• Animal Bioscience
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• v.37 no.3
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• pp.428-436
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• 2024

Objective: This study compared five distinct sets of biological pathways and associated genes related to semen volume (VOL), number of sperm (NS), and sperm motility (MOT) in the Thai multibreed dairy population. Methods: The phenotypic data included 13,533 VOL records, 12,773 NS records, and 12,660 MOT records from 131 bulls. The genotypic data consisted of 76,519 imputed and actual single nucleotide polymorphisms (SNPs) from 72 animals. The SNP additive genetic variances for VOL, NS, and MOT were estimated for SNP windows of one SNP (SW1), ten SNP (SW10), 30 SNP (SW30), 50 SNP (SW50), and 100 SNP (SW100) using a single-step genomic best linear unbiased prediction approach. The fixed effects in the model were contemporary group, ejaculate order, bull age, ambient temperature, and heterosis. The random effects accounted for animal additive genetic effects, permanent environment effects, and residual. The SNPs explaining at least 0.001% of the additive genetic variance in SW1, 0.01% in SW10, 0.03% in SW30, 0.05% in SW50, and 0.1% in SW100 were selected for gene identification through the NCBI database. The pathway analysis utilized genes associated with the identified SNP windows. Results: Comparison of overlapping and non-overlapping SNP windows revealed notable differences among the identified pathways and genes associated with the studied traits. Overlapping windows consistently yielded a larger number of shared biological pathways and genes than non-overlapping windows. In particular, overlapping SW30 and SW50 identified the largest number of shared pathways and genes in the Thai multibreed dairy population. Conclusion: This study yielded valuable insights into the genetic architecture of VOL, NS, and MOT. It also highlighted the importance of assessing overlapping and non-overlapping SNP windows of various sizes for their effectiveness to identify shared pathways and genes influencing multiple traits.

• Journal of Mechanical Science and Technology
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• v.20 no.1
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• pp.133-146
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• 2006

Collaborative optimization (CO) is a multi-level decomposed methodology for a large-scale multidisciplinary design optimization (MDO). CO is known to have computational and organizational advantages. Its decomposed architecture removes a necessity of direct communication among disciplines, guaranteeing their autonomy. However, CO has several problems at convergence characteristics and computation time. In this study, such features are discussed and some suggestions are made to improve the performance of CO. Only for the system level optimization, genetic algorithm is used and gradient-based method is used for subspace optimizers. Moreover, response surface models are replaced as analyses in subspaces. In this manner, CO is applied to aero-structural design problems of the aircraft wing and its results are compared with the multidisciplinary feasible (MDF) method and the original CO. Through these results, it is verified that the suggested approach improves convergence characteristics and offers a proper solution.

• International Journal of Naval Architecture and Ocean Engineering
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• v.6 no.2
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• pp.406-417
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• 2014

This paper presents a numerical optimization method to improve the performance of the propeller with Turbo-Ring using real-coded genetic algorithm. In the presented method, Unimodal Normal Distribution Crossover (UNDX) and Minimal Generation Gap (MGG) model are used as crossover operator and generation-alternation model, respectively. Propeller characteristics are evaluated by a simple surface panel method "SQCM" in the optimization process. Blade sections of the original Turbo-Ring and propeller are replaced by the NACA66 a = 0.8 section. However, original chord, skew, rake and maximum blade thickness distributions in the radial direction are unchanged. Pitch and maximum camber distributions in the radial direction are selected as the design variables. Optimization is conducted to maximize the efficiency of the propeller with Turbo-Ring. The experimental result shows that the efficiency of the optimized propeller with Turbo-Ring is higher than that of the original propeller with Turbo-Ring.

• Genomics & Informatics
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• v.12 no.3
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• pp.114-120
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• 2014

Bone mineral density (BMD) is one of the quantitative traits that are genetically inherited and affected by various factors. Over the past years, genome-wide association studies (GWASs) have searched for many genetic loci that influence BMD. A recent meta-analysis of 17 GWASs for BMD of the femoral neck and lumbar spine is the largest GWAS for BMD to date and offers 64 single-nucleotide polymorphisms (SNPs) in 56 associated loci. We investigated these BMD loci in a Korean population called Korea Association REsource (KARE) to identify their validity in an independent study. The KARE population contains genotypes from 8,842 individuals, and their BMD levels were measured at the distal radius (BMD-RT) and midshaft tibia (BMD-TT). Thirteen genomic loci among 56 loci were significantly associated with BMD variations, and 3 loci were involved in known biological pathways related to BMD. In order to find putative functional variants, nearby SNPs in relation to linkage equilibrium were annotated, and their possible functional effects were predicted. These findings reveal that tens of variants, not a single factor, may contribute to the genetic architecture of BMD; have an important role regardless of ethnic group; and may highlight the importance of a replication study in GWASs to validate genuine loci for BMD variation.

• Proceedings of the KIEE Conference
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• 2005.05a
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• pp.12-14
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• 2005

In this paper, we propose a new architecture of Self-Organizing Fuzzy Polynomial Neural Networks(SOFPNN) by means of genetically optimized fuzzy polynomial neuron(FPN) and discuss its comprehensive design methodology involving mechanisms of genetic optimization, especially genetic algorithms(GAs). The conventional SOFPNNs hinges on an extended Group Method of Data Handling(GMDH) and exploits a fixed fuzzy inference type in each FPN of the SOFPNN as well as considers a fixed number of input nodes located in each layer. The design procedure applied in the construction of each layer of a SOFPNN deals with its structural optimization involving the selection of preferred nodes (or FPNs) with specific local characteristics (such as the number of input variables, the order of the polynomial of the consequent part of fuzzy rules, a collection of the specific subset of input variables, and the number of membership function) and addresses specific aspects of parametric optimization. Therefore, the proposed SOFPNN gives rise to a structurally optimized structure and comes with a substantial level of flexibility in comparison to the one we encounter in conventional SOFPNNs. To evaluate the performance of the genetically optimized SOFPNN, the model is experimented with using two time series data(gas furnace and chaotic time series).

• Structural Engineering and Mechanics
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• v.30 no.2
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• pp.135-146
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• 2008

This study utilizes the fine-tuning and small-digit characteristics of the successive zooming genetic algorithm (SZGA) to propose a method of structural damage detection in a continuum structure, where the differences in the natural frequencies of a structure obtained by experiment and FEM are compared and minimized using an assumed location and extent of structural damage. The final methodology applied to the structural damage detection is a kind of pseudo-discrete-variable-algorithm that counts the soundness variables as one (perfectly sound) if they are above a certain standard, such as 0.99. This methodology is based on the fact that most well-designed structures exhibit failures at some critical point due to manufacturing error, while the remaining region is free of damage. Thus, damage of 1% (depending on the given standard) or less can be neglected, and the search concentrated on finding more serious failures. It is shown that the proposed method can find out the exact structural damage of the monitored structure and reduce the time and amount of computation.

• Biotechnology and Bioprocess Engineering:BBE
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• v.11 no.1
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• pp.38-42
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• 2006

When whole cells are subjected to pyrolysis gas chromatography/mass spectrometry (Py-GC/MS) analysis, it provides biochemical profiles containing overlapping signals of the majority of compounds. To determine marker compounds that discriminate embryogenic calluses from nonembryogenic calluses, samples of embryogenic and nonembryogenic calluses of five higher plant species were subjected to Py-GC/MS. Genetic programming of Py-GC/MS data was able to discriminate embryogenic calluses from nonembryogenic calluses. The content ratio of 5-meyhyl-2-furancarboxaldehyde and 5-(hydroxymethyl)-2-furancarboxaldehyde was greater in nonembryogenic calluses than in embryogenic calluses. However, the content ratio of phenol, p-cresol, and $^1H-indole$ in embryogenic calluses was 1.2 to 2.4 times greater than the ratio in nonembryogenic calluses. These pyrolysates seem to be derived from the components of the cell walls, which suggests that differences in cell wall components or changes in the architecture of the cell wall playa crucial role in determining the embryogenic competence of calluses.

• Journal of the Society of Naval Architects of Korea
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• v.45 no.4
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• pp.403-410
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• 2008

This paper describes the optimization of the rudder section by the genetic algorism based on VLM(Vortex Lattice Method) and panel method. The developed propeller-rudder analysis program has been validated by comparing with experimental data. The research extends to optimize the anti-erosion rudder section of the large container ship. The object function is the amount of pressure at leading edge of rudder which is closely related with erosion phenomena. The optimized rudder has been compared with conventional rudder with NACA 0021 section by analyzing with the developed program. The finally optimized section has low and mild pressure distribution in comparison with the NACA rudder. The experiments is expected to be carried out for the validation of the present optimization and more parametric study of section geometry is also expected to be conducted in the near future.

• Proceedings of the Korean Institute of Intelligent Systems Conference
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• 2005.04a
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• pp.301-304
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• 2005

In this paper, we propose a new fuzzy set-based polynomial neuron (FSPN) involving the information granule, and new fuzzy-neural networks - Fuzzy Set based Polynomial Neural Networks (FSPNN). We have developed a design methodology (genetic optimization using Genetic Algorithms) to find the optimal structure for fuzzy-neural networks that expanded from Group Method of Data Handling (GMDH). It is the number of input variables, the order of the polynomial, the number of membership functions, and a collection of the specific subset of input variables that are the parameters of FSPNN fixed by aid of genetic optimization that has search capability to find the optimal solution on the solution space. We have been interested in the architecture of fuzzy rules that mimic the real world, namely sub-model (node) composing the fuzzy-neural networks. We adopt fuzzy set-based fuzzy rules as substitute for fuzzy relation-based fuzzy rules and apply the concept of Information Granulation to the proposed fuzzy set-based rules.

• The Transactions of the Korean Institute of Electrical Engineers D
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• v.53 no.8
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• pp.551-560
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• 2004

In this paper, we propose a new architecture of Self-Organizing Fuzzy Polynomial Neural Networks (SOFPNN) that is based on a genetically optimized multilayer perceptron with fuzzy polynomial neurons (FPNs) and discuss its comprehensive design methodology involving mechanisms of genetic optimization, especially genetic algorithms (GAs). The proposed SOFPNN gives rise to a structurally optimized structure and comes with a substantial level of flexibility in comparison to the one we encounter in conventional SOFPNNs. The design procedure applied in the construction of each layer of a SOFPNN deals with its structural optimization involving the selection of preferred nodes (or FPNs) with specific local characteristics (such as the number of input variables, the order of the polynomial of the consequent part of fuzzy rules, and a collection of the specific subset of input variables) and addresses specific aspects of parametric optimization. Through the consecutive process of such structural and parametric optimization, an optimized and flexible fuzzy neural network is generated in a dynamic fashion. To evaluate the performance of the genetically optimized SOFPNN, the model is experimented with using two time series data(gas furnace and chaotic time series), A comparative analysis reveals that the proposed SOFPNN exhibits higher accuracy and superb predictive capability in comparison to some previous models available in the literatures.