conclusion : The results of the present study revealed that an FGFR1 SNP was significantly associated with OPLL and that a SNP in FGF2 was associated with conditions that were comorbid with OPLL (DISH and OLF).

• Journal of Microbiology and Biotechnology
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• 제29권12호
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• pp.1904-1915
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• 2019

Resistant starch (RS) is metabolized by gut microbiota and involved in the production of short-chain fatty acids, which are related to a variety of physiological and health effects. Therefore, the availability of RS as a prebiotic is a topic of interest, and research on gut bacteria that can decompose RS is also important. The objectives in this study were 1) to isolate a human gut bacterium having strong degradation activity on non-gelatinized RS, 2) to characterize its RS-degrading characteristics, and 3) to investigate its probiotic effects, including a growth stimulation effect on other gut bacteria and an immunomodulatory effect. Bifidobacterium adolescentis P2P3 showing very strong RS granule utilization activity was isolated. It can attach to RS granules and form them into clusters. It also utilizes high-amylose corn starch granules up to 63.3%, and efficiently decomposes other various types of commercial RS without gelatinization. In a coculture experiment, Bacteroides thetaiotaomicron ATCC 29148, isolated from human feces, was able to grow using carbon sources generated from RS granules by B. adolescentis P2P3. In addition, B. adolescentis P2P3 demonstrated the ability to stimulate secretion of Th1 type cytokines from mouse macrophages in vitro that was not shown in other B. adolescentis. These results suggested that B. adolescentis P2P3 is a useful probiotic candidate, having immunomodulatory activity as well as the ability to feed other gut bacteria using RS as a prebiotic.

• Annals of Laboratory Medicine
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• 제38권6호
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• pp.591-598
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• 2018

Background: Forkhead box P3 (FOXP3) is an important marker of regulatory T cells. FOXP3 polymorphisms are associated with autoimmune diseases, cancers, and allograft outcomes. We examined whether single nucleotide polymorphisms (SNPs) at the FOXP3 locus are associated with clinical outcomes after allogenic hematopoietic stem cell transplantation (HSCT). Methods: Five FOXP3 SNPs (rs5902434, rs3761549, rs3761548, rs2232365, and rs2280883) were analyzed by PCR-sequencing of 172 DNA samples from allogenic HSCT patients. We examined the relationship between each SNP and the occurrence of graft-versus-host disease (GVHD), post-HSCT infection, relapse, and patient survival. Results: Patients with acute GVHD (grades II-IV) showed higher frequencies of the rs3761549 T/T genotype, rs5902434 ATT/ATT genotype, and rs2232365 G/G genotype than did patients without acute GVHD (P =0.017, odds ratio [OR]=5.3; P =0.031, OR=2.4; and P =0.023, OR=2.6, respectively). Multivariate analysis showed that the TT genotype of rs3761549 was an independent risk factor for occurrence of acute GVHD (P =0.032, hazard ratio=5.6). In contrast, the genotype frequencies of rs3761549 T/T, rs5902434 ATT/ATT, and rs2232365 G/G were lower in patients with post-HSCT infection than in patients without infection (P =0.026, P =0.046, and P =0.031, respectively). Conclusions: rs3761549, rs5902434, and rs2232365 are associated with an increased risk of acute GVHD and decreased risk of post-HSCT infection.

• 한국미생물·생명공학회지
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• 제47권4호
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• pp.667-672
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• 2019

본 연구는 출아효모 Saccharomyces cerevisiae을 이용해 이종 유전자(heterologous gene)를 효모염색체내에 도입하여 안정적으로 발현하기 위한 시스템의 비교에 대해서 연구하였다. 반복적으로 사용할 수 있는 Cre/loxP system의 이용을 위해 C. glabrata 유래 유전자를 선택마커로 사용하였고, universal pRS-CMT vector를 이용한 4종의 유전자(XYLP, XYLB, GRE3 및 XYL2 유전자)를 모델 유전자로 cloning하였다. 구축된 pRS-XylP, pRS-XylB, pRS-Gre3 및 pRS-Xyl2 plasmid를 이용한 4번의 sequential integration을 통해 효모염색체내에 도입된 4종의 유전자를 순차적으로 발현시킬 수 있었다. 또한 4종의 유전자 발현 cassette를 동시에 가지는 pRS-PBG2 plasmid에 의한 one-step integration을 통해서, 도입될 유전자들의 순서를 정할 수 있었으며 각 유전자들의 동시발현을 안정적으로 유지할 수 있었다. 결론적으로 본 연구에서 사용한 4종의 유전자들의 염색체내 동시 integration 및 발현을 위해서는 one-step integration이 효과적임을 확인하였으며, 적절한 유전자 도입방법을 통해 산업적으로 유용한 생물시스템의 손쉬운 육종이 가능하리라 기대한다.