• Proceedings of the Korean Statistical Society Conference
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• 2003.05a
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• pp.305-311
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• 2003

K-Means 모델을 이용하여 한우 유전자 6번의 BM4311의 중요 DNA marker을 찾기위해 여러 가지로 시도해 왔다. 이번 논문에선 QTL(Quantitative Trait Loci)과 data mining modeling를 이용하여 BM4311에서 중요 DNA marker를 찾아 보도록 하겠다.

• Proceedings of the IEEK Conference
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• 2003.07e
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• pp.1743-1746
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• 2003

C. elegans often used to study of function of gene, but it is difficult for human observation to distinguish the mutants of C. elegans. To solve this problem, the system, which can be classified automatically using the computer vision, is studying now. In the previous works , they described the auto-tracking system and the egg-laying timing modeling, which are used to automated-classily system. In this paper, we use three kinds of features, which are related to movement , size and posture of the worm, and each feature is described mathematically and normalized. In experimental result, we validated the features for the hierarchical clustering, And we used the Calinski and Harabasz's method to find the appropriate cluster number.

• Communications for Statistical Applications and Methods
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• v.13 no.1
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• pp.113-123
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• 2006

Normal mixture model(NMM) frequently used to cluster genes on microarray gene expression data. In this paper some of component means of NMM are modelled by a linear regression model so that its design matrix presents the pattern between sample classes in microarray matrix. This modelling for the component means by given design matrices certainly has an advantage that we can lead the clusters that are previously designed. However, it suffers from 'overfitting' problem because in practice genes often are highly dimensional. This problem also arises when the NMM restricted by the linear model for component-means is fitted. To cope with this problem, in this paper, the use of the factor analyzer NMM restricted by linear model is proposed to cluster genes. Also several design matrices which are useful for clustering genes are provided.

• Proceedings of the Korean Society of Precision Engineering Conference
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• 2002.10a
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• pp.612-615
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• 2002

The objective of this study is to develop an integrated process planning system which can flexibly cope with the status changes in a shop floor by utilizing the concept of Non-Linear and Closed-Loop Process Planning(NCPP). In this paper, Genetic Algorithm(GA) is employed in order to quickly generate feasible setup sequences for minimizing the makespan and tardiness under an NCPP. The genetic algorithm developed in this study for getting the machine load utilizes differentiated mutation rate and method in order to increase the chance to avoid a local optimum and to reach a global optimum. Also, it adopts a double gene structure for the sake of convenient modeling of the shop floor. The last step in this system is a simulation process which selects a proper process plan among alternative process plans.

• Journal of Korean Institute of Industrial Engineers
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• v.24 no.4
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• pp.551-558
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• 1998

In this paper, a job shop scheduling system is developed which can cope with the changes of shop floor status with flexibility. This system suggests near optimal sequence of operations by using Genetic Algorithm which considers alternative process plans. The Genetic Algorithm proposed in this paper has some characteristics. The mutation rate is differentiated in order to enhance the chance to escape a local optimum and to assure the global optimum. And it employs the double gene structure to easily make the modeling of the shop floor. Finally, the quality of its solution and the computational time are examined in comparison with the method of a Simulated Annealing.

• Proceedings of the Korea Inteligent Information System Society Conference
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• 2005.11a
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• pp.258-263
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• 2005

Haplotype-based analysis using high-density SNP markers have gained a great attention in evaluating genes in gene analysis and various clinical situations. However, there has been no research on disease diagnostic modeling based on SNPs analysis to our knowledge. The purpose of this study is to explore how knowledge discovery techniques are applied in medical informatics area and proposes a Case Based Reasoning (CBR) technique for diagnosis of gastric caner using Single Nucleotide Polymorphism(SNP).

• Molecules and Cells
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• v.23 no.2
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• pp.228-238
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• 2007

Since molecular structure of hnRNP is not available in foreseeable future, it is best to construct a working model for hnRNP structure. A geometric problem, assembly of $700{\pm}20$ nucleotides with 48 proteins, is visualized by a frame work in which all the proteins participate in primary binding, followed by secondary, tertiary and quaternary binding with neighboring proteins without additional import. Thus, 40S hnRNP contains crown-like secondary structure (48 stemloops) and appearance of 6 petal (octamers) rose-like architectures. The proteins are wrapped by RNA. Co-transcriptional folding for RNP fibril of FMR1 gene can produce 2,571 stem-loops with frequency of 1 stem-loop/15.3 nucleotides and 53 40S hnRNP beaded structure. By spliceosome driven reactions, there occurs removal of 16 separate lariated RNPs, joining 17 separate beaded exonic structures and anchoring EJC on each exon junction. Skipping exon 12 has 5'GU, 3'AG and very compact folding pattern with frequency of 1 stem-loop per 12 nucleotides in short exon length (63 nucleotides). 5' end of exon 12 contains SS (Splicing Silencer) element of UAGGU. In exons 10, 15 and 17 where both regular and alternative splice sites exist, SS (hnRNP A1 binding site) is observed at the regular splicing site. End products are mature FMR-1 mRNP, 4 species of Pri-microRNAs derived from introns 7,9,15 and 3'UTR of exon17, respectively. There may also be some other regulatory RNAs containing ALU/Line elements as well.

• Particle and aerosol research
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• v.12 no.1
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• pp.1-9
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• 2016

In this work, we evaluated the characteristics of flow field and uniformity of the nose-only exposure chambers for the inhalation toxicity test. Computational fluid dynamics (CFD) modeling was carried out to demonstrate uniformity of the nose-only exposure chambers. Because it is very important in the inhalation toxicity experiments that test materials are distributed uniformly to each holder of the chamber. The test was done with these 3 types of chamber with different form to develop inhalation toxicity evaluation system, easy-to-operate system among exposure chamber used for evaluating inhalation toxicity of environmental chemical mixtures. Through CFD interpretation, nose-only exposure chamber was made with the selection of the optimal conditions. For its evaluation, one type of fragrance was selected and measured particle size distribution of each port. The gene becoming luminous to green fluorescence was combined with GPT-SPE, a type of tGFP vector, to be inhaled to the mouse. Based on this, luminous intensity was checked. As a result, total particle number concentration of each port had average value of $3.17{\times}10^6{\sharp}/cm^3$ and range of the highest and lowest concentration value was approximately ${\pm}4.8%$. Autopsy of lung tissues of mouse showed that it had clearly better delivery of gene compared to the control group.

• Genomics & Informatics
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• v.3 no.4
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• pp.142-148
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• 2005

The immune response-related genes have been suggested to be the most favorable genes for positive selection during evolution. Comparing the entire DNA sequence of chimpanzee chromosome 22 (PTR22) with human chromosome 21 (HSA21), we have identified 15 orthologs having indel in their coding sequences. Among them, interferon-${\alpha}$ receptor-1 gene (IFNAR1), an immuneresponse-related gene, is subjected to comparative genomic analysis. Chimpanzee IFNAR1 showed the same genomic structure as human IFNAR1 (11 exons and 10 introns) except the 3 bp insertion in exon 4. The sequence alignment of IFNAR1 coding sequence indicated that 'ISPP' amino acid sequence motif is highly conserved in chimpanzee and other animals including mouse and chicken. However, the human IFNAR1 shows that one proline residue is missing in the sequence motif. The homology modeling of the IFNAR1 structures suggests that the proline deletion in human IFNAR1 leads to the formation of the following ${\alpha}$-helix, whereas two sequential prolines in chimpanzee IFNAR1 inhibit it. As a result, human IFNAR1 may adopt a characteristic structure distinct from chimpanzee IFNAR1. This human specific trait could contribute to specific immune response in the most optimized manner for humans. Further molecular biological studies on the IFNAR1 will help us to gain insights into the molecular implication of species-specific host-pathogen interaction in primate evolution.

• Journal of Ginseng Research
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• v.39 no.4
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• pp.406-413
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• 2015

Background: Pathogenesis-related 10 (PR-10) proteins are small, cytosolic proteins with a similar three-dimensional structure. Crystal structures for several PR-10 homologs have similar overall folding patterns, with an unusually large internal cavity that is a binding site for biologically important molecules. Although structural information on PR-10 proteins is substantial, understanding of their biological function remains limited. Here, we showed that one of the PgPR-10 homologs, PgPR-10.3, shares binding properties with flavonoids, kinetin, emodin, deoxycholic acid, and ginsenoside Re (1 of the steroid glycosides). Methods: Gene expression patterns of PgPR-10.3 were analyzed by quantitative real-time PCR. The three-dimensional structure of PgPR-10 proteins was visualized by homology modeling, and docking to retrieve biologically active molecules was performed using AutoDock4 program. Results: Transcript levels of PgPR-10.3 expressed in leaves, stems, and roots of 3-wk-old ginseng plantlets were on average 86-fold lower than those of PgPR-10.2. In mature 2-yr-old ginseng plants, the mRNA of PgPR-10.3 is restricted to leaves. Ginsenoside Re production is especially prominent in leaves of Panax ginseng Meyer, and the binding property of PgPR-10.3 with ginsenoside Re suggests that this protein has an important role in the control of secondary metabolism. Conclusion: Although ginseng PR-10.3 gene is expressed in all organs of 3-wk-old plantlets, its expression is restricted to leaves in mature 2-yr-old ginseng plants. The putative binding property of PgPR-10.3 with Re is intriguing. Further verification of binding affinity with other biologically important molecules in the large hydrophobic cavity of PgPR-10.3 may provide an insight into the biological features of PR-10 proteins.