• Title/Summary/Keyword: H-likelihood

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Empirical Comparisons of Disparity Measures for Partial Association Models in Three Dimensional Contingency Tables

  • Jeong, D.B.;Hong, C.S.;Yoon, S.H.
    • Communications for Statistical Applications and Methods
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    • v.10 no.1
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    • pp.135-144
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    • 2003
  • This work is concerned with comparison of the recently developed disparity measures for the partial association model in three dimensional categorical data. Data are generated by using simulation on each term in the log-linear model equation based on the partial association model, which is a proposed method in this paper. This alternative Monte Carlo methods are explored to study the behavior of disparity measures such as the power divergence statistic I(λ), the Pearson chi-square statistic X$^2$, the likelihood ratio statistic G$^2$, the blended weight chi-square statistic BWCS(λ), the blended weight Hellinger distance statistic BWHD(λ), and the negative exponential disparity statistic NED(λ) for moderate sample sizes. We find that the power divergence statistic I(2/3) and the blended weight Hellinger distance family BWHD(1/9) are the best tests with respect to size and power.

ITS 염기서열에 의한 한국산 미나리아재비속 미나리아재비절의 분류학적 검토

  • Yeo, Seong-Hui;Lee, Chang-Suk;Lee, Nam-Suk
    • Korean Journal of Plant Taxonomy
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    • v.34 no.2
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    • pp.173-183
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    • 2004
  • 한국산 미나리아재비속 미나리아재비(Acris Schur)절에 속하는 미나리아재비(Ranunculus japonicus)와 근연종인 산미나리아재비(R. acris var. nipponicus) 및 바위미나리아재비(R. crucilobus)의 실체와 분류학적 한계를 파악하기위해 속, 종간 규명에 많이 이용하고 있는 핵리보좀(ribosomal) DNA의 internal transcribed spacer 구간의 염기서열을 분석하였다. 본 연구는 6개의 군외군을 포함하여 총 18개의 DNA 재료(accessions)의 정열된 염기서열들을 바탕으로 bootsrap을 포함한 maximum parsimony와 maximum likelihood 분석법에 의한 계통수로 평가하였다. 연구 결과 Acris절에 속하는 미나리아재비, 산미나리아재비 및 바위미나리아재비는 단계통군으로 나타났으며 특히 미나리아재비(R. japonicus)와 산미나리아재비(R. acris var. nipponicus)는 같은 분계조를 형성하였다. 이와 달리 바위미나리아재비는 미나리아재비와 산미나리아재비에서 분지된 결과를 보여, 한라산 해발 1500m이상의 높은 지역에 분포하는 바위미나리아재비는 미나리아재비의 아종(R. japonicus Thunb. subsp. chrysotrichus (Nakai) Y. N. Lee, comb. nud.)으로 처리하기보다는, 독립된 고유종인 R. crucilobus H. L$\acute{e}$v.으로의 처리를 지지하였다.

Influence diagnostics for skew-t censored linear regression models

  • Marcos S Oliveira;Daniela CR Oliveira;Victor H Lachos
    • Communications for Statistical Applications and Methods
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    • v.30 no.6
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    • pp.605-629
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    • 2023
  • This paper proposes some diagnostics procedures for the skew-t linear regression model with censored response. The skew-t distribution is an attractive family of asymmetrical heavy-tailed densities that includes the normal, skew-normal and student's-t distributions as special cases. Inspired by the power and wide applicability of the EM-type algorithm, local and global influence analysis, based on the conditional expectation of the complete-data log-likelihood function are developed, following Zhu and Lee's approach. For the local influence analysis, four specific perturbation schemes are discussed. Two real data sets, from education and economics, which are right and left censoring, respectively, are analyzed in order to illustrate the usefulness of the proposed methodology.

Estimation of Genetic Parameters for Pork Belly Components in Yorkshire Pigs

  • Kang, H.S.;Lopez, B.M.;Kim, T.H.;Kim, H.S.;Kim, S.H.;Nam, K.C.;Seo, K.S.
    • Asian-Australasian Journal of Animal Sciences
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    • v.28 no.7
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    • pp.922-925
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    • 2015
  • This study was conducted to estimate the genetic parameters for pork belly traits and muscles in Yorkshire pigs. Each pork belly was cut into nine parts perpendicular to the thoracic vertebrae (6th to 14th). Traits of belly muscles including the deep pectoral, latissimus dorsi, cutaneous trunci, rectus abdominis, external and internal abdominal oblique from 382 purebred pigs were recorded and analyzed using SAS Package (9.1) and Derivative-free restricted maximum likelihood methods. Heritability estimates for belly traits ranged from 0.27 to 0.49, while they were 0.12 to 0.66 for belly muscles. Moderate to high heritability estimates were noted in belly weight (0.33), belly length (0.28), and belly width (0.49). In belly muscles, the latissimus dorsi and deep pectoral, which are located only in the 6th to 9th vertebrae sections, were found to have heritability estimates ranging from 0.21 to 0.29 and 0.23 to 0.35, respectively. Strong heritability estimates were observed in the 7th to 13th sections of cutaneous trunci muscle ranging from 0.42 to 0.66. Genetic correlations of latissimus dorsi m. with belly length were positive (0.50), while cutaneous trunci m. with belly weight also revealed a positive relationship that ranged from 0.35 to 0.47. The estimated genetic parameters indicate that belly weight can be improved by genetic selection. Differences in the levels of heritability occurred among various parameters of Yorkshire pork belly, which should be considered when performing selection to improve pork belly quality. Moreover, these results can provide valuable information that can be used as the basis for further investigations to improve pork belly.

Influence of pre-slaughter fasting time on weight loss, meat quality and carcass contamination in broilers

  • Xue, Ge;Cheng, Silu;Yin, Jingwen;Zhang, Runxiang;Su, Yingying;Li, Xiang;Li, Jianhong;Bao, Jun
    • Animal Bioscience
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    • v.34 no.6
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    • pp.1070-1077
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    • 2021
  • Objective: An experiment was conducted to determine the appropriate fasting time prior to slaughter for broilers in floor-feed and scatter-feed mode. Methods: On 21 d since hatching, 120 Arbor Acres broilers were divided into floor-feed and scatter-feed groups, chicks from each group were further assigned to feed withdrawal treatments for 0, 4, 6, 8, and 10 h. Some resultant indicators such as carcass contamination, body weight loss, meat quality of 54-day-old broilers were measured. Results: It appears that longer feed withdrawal increased weight loss, lightness, drop loss of meat but reduced pH. A significant higher weight loss and lightness for both floor-feed and scatter-feed chicks coincided after 6 to 10 h feed withdrawal (p<0.05). pH for breast muscle at 45 min postmortem reduced when chicks of scatter-feed were fasted 6 and 10 h, while the reduction of floor-feed group occurred only in 10 h (p<0.05). A noticeable effect of feed withdrawal on drop loss occurred after 10 h fasting in scatter-feed of which drop loss were significantly higher than that for other groups including control (p<0.05). The change of contamination propensity revealed that 6 to 10 h fasting significantly reduced the likelihood of carcass contamination under both floor-feed and scatter-feed (p<0.05). Net weights of intestinal contents for gizzard were significantly reduced after feed deprived for 10 h in floor-feed and 6 and 10 h in scatter-feed (p<0.05). The decrease for whole intestine occurred after floor-feed broilers have been without feed for more than 4 h, scatter-feed broilers for more than 8 h (p<0.05). Conclusion: On the premise that poultry product properties and welfare were not significantly damaged, proper fasting time could reduce carcass contamination. Current data implied that 6 h fasting was recommendable for both floor and scatter feed pre-slaughter broilers.

Gibberellin A7 production by Aspergillus tubingensis YH103 and cultural characteristics of endophytic fungi isolated from Tetragonia tetragonoides in Dokdo islands (독도 번행초에서 분리된 내생균류의 배양적 특성과 Aspergillus tubingensis YH103의 gibberellin A7의 생산)

  • You, Young-Hyun;Park, Jong Myong;Lim, Sung Hwan;Kang, Sang-Mo;Park, Jong-Han;Lee, In-Jung;Kim, Jong-Guk
    • Korean Journal of Microbiology
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    • v.52 no.1
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    • pp.32-39
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    • 2016
  • Coastal plant species Tetragonia tetragonoides (Pall.) Kuntze native to the Dokdo islands was sampled and then 17 endophytic fungi were purely isolated based on morphological differences. The fungal isolates were characterized by their growth properties under NaCl concentration or pH gradient. Culture filtrates of the 17 fungal isolates were treated to Waito-c rice (WR) seedlings for verifying plant growth-promoting activity. As the results, YH103 strain showed the highest plant growth-promoting activity among them. Phylogenetic analysis of the isolates was done by the maximum likelihood method based on partial internal transcribed spacer region (ITS region: contaning ITS1, 5.8S, and ITS2), beta-tubulin (BenA), and calmodulin (CaM) gene sequences. Chromatographic analysis of the strain YH103 culture filtrate showed the existence of gibberellins ($GA_4$, $GA_7$, $GA_8$, and $GA_{19}$). Finally, the strain YH103 was identified as Aspergillus tubingensis by microscopic observation and molecular analysis and, to our knowledge, this is the first report of GAs producing A. tubingensis.

Dose-Response Relationship of Avian Influenza Virus Based on Feeding Trials in Humans and Chickens (조류인플루엔자 바이러스의 양-반응 모형)

  • Pak, Son-Il;Lee, Jae-Yong;Jeon, Jong-Min
    • Journal of Veterinary Clinics
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    • v.28 no.1
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    • pp.101-107
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    • 2011
  • This study aimed to determine dose-response (DR) curve of avian influenza (AI) virus to predict the probability of illness or adverse health effects that may result from exposure to a pathogenic microorganism in a quantitative microbial risk assessment. To determine the parametric DR relationship of several strains of AI virus, 7 feeding trial data sets challenging humans (5 sets) and chickens (2 sets) for strains of H3N2 (4 sets), H5N1 (2 sets) and H1N1 (1 set) from the published literatures. Except for one data set (study with intra-tracheal inoculation for data set no. 6), all were obtained from the studies with intranasal inoculation. The data were analyzed using three types of DR model as the basis of heterogeneity in infectivity of AI strains in humans and chickens: exponential, beta-binomial and beta-Poisson. We fitted to the data using maximum likelihood estimation to get the parameter estimates of each model. The alpha and beta values of the beta-Poisson DR model ranged 0.06-0.19 and 1.7-48.8, respectively for H3N2 strain. Corresponding values for H5N1 ranged 0.464-0.563 and 97.3-99.4, respectively. For H1N1 the parameter values were 0.103 and 12.7, respectively. Using the exponential model, r (infectivity parameter) ranged from $1.6{\times}10^{-8}$ to $1.2{\times}10^{-5}$ for H3N2 and from $7.5{\times}10^{-3}$ to $4.0{\times}10^{-2}$ for H5N1, while the value was $1.6{\times}10^{-8}$ for H1N1. The beta-Poisson DR model provided the best fit to five of 7 data sets tested, and the estimated parameter values in betabinomial model were very close to those of beta-Poisson. Our study indicated that beta-binomial or beta-Poisson model could be the choice for DR modeling of AI, even though DR relationship varied depending on the virus strains studied, as indicated in prior studies. Further DR modeling should be conducted to quantify the differences among AI virus strains.

Estimation of Genetic Parameters for Growth-related Traits of Two Korean Abalone Subspecies, Haliotis discus hannai and H. discus discus, by using Multiple Traits of Animal Model in Early Growth Period (다형질 Animal Model에 의한 한국산 전복 2 아종의 초기 치패의 성장관련 형질에 대한 유전모수 추정)

  • Choe, Mi-Kyung;Han, Seock-Jung;Yang, Sang-Geun;Won, Seung-Hwan;Park, Choul-Ji;Yeo, In-Kyu
    • The Korean Journal of Malacology
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    • v.23 no.2
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    • pp.217-225
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    • 2007
  • This study was conducted to estimate the general genetic parameters, heritabilities, and genetic and phenotypic correlations on growth-related traits by studying multiple trait animal model in two Korean abalone species, Haliotis discus hannai and H. discus discus. The data was collected from the records of 3,795 individuals produced from 54 sires and 74 dams in Haliotis discus hannai and 399 individuals produced from 7 sires and 7 dams in Haliotis discus discus. The data was evaluated by the Genetics and Breeding Research Center, National Fisheries Research & Development Institute (NFRDI). Genetic parameters were estimated for two abalone species raised in Bukjeju branch, NFRDI, from May 20 to November 1, 2004. The heritability estimates for growth traits of shell length, shell width and body weight obtained from restricted maximum likelihood (REML) were ranging from 0.73 to 0.78 in Haliotis discus hannai, and from 0.87 to 0.89 in H. discus discus. The heritabilities for shell shape and condition factor were ranging from 0.17 to 0.20 in Haliotis discus hannai, and from 0.01 to 0.45 in H. discus discus. Genetic and phenotypic correlations were over than 0.96 between shell parameters and weight in both of abalone subspecies, indicating that breeding for weight gains could successfully be achieved by selecting for shell length.

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Animal Model Versus Conventional Methods of Sire Evaluation in Sahiwal Cattle

  • Banik, S.;Gandhi, R.S.
    • Asian-Australasian Journal of Animal Sciences
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    • v.19 no.9
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    • pp.1225-1228
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    • 2006
  • A total of 1,367 first lactation records of daughters of 81 sires, having 5 or more progeny were used to evaluate sires by 3 different methods viz., least squares (LS), best linear unbiased prediction (BLUP) and derivative free restricted maximum likelihood (DFREML) method. The highest and lowest overall average breeding value of sires for first lactation 305 days or less milk yield was obtained by BLUP (1,520.72 kg) and LS method (1,502.22 kg), respectively. The accuracy, efficiency and stability of different sire evaluation methods were compared to judge their effectiveness. The error variance of DFREML method was lowest ($191,112kg^2$) and its coefficient of determination of fitting the model was highest (33.39%) revealing that this method of sire evaluation was most efficient and accurate as compared to other methods. However, the BLUP method was most stable amongst all the methods having coefficient of variation (%) very near to unadjusted data (18.72% versus 19.89%). The higher rank correlations (0.7979 to 0.9568) between different sire evaluation methods indicated that there was higher degree of similarity of ranking sires by different methods ranging from about 80 to 96 percent. However, the DFREML method seemed to be the most effective sire evaluation method as compared to other methods for the present set of data.

Genetic Aspects of Persistency of Milk Yield in Boutsico Dairy Sheep

  • Kominakis, A.P.;Rogdakis, E.;Koutsotolis, K.
    • Asian-Australasian Journal of Animal Sciences
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    • v.15 no.3
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    • pp.315-320
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    • 2002
  • Test-day records (n=13677) sampled from 896 ewes in 5-9 (${\mu}$=7.5) monthly test-days were used to estimate genetic and phenotypic parameters of test-day yields, lactation milk yield (TMY), length of the milking period (DAYS) and three measures of persistency of milk yield in Boutsico dairy sheep. Τhe measures of persistency were the slope of the regression line (${\beta}$), the coefficient of variation (CV) of the test-day milk yields and the maximum to average daily milk yield ratio (MA). The estimates of variance components were obtained under a linear mixed model by restricted maximum likelihood. The heritability of test-day yields ranged from 0.15 to 0.24. DAYS were found to be heritable ($h^2$=0.11). Heritability estimates of ${\beta}$, CV and MA were 0.15, 0.13, 0.10, respectively. Selection for maximum lactation yields is expected to result in prolonged milking periods, high rates of decline of yields after peak production, variable test-day yields and higher litter sizes. Selection for flatter lactation curves would reduce lactation yields, increase slightly the length of the milking period and decrease yield variation as well as litter size. The most accurate prediction of TMY was obtained with a linear regression model with the first five test-day records.