• Title/Summary/Keyword: mixed data set

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Genome-wide association studies to identify quantitative trait loci and positional candidate genes affecting meat quality-related traits in pigs

  • Jae-Bong Lee;Ji-Hoon Lim;Hee-Bok Park
    • Journal of Animal Science and Technology
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    • v.65 no.6
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    • pp.1194-1204
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    • 2023
  • Meat quality comprises a set of key traits such as pH, meat color, water-holding capacity, tenderness and marbling. These traits are complex because they are affected by multiple genetic and environmental factors. The aim of this study was to investigate the molecular genetic basis underlying nine meat quality-related traits in a Yorkshire pig population using a genome-wide association study (GWAS) and subsequent biological pathway analysis. In total, 45,926 single nucleotide polymorphism (SNP) markers from 543 pigs were selected for the GWAS after quality control. Data were analyzed using a genome-wide efficient mixed model association (GEMMA) method. This linear mixed model-based approach identified two quantitative trait loci (QTLs) for meat color (b*) on chromosome 2 (SSC2) and one QTL for shear force on chromosome 8 (SSC8). These QTLs acted additively on the two phenotypes and explained 3.92%-4.57% of the phenotypic variance of the traits of interest. The genes encoding HAUS8 on SSC2 and an lncRNA on SSC8 were identified as positional candidate genes for these QTLs. The results of the biological pathway analysis revealed that positional candidate genes for meat color (b*) were enriched in pathways related to muscle development, muscle growth, intramuscular adipocyte differentiation, and lipid accumulation in muscle, whereas positional candidate genes for shear force were overrepresented in pathways related to cell growth, cell differentiation, and fatty acids synthesis. Further verification of these identified SNPs and genes in other independent populations could provide valuable information for understanding the variations in pork quality-related traits.

Environmental Factors and Catch Fluctuation of Set-Net Grounds in the Coastal Waters of Yeosu (여수연안 정치망 어장의 환경요인과 어항 변동에 관한 연구)

  • Kim, Dong-Soo;Rho, Hong-Kil
    • Journal of the Korean Society of Fisheries and Ocean Technology
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    • v.29 no.1
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    • pp.1-10
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    • 1993
  • In order to investigate the environmental properties of set net grounds located in the coastal waters of Yeosu, oceanographic observations on the fishing grounds were carried out by the training ship of Yeosu Fisheries University from Jun. 1988 to Dec. 1990. The resultes obtained are summarized as follows; 1) The water mass in the fishing grounds were divided into the inner water (29.50-31.00$\textperthousand$), the mixed water (31.10-32.70$\textperthousand$) and the offshore water (32.70-34.30$\textperthousand$) according to the distribution of salinity from T-S diagram plotted all salinity data observed from Jun. 1988 to Dec. 1990. In spring the mixing water prevailed and in summer the inner and mixing water. But in autumn and winter the mixing and offshore waters prevailed. 2) The inner water which was formed by land water from the river of Somjin and the precipitation in the Yeosu district flowed southerly along the coast of Dolsando and spread south-easterly in the vicinity of Kumodo. The inner water and offshore water which supplied from the vicinity of Sorido and Yokchido formed the thermal front and halofront. 3) As the mixing water flowing from the western sea of Cheju to the southern coast of korea was low in temperature, the water mass of low temperature which appeared at the offshore bottom of Sorido in summer was considered not to be the Tsushima warm current. 4) As vertical mixing was made frequently in spring, autumn and winter, the differences in temperature and salinity between surface and bottom was respectively small. In summer, however, the mixing was not made because of the inner water expanded offshore through the space between surface and 10m layer and so a thermocline of $2.0^{\circ}C$/10m and halocline of 4.0$\textperthousand$/10m respectively in vertical gradient was formed. 5) In the vicinity of Dolsando and Kum a water low in salinity prevailed, but in the vicinity of Namhaedo and YoKchido the reverse took place. The inner and mixing waters formed at these arease was limited to the observation area not to spread widely.

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Compact Boundary Representation and Generalized Eular Operators for Non-manifold Geometric Modeling (비다양체 형상 모델링을 위한 간결한 경계 표현 및 확장된 오일러 작업자)

  • 이상헌;이건우
    • Korean Journal of Computational Design and Engineering
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    • v.1 no.1
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    • pp.1-19
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    • 1996
  • Non-manifold topological representations can provide a single unified representation for mixed dimensional models or cellular models and thus have a great potential to be applied in many application areas. Various boundary representations for non-manifold topology have been proposed in recent years. These representations are mainly interested in describing the sufficient adjacency relationships and too redundant as a result. A model stored in these representations occupies too much storage space and is hard to be manipulated. In this paper, we proposed a compact hierarchical non-manifold boundary representation that is extended from the half-edge data structure for solid models by introducing the partial topological entities to represent some non-manifold conditions around a vertex, edge or face. This representation allows to reduce the redundancy of the existing schemes while full topological adjacencies are still derived without the loss of efficiency. To verify the statement above, the storage size requirement of the representation is compared with other existing representations and present some main procedures for querying and traversing the representation. We have also implemented a set of the generalized Euler operators that satisfy the Euler-Poincare formula for non-manifold geometric models.

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A Comparative Study on the Horizontal Openness of High-rise Residential Buildings in terms of Building Arrangement Type - Focused on the Cases in Daegu - (상업지역 내 초고층 주거건축의 주동배치방식에 따른 수평적 개방성 비교연구 - 대구지역 사례 중심으로 -)

  • Kwon, Jong-Wook;Park, Sang-Min;Park, Byong-Han
    • Journal of the Korean housing association
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    • v.23 no.3
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    • pp.53-61
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    • 2012
  • Openness to outside is one of the most critical advantages for high-rise buildings. However, the effect of openness can be decreased if it is blocked by other high-rise buildings, especially built within the building complex of commercial district. The purpose of this study is to identify the horizontal openness of high-rise residential buildings by comparing 3 different cases of building arrangement type. A new method of evaluation has been introduced on the basis of distance to measure the openness including the matter of securing privacy. As a result of this study, comparative analysis was possible and relatively plentiful results of analysis could be drawn out. Through the process of analysis, this study set the evaluation indicators suitable to the analysis of openness of unit households. Thereby, the results of this study are expected to be used as useful basic data in planning high-rise mixed-use buildings.

Metaheuristics of the Rail Crane Scheduling Problem (철송 크레인 일정계획 문제에 대한 메타 휴리스틱)

  • Kim, Kwang-Tae;Kim, Kyung-Min
    • IE interfaces
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    • v.24 no.4
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    • pp.281-294
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    • 2011
  • This paper considers the rail crane scheduling problem which is defined as determining the sequence of loading/unloading container on/from a freight train. The objective is to minimize the weighted sum of the range of order completion time and makespan. The range of order completion time implies the difference between the maximum of completion time and minimum of start time of each customer order consisting of jobs. Makespan refers to the time when all the jobs are completed. In a rail freight terminal, logistics firms as a customer wish to reduce the range of their order completion time. To develop a methodology for the crane scheduling, we formulate the problem as a mixed integer program and develop three metaheuristics, namely, genetic algorithm, simulated annealing, and tabu search. To validate the effectiveness of heuristic algorithms, computational experiments are done based on a set of real life data. Results of the experiments show that heuristic algorithms give good solutions for small-size and large-size problems in terms of solution quality and computation time.

A Model-generated Circulation in the Yellow Sea and the East China Sea: I. Depth-mean Flow Fields

  • Jung, Kyung-Tae;Kang, Hyoun-Woo;So, Jae-Kwi;Lee, Ho-Jin
    • Ocean and Polar Research
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    • v.23 no.3
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    • pp.223-242
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    • 2001
  • This paper presents the depth-mean monthly variation in the circulation of the Yellow Sea and the East China Sea computed using a robust diagnostic model. The mixed three-dimensional finite-difference Galerkin function model developed by Lee et at. (2000, 2001) has been extended to take into account baroclinic effects and then used to calculate the depth-mean flow fields as part of the results. In addition to M2 tide and oceanic flows previously considered, the model has been driven by the monthly mean wind stresses from Na and Seo (1998), the density gradient calculated based on by GDEM data set released by US Navy. Model results are very encouraging in that many of observed features including Jeju Cyclonic Gyre and frontal eddies along the shelfside of the Kuroshio main stream and west of Kyushu, are satisfactorily reproduced and are expected to be of value in interpreting observations in various oceanograhic disciplines.

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The Position and Speed Estimation of Switched Reluctance Motor using Sliding Mode Observer

  • Yang, Lee-Woo;Kim, Bo-Youl;Kim, Jin-Soo;Kim, Young-Seok
    • Proceedings of the KIPE Conference
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    • 1998.10a
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    • pp.774-779
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    • 1998
  • For the speed control of motors, the position or speed sensors are necessary to obtain the position information of the rotor. Specially, SRM(Switched Reluctance Motor) needs an accurate rotor position data because both the rotor and the stator have a salient pole structure. High functional sensors like resolver or encoder are expensive and have complex connecting lines to the controller so the pure signals are apt to be mixed with noised. In the sight of SRM drives, the high temperature, heavy dust, and the EMI surroundings reduce the reliability of speed and position sensors. Therefore, the speed and position sensorless control algorithms using observer have been accepted widely. In this paper An adaptive sliding observer is described to control the SRM without speed or position sensors. The adaptive sliding observer is set on the basis of variable structure control theory. The sliding surface is constructed by current error terms and this surface guarantees the errors converge to "zero". The stability of observer is affirmed by Lyapunov stability analysis and popov's hyper stability theory.ty theory.

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Interblock Information from BIBD Mixed Effects (균형불완비블록설계의 혼합효과에서 블록간 정보)

  • Choi, Jaesung
    • The Korean Journal of Applied Statistics
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    • v.28 no.2
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    • pp.151-158
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    • 2015
  • This paper discusses how to use projections for the analysis of data from balanced incomplete block designs. A model is suggested as a matrix form for the interblock analysis. A second set of treatment effects can be found by projections from the suggested interblock model. The variance and covariance matrix of two estimated vectors of treatment effects is derived. The uncorrelation of two estimated vectors can be verified from their covaraince structure. The fitting constants method is employed for the calculation of block sum of squares adjusted for treatment effects.

An enhanced feature selection filter for classification of microarray cancer data

  • Mazumder, Dilwar Hussain;Veilumuthu, Ramachandran
    • ETRI Journal
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    • v.41 no.3
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    • pp.358-370
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    • 2019
  • The main aim of this study is to select the optimal set of genes from microarray cancer datasets that contribute to the prediction of specific cancer types. This study proposes the enhancement of the feature selection filter algorithm based on Joe's normalized mutual information and its use for gene selection. The proposed algorithm is implemented and evaluated on seven benchmark microarray cancer datasets, namely, central nervous system, leukemia (binary), leukemia (3 class), leukemia (4 class), lymphoma, mixed lineage leukemia, and small round blue cell tumor, using five well-known classifiers, including the naive Bayes, radial basis function network, instance-based classifier, decision-based table, and decision tree. An average increase in the prediction accuracy of 5.1% is observed on all seven datasets averaged over all five classifiers. The average reduction in training time is 2.86 seconds. The performance of the proposed method is also compared with those of three other popular mutual information-based feature selection filters, namely, information gain, gain ratio, and symmetric uncertainty. The results are impressive when all five classifiers are used on all the datasets.

Hydrologic evaluation of SWAT considered forest type using MODIS LAI data: a case of Yongdam Dam watershed (MODIS LAI 자료를 활용하여 임상별로 고려한 SWAT의 수문 평가: 용담댐유역을 대상으로)

  • Han, Daeyoung;Lee, Jiwan;Kim, Wonjin;Baek, Seungchul;Kim, Seongjoon
    • Journal of Korea Water Resources Association
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    • v.54 no.11
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    • pp.875-889
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    • 2021
  • This study compares and analyzes the Soil and Water Assessment Tool (SWAT) and Terra MODIS (Moderate Resolution Imaging Spectroradiometer) as coniferous, deciduous and mixed forest with Yongdam Dam upstream (904.4 km2). The hydrologic evaluation period was set to 10 years from 2010 to 2019, and the applicability of the 8-day MOD15A2 Leaf Area Index (LAI) data, 3 TDR (Time Domain Reflectometry) (GB, JC, CC), and 1 Flux Tower (DU) evaporation volume (YDD) data was simulated. As a result, the R2 of coniferous forest, deciduous forest and mixed forest are 0.95, 0.89, 0.90, soil moisture and evaportranspiration stations R2 were analyzed at 0.50 to 0.55 and 0.51, respectively, with R2 at 0.74, RMSE 2.75 mm/day, NSE 0.70 and PBIAS 14.3% for Yongdam inflow. Based on the calibrated and validated watersheds, the annual average evaportranspiration was calculated as coniferous 469.7 mm, deciduous 501. mm and 511.5 mm mixed forest, total runoff were estimated at coniferous 909.8 mm, deciduous 860.6 mm and 864.2 mm mixed forest. In the case of annual average evaportranspiration, it was evaluated that deciduous were high, but in the case of streamflow, it was evaluated that coniferous were high. Unlike other hydrologic with similar patterns throughout the year, the average annual evapotranspiration was about 7% higher than coniferous due to the higher evapotranspiration of deciduous with high leaf area index in summer and fall. In addition, deciduous were 9% and 6% higher for surface runoff and lateral flow, but the groundwater of coniferous was 77% higher. Therefore, it was confirmed that the total runoff was in order of coniferous, mixed forest, and deciduous.