• Journal of Life Science
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• v.13 no.3
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• pp.280-290
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• 2003

The incorporation of RAPD markers into the previous classical and RFLP genetic linkage maps will facilitate the generation of a detailed genetic map by compensating for the lack of one type of marker in the region of interest. The objective of this paper was to present features we observed when we associated RAPD map from an intraspecific cross of a Glycine max$\times$G. max, 'Essex'$\times$PI 437654 with the public RFLP map developed from an interspecific cross of G. max$\times$G. soja. Among 27 linkage groups of RAPD map, eight linkage groups contained probe/enzyme combination RFLP markers, which allowed us the incorporation of RAPD markers into the public RFLP map. Map position rearrangement was observed. In incorporating L.G.C-3 into the public RFLP linkage group a1 and a2, both pSAC3 and pA136 region, and pA170/EcoRV and pB170/HindIII region were in opposite order, respectively. And, pk400 was localized 1.8 cM from pA96-1 and 8.4 cM from pB172 in the public RFLP map, but was localized 9.9 cM from i locus and 18.9 cM from pA85 in our study. A noticeable expansion of the map distances in the intraspecific cross of Essex and PI 437654 was also observed. Map distance between probes pA890 and pK493 in L.G.C-1 was 48.6 cM, but it was only 13.3 cM in the public RFLP map. The distances from the probe pB32-2 to pA670 and from pA670 to pA668 in L.G. C-2 were 50.9 cM and 31.7 cM, but they were 35.9 cM and 13.5 cM in the public RFLP map. The detection of duplicate loci from the same probe that were mapped on the same or/and different linkage group was another feature we observed.

• Proceedings of the Korean Institute of Information and Commucation Sciences Conference
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• 2010.10a
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• pp.663-665
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• 2010

By the curing and transformation experiment, it was found thatthe genes of Pseudomonas sp.KU171(pKU19) for MCPA-degrading were located on a plasmid pKU19. Also the plasmid had degradative gens for 2,4-D, 3CB, and DCP. Molecular size of pKU19 was measured to be 31.2Kb. The restriction pattern were analyzed with Eco RI, BglII,XhoI, and the restriction map was generated.

• BMB Reports
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• v.46 no.8
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• pp.416-421
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• 2013

Genome-wide association studies (GWAS) have become popular as an approach for the identification of large numbers of phenotype-associated variants. However, differences in genetic architecture and environmental factors mean that the effect of variants can vary across populations. Understanding population genetic diversity is valuable for the investigation of possible population specific and independent effects of variants. EvoSNP-DB aims to provide information regarding genetic diversity among East Asian populations, including Chinese, Japanese, and Korean. Non-redundant SNPs (1.6 million) were genotyped in 54 Korean trios (162 samples) and were compared with 4 million SNPs from HapMap phase II populations. EvoSNP-DB provides two user interfaces for data query and visualization, and integrates scores of genetic diversity (Fst and VarLD) at the level of SNPs, genes, and chromosome regions. EvoSNP-DB is a web-based application that allows users to navigate and visualize measurements of population genetic differences in an interactive manner, and is available online at [http://biomi.cdc.go.kr/EvoSNP/].

• Smart Media Journal
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• v.13 no.2
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• pp.129-135
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• 2024

In this paper, we propose a new approach that enhances the continuous optimization performance of the MAP-Elites algorithm. The existing self-referencing MAP-Elites algorithm employed the "DE/rand/1/bin" operator from the differential evolution algorithm, which, due to its lack of rotational invariance, led to a degradation in optimization performance when there were high correlations among variables. The proposed algorithm replaces the "DE/rand/1/bin" operator with the "DE/current-to-rand/1" operator. This operator, possessing rotational invariance, ensures robust performance even in cases where there are high correlations among variables. Experimental results confirm that the proposed algorithm performs better than the comparison algorithms.

• BMB Reports
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• v.50 no.11
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• pp.535-536
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• 2017

A novel approach has been used to identify functional interactions relevant to human disease. Using high-throughput human-yeast genetic interaction screens, a first draft of disease interactome was obtained. This was achieved by first searching for candidate human disease genes that confer toxicity in yeast, and second, identifying modulators of toxicity. This study found potentially disease-relevant interactions by analyzing the network of functional interactions and focusing on genes implicated in amyotrophic lateral sclerosis (ALS), for example. In the subsequent proof-of-concept study focused on ALS, similar functional relationships between a specific kinase and ALS-associated genes were observed in mammalian cells and zebrafish, supporting findings in human-yeast genetic interaction screens. Results of combined analyses highlighted MAP2K5 kinase as a potential therapeutic target in ALS.

• Journal of Korean Institute of Industrial Engineers
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• v.20 no.3
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• pp.15-34
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• 1994

This paper considers the genetic algorithms(GAs) for the mixed model assembly line sequencing(MMALS) in which the objective is to minimize the overall line length. To apply the GAs to the MMALS, the representation, selection, genetic sequencing operators, and genetic parameters are studied. Especially, the existing sequencing binary operators such as partially map crossover(PMX), cycle crossover(CX), and order crossover (OX) are modified to be suitable for the MMALS, and a new sequencing binary operator called immediate successor relationship crossover (ISR) is introduced. These binary operators mentioned above and/or unary operators such as swap, insertion, inversion, displacement, and splice are compared to find operators which work well in the MMALS. Experimental results indicate that 1) among the binary operators ISR operator is the best, followed by the modified OX, and the modified PMX, with the modified CX being the worst, 2) among the unary operators inversion operator is the best, followed by displacement, swap, and insertion, with splice being the worst, and 3) in general, the unary operators perform better than the binary operators for the MMALS.

• Journal of applied mathematics & informatics
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• v.20 no.1_2
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• pp.327-343
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• 2006

A general methodology is suggested to solve shelf-space allocation problem of retailers. A multi-item inventory model of breakable items is developed, where items are either complementary or substitute. Demands of the items depend on the amount of stock on the showroom and unit price of the respective items. Also demand of one item decreases (increases) due to the presence of others in case of substitute (complementary) product. For such a model, a Contractive Mapping Genetic Algorithm (CMGA) has been developed and implemented to find the values of different decision variables. These are evaluated to have maximum possible profit out of the proposed system. The system has been illustrated numerically and results for some particular cases are derived. The results are compared with some other heuristic approaches- Simulated Annealing (SA), simple Genetic Algorithm (GA) and Greedy Search Approach (GSA) developed for the present model.

• Genomics & Informatics
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• v.6 no.1
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• pp.18-28
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• 2008

Single nucleotide polymorphisms (SNPs) are the most abundant forms of human genetic variations and resources for mapping complex genetic traits and disease association studies. We have constructed a linkage disequilibrium (LD) map of chromosome 22 in Korean samples and compared it with those of other populations, including Yorubans in Ibadan, Nigeria (YRI), Centre d'Etude du Polymorphisme Humain (CEPH) reference families (CEU), Japanese in Tokyo (JPT) and Han Chinese in Beijing (CHB) in the HapMap database. We genotyped 4681 of 111,448 publicly available SNPs in 90 unrelated Koreans. Among genotyped SNPs, 4167 were polymorphic. Three hundred and five LD blocks were constructed to make up 18.6% (6.4 of 34.5 Mb) of chromosome 22 with 757 tagSNPs and 815 haplotypes (frequency $\geq$ 5.0%). Of 3430 common SNPs genotyped in all five populations, 514 were monomorphic in Koreans. The CHB + JPT samples have more than a 72% overlap with the monomorphic SNPs in Koreans, while the CEU + YRI samples have less than a 38% overlap. The patterns of hot spots and LD blocks were dispersed throughout chromosome 22, with some common blocks among populations, highly concordant between the three Asian samples. Analysis of the distribution of chimpanzee-derived allele frequency (DAF), a measure of genetic differentiation, Fst levels, and allele frequency difference (AFD) among Koreans and the HapMap samples showed a strong correlation between the Asians, while the CEU and YRI samples showed a very weak correlation with Korean samples. Relative distance as a quantitative measurement based upon DAF, Fst, and AFD indicated that all three Asian samples are very proximate, while CEU and YRI are significantly remote from the Asian samples. Comparative genome-wide LD studies provide useful information on the association studies of complex diseases.

• Journal of the Korean Institute of Intelligent Systems
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• v.11 no.3
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• pp.223-230
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• 2001

Since self-organizing map (SOM) preserves the topology of ordering in input spaces and trains itself by unsupervised algorithm, it is Llsed in many areas. However, SOM has a shortcoming: structure cannot be easily detcrmined without many trials-and-errors. Structure-adaptive self-orgnizing map (SASOM) which can adapt its structure as well as its weights overcome the shortcoming of self-organizing map: SASOM makes use of structure adaptation capability to place the nodes of prototype vectors into the pattern space accurately so as to make the decision boundmies as close to the class boundaries as possible. In this scheme, the initialization of weights of newly adapted nodes is important. This paper proposes a method which optimizes SASOM with genetic algorithm (GA) to determines the weight vector of newly split node. The leanling algorithm is a hybrid of unsupervised learning method and supervised learning method using LVQ algorithm. This proposed method not only shows higher performance than SASOM in terms of recognition rate and variation, but also preserves the topological order of input patterns well. Experiments with 2D pattern space data and handwritten digit database show that the proposed method is promising.

• Proceedings of the Korean Society of Sericultural Science Conference
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• 1997.06a
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• pp.23-49
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• 1997

This is a progress report of rice biotechnology including development of gene transformation system, gene cloning and molecular mapping in rice. The scope of the research was focused on the connection between conventional breeding and biotech-researches. Plant transformation via Agrobacterium or particle bombardment was developed to introduce one or several genes to recommended rice cultivars. Two chimeric genes containing a maize ribosome inactivating protein gene (RIP) and a gerbicide resistant gene (bar) were introduced to Nipponbare, a Japonica cultivar, and transmitted to Korean cultivars. The homozygous progenies of herbicide resistant transgenic plant showed good fertility and agronomic characters. To explore the genetic resourses in rice, over 8,000 cDNA clones from immature rice seed have been isolated and sequenced. About 13% of clones were identified as enzymes related to metabolic pathway. Among them, twenty clones have high homology with genes encoding enzymes in the photorespiratory carbon cycle reaction. Up to now about 100 clones were fully sequenced and registered at EMBL and GenBank. For the mapping of quantitative tarits loci (QTL) and eternal recombinant inbred population with 164 F13 lines (MGRI) was developed from a cross between Milyang 23 and Gihobyeo, Korean rice cultivars. After construction of fully saturated RFLP and AFLP map, quantitative traits using MGRI population were analyzed and integrated into the molecular map. Eighty seven loci were determined with 27 QTL characters including yield and yield components on rice chromosomes. Map based cloning was also tried to isolate semi-dwarf (sd-1) gene in rice. A DNA probe, RG 109, the most tightly linked to sd-1 gene was used to screen from bacterial artifical chromosome (BAC) libraries and five over lapping clones presumably containing sd-1 gene were isolated. Rice genetic database including results of biotech reasearch and classical genetics is provided at Korea Rice Genome Server which is accessible with world wide web (www) browser. The server provides rice cDNA sequences and map informations linked with phenotypic images.