• Asian Pacific Journal of Cancer Prevention
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• 제16권5호
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• pp.1821-1825
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• 2015

Background: Associations between the NQO1 C609T polymorphism and hepatocellular carcinoma (HCC) risk are a subject of debate. We therefore performed the present meta-analysis to evaluate links with HCC susceptibility. Materials and Methods: Several major databases (PubMed, EBSCO), the Chinese national knowledge infrastructure (CNKI) and the Wanfang database were searched for eligible studies. Crude odds ratios (ORs) with 95% confidence intervals (CIs) were used to measure the strength of associations. Results: A total of 4 studies including 1,325 patients and 1,367 controls were identified. There was a significant association between NQO1 C609T polymorphism and HCC for all genetic models (allelic model: OR=1.45, 95%CI=1.23-1.72, p<0.01; additive model: OR=1.96, 95%CI=1.57-2.43, p<0.01; dominant model: OR=1.62, 95%CI=1.38-1.91, p<0.01; and recessive model: OR=1.53, 95%CI=1.26-1.84, p<0.01). On subgroup analysis, similarly results were identified in Asians. For Asians, the combined ORs and 95% CIs were (allelic model: OR=1.50, 95%CI=1.24-1.82, p<0.01; additive model: OR=2.11, 95%CI=1.48-3.01, p<0.01; dominant model: OR=1.69, 95%CI=1.42-2.02, p<0.01; and recessive model: OR=1.59, 95%CI=1.16-2.19, p<0.01). Conclusions: The current meta-analysis suggested that the NQO1 C609T polymorphism could be a risk factor for developing HCC, particularly in the Chinese population.

• Asian Pacific Journal of Cancer Prevention
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• 제17권5호
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• pp.2499-2506
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• 2016

Background: Gastric cancer (GC) is the second leading cause of cancer-related death worldwide. Several environmental, genetic and epigenetic factors have been suggested to have a role in GC development. Epigenetic mechanisms like histone changes and promoter hyper-methylation are now being increasingly studied. Associations between methylation of many gene promoters with the risk of gastric cancer have been investigated worldwide. Such aberrant methylation may result in silencing of specific genes related to cell cycling, cell adhesion, apoptosis and DNA repair. Thus this molecular mechanism might have a key role in proliferation and migration of cancerous cells. Materials and Methods: In this review article we included studies conducted on DNA methylation and gastric cancer in Iranian populations. Using Science direct, Pubmed/PMC, Springer, Wiley online library and SciELO databases, all published data until 31 January 2016 were gathered. We also searched Science direct data base for similar investigations around the world to make a comparison between Iran and other countries. Results: By searching these databases, we found that the association between methylation of seven gene promoters and gastric cancer had been studied in Iran until 31 January 2016. These genes were p16, hLMH1, E-cadherin, CTLA4, $THR{\beta}$, mir9 and APC. Searching in science direct database also showed that 92 articles had been published around the world till January 2016. Our investigation revealed that despite the importance of GC and its high prevalence in Iran, the methylation status of only a few gene promoters has been studied so far. More studies with higher sample numbers are needed to reveal the relation of methylation status of gene promoters to gastric cancer in Iran. Conclusions: Further studies will be helpful in identifying associations of DNA methylation in candidate genes with gastric cancer risk in Iranian populations.

• Asian-Australasian Journal of Animal Sciences
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• 제24권7호
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• pp.1019-1025
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• 2011

Toll-like receptors (TLRs) play an important role in the recognition of invading pathogens and the modulation of innate immune responses in mammals. The TLR4 and TLR7 are well known to recognize the bacterial lipopolysaccharide (LPS) and single stranded (ssRNA) ligands, respectively and play important role in host defense against Gram-negative bacteria and ssRNA viruses. In the present study, coding exon fragments of these two TLRs were identified, cloned, sequenced and analyzed in terms of insertion-deletion polymorphism, within bovine TLRs 4 and 7, thereby facilitating future TLR signaling and association studies relevant to bovine innate immunity. Comparative sequence analysis of TLR 4 exons revealed that this gene is more variable, particularly the coding frame (E3P1), while other parts showed percent identity of 95.7% to 100% at nucleotide and amino acid level, respectivley with other Bos indicus and Bos taurus breeds from different parts of the world. In comparison to TLR4, sequence analysis of TLR7 showed more conservation among different B. indicus and B. taurus breeds, except single point mutation at 324 nucleotide position (AAA to AAM) altering a single amino acid at 108 position (K to X). Percent identity of TLR7 sequences (all 3 exons) was between 99.2% to 100% at nucleotide and amino acid level, when compared with available sequence database of B. indicus and B. taurus. Simple Modular Architecture Research Tool (SMART) analysis showed variations in the exon fragments located in the Leucine Rich Repeat (LRR) region, which is responsible for binding with the microbial associated molecular patterns and further, downstream signaling to initiate anti-microbial response. Considering importance of TLR polymorphism in terms of innate immunity, further research is warranted.

• BMB Reports
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• 제43권8호
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• pp.547-553
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• 2010

Biochemical tests such as aspartate aminotransferase (AST) and alanine aminotransferase (ALT) are useful for diagnosing patients with liver disease. In this study, we tested the association between copy number variation and the hepatic biomarkers AST and ALT based on 8,842 samples from population-based cohorts in Korea. We used Affymetrix Genome-Wide Human 5.0 arrays and identified 10,534 CNVs using HelixTree software. Of the CNVs tested using univariate linear regression, 100 CNVs were significant for AST and 16 were significant for ALT (P < 0.05). We identified 39 genes located within the CNV regions. DKK1 and HS3ST3B1 were shown to play roles in heparan sulfate biosynthesis and the Wnt signaling pathway, respectively. NAF1 and NPY1R were associated with glycoprotein processes and neuropeptide Y receptor activity based on GO categories. PTER, SOX14 and TM7SF4 were expressed in liver. DPYS and CTSC were found to be associated with dihydropyrimidinuria and Papillon-Lefevre syndrome phenotypes using OMIM. NPY5R was found to be associated with dyslipidemia using the Genetic Association Database.

• 한국콘텐츠학회논문지
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• 제7권9호
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• pp.176-182
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• 2007

천연기념물은 자연의 산물이며 인류가 보호해야 할 유산이다. 천연기념물 중 동물과 식물은 생명을 가지고 있기 때문에 하나의 개체는 반드시 소멸한다. 천연기념물인 보은 속리산의 정이품송은 유일하다. 현재 정이품송은 자연재해와 병충해로 인해 곤란을 겪고 있으며 수령이 600년 이상이 되어 고사의 위기에 처해있다. 본 연구의 목적은 국가적으로 유지하여야 하는 희귀식물의 혈통을 보존하고 매력 있는 식물자원의 상품, 지역주민의 대량증식에 의한 소득창출 등을 할 수 있는 대상으로서 천연기념물인 정이품송의 관광자원화 방안을 모색하고자 하는 것이다. 연구의 목적을 달성하기 위한 방안으로서 식물유전자분석기술을 활용한 정이품송 혈통인증, 순종보존과 스토리텔링과 접목한 족보관리시스템 운용, 생산 판매 소유자 간 커뮤니티 제공과 데이터베이스 구축, 문화관광이벤트의 개최, 정이품송의 가치 보존과 브랜드화 등을 제시하였다.

• 한국콘텐츠학회논문지
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• 제9권10호
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• pp.67-74
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• 2009

최근 전자태그(Radio Frequency Identification: RFID) 기술의 비약적 발전과 함께 RFID에 대한 관심이 증가하고 있다. RFID는 다양한 응용 분야에서 널리 활용되고 있으며, 응용 분야에 따라 다수의 리더기를 공간에 배치하게 된다. 이때, 만약 리더기가 잘못 배치되면 리더기간의 간섭이 발생하고, 이로 인해 RFID 인식율이 저하되는 문제가 발생하기도 한다. 따라서, 비용적인 측면이나 시스템 성능적인 측면에서 리더기의 배치는 중요한 문제이다. 본 논문에서는 임의의 도면이 주어졌을 때, 전 영역을 커버할 수 있는 최소 개수의 리더기 배치를 위한 RFID 센서 네트워크 설계 시스템을 제안한다.

• 한국콘텐츠학회:학술대회논문집
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• 한국콘텐츠학회 2009년도 춘계 종합학술대회 논문집
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• pp.715-719
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• 2009

RFID 기술를 이용한 다양한 응용분야에서 잘못된 RFID 리더기의 배치로 인해 리더기간의 간섭이 발생한다. 리더기 간의 간섭은 어떤 리더기가 다른 리더기의 동작에 간섭을 일으키는 신호를 송신하여 태그를 인식하는 것을 방해할 때 발생한다. RFID 시스템에서 리더기의 충돌 문제는 시스템 처리량과 인식의 효율성의 병목현상을 발생 시킨다. 본 논문에서는 RIFD 안테나 배치의 적합도를 높이기 위해서 진화 연산 기법을 이용한 새로운 RFID 리더기 배치 설계 시스템을 제안한다. 먼저, 주위 환경에 민감한 안테나의 전파 특성을 분석하고, 특성 데이터베이스를 구축한다. 그리고, 안테나를 최적으로 배치하기 위한 EA Encoding 기법과 Fitness 기법 및 유전잔 연산자를 제안한다. 제안하는 기법의 우수성을 보이기 위해서 시뮬레이션을 수행하였으며, 실험 결과, 약 100세대의 진화 연산을 통해 커버율 95.45%, 간섭율 10.29%의 RFID 안테나 배치의 적합도를 달성하였다.

• 한국정보과학회논문지:데이타베이스
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• 제28권3호
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• pp.279-300
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• 2001

지식탐사 프로세스의 핵심적인 역할을 담당하는 데이터마이닝 단계에서는 여러 가지 목적에 따라 알고리즘을 선택하여 사용한다. 최근 통계, 비즈니스, 전자 상거래, 의학, 생물학 등의 분야에서 데이터마이닝 기술아 적극적으로 활용되고 있으며, 이를 위해 다양한 알고리즘들이 계속해서 연구.개발되고 있다. 그러나 시간이 지나면 이들 중 각 분야 별로 우수한 응용성을 보이는 알고리즘이나 방대한 양의 데이터를 다루는데 있어 좋은 성능을 보이는 몇몇 알고리즘만이 남게 될 것이며 또한 앞으로는 이러한 알고리즘들만을 선별하여 집중 연구할 필요가 있다. 따라서 본 논문에서는 데이터마이닝에 널리 사용되고 활발한 연구가 진행중인 알고리즘들 중에서 연관규칙(association rule), 클러스터링(clustering), 신경망(neural network), 결정트리(decision tree), 유전자 알고리즘(genetic algorithm), 베이지안 네트워크(bayesian network), 메모리 기반 추론(memory-based reasoning)등 7가지 카테고리에 속하는 알고리즘들을 선정하여 분류.분석하였다. 우선 각 알고리즘의 계통과 특성들을 분석하였고 이를 토대로 비교.분석을 위한 14가지의 분류 기준을 제시하였다. 이러한 분류 기준에 근거하여 세부 알고리즘들을 분석해 보고 비교 가능한 일부 알고리즘은 여러 특징과 성능을 중심으로 각각 최상의 알고리즘을 도출해 보았다. 본 연구 결과는 데이터마이닝 분야의 흔재된 알고리즘들을 분류.분석함으로써 마이닝 기술 적용시 사용자에게 알고리즘 선택의 지표를 제시할 수 있을 것이다.

• Asian-Australasian Journal of Animal Sciences
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• 제28권10호
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• pp.1496-1511
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• 2015

The study aimed to compare the necrotic enteritis (NE)-induced transcriptome differences between the spleens of Marek's disease resistant chicken line 6.3 and susceptible line 7.2 co-infected with Eimeria maxima/Clostridium perfringens using RNA-Seq. Total RNA from the spleens of two chicken lines were used to make libraries, generating 42,736,296 and 42,617,720 usable reads, which were assembled into groups of 29,897 and 29,833 mRNA genes, respectively. The transcriptome changes were investigated using the differentially expressed genes (DEGs) package, which indicated 3,255, 2,468 and 2,234 DEGs of line 6.3, line 7.2, and comparison between two lines, respectively (fold change ${\geq}2$, p<0.01). The transcription levels of 14 genes identified were further examined using qRT-PCR. The results of qRT-PCR were consistent with the RNA-seq data. All of the DEGs were analysed using gene ontology terms, the Kyoto Encyclopedia of Genes and Genomes (KEGG) database and the DEGs in each term were found to be more highly expressed in line 6.3 than in line 7.2. RNA-seq analysis indicated 139 immune related genes, 44 CD molecular genes and 150 cytokines genes which were differentially expressed among chicken lines 6.3 and 7.2 (fold change ${\geq}2$, p<0.01). Novel mRNA analysis indicated 15,518 novel genes, for which the expression was shown to be higher in line 6.3 than in line 7.2 including some immune-related targets. These findings will help to understand host-pathogen interaction in the spleen and elucidate the mechanism of host genetic control of NE, and provide basis for future studies that can lead to the development of marker-based selection of highly disease-resistant chickens.

• Asian Pacific Journal of Cancer Prevention
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• 제13권10호
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• pp.4905-4908
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• 2012

Aim: Glioma cancer is the most common type of adult brain tumor. Recent genome-wide association studies (GWAS) have identified various new susceptibility regions and here we conducted an extensive analysis of associations between 12 single nucleotide polymorphisms (SNPs) and glioma risk. Methods: A total of 197 glioma cases and 197 health controls were selected, and 9 SNPs in 8 genes were analyzed using the Sequenom MassARRAY platform and Sequenom Assay Design 3.1 software. Results: We found the MAF among selected controls were consistent with the MAF from the NCBI SNP database. Among 9 SNPs in 8 genes, we identified four significant SNP genotypes associated with the risk of glioma, C/C genotype at rs730437 and T/T genotype at rs1468727 in ERGF were protective against glioma, whereas the T/T genotype at rs1799782 in XRCC1 and C/C genotype at rs861539 in XRCC3 conferred elevated risk. Conclusion: Our comprehensive analysis of nine SNPs in eight genes suggests that the rs730437 and rs1468727 in ERGF, rs1799782 in XRCC1 gene, and rs861539 in XRCC3 gene are associated with glioma risk. These findings indicate that genetic variants of various genes play a complex role in the development of glioma.