Motohide Nishio
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View article: Balancing Decidualization, Autophagy, and Cellular Senescence for Reproductive Success in Endometriosis Biology
Balancing Decidualization, Autophagy, and Cellular Senescence for Reproductive Success in Endometriosis Biology Open
Endometriosis is a chronic disease characterized by the ectopic presence of endometrial cells that evade apoptosis and survive and proliferate under harsh environmental conditions. It is closely associated with infertility and pregnancy-re…
View article: Molecular Mechanisms of Cellular Senescence in Age-Related Endometrial Dysfunction
Molecular Mechanisms of Cellular Senescence in Age-Related Endometrial Dysfunction Open
The endometrium is essential for reproductive function, supporting implantation and pregnancy through mechanisms such as hormonal responsiveness, immune regulation, and tissue regeneration. Aging disrupts these processes, with cellular sen…
View article: Endometrial Aging and Reproductive Decline: The Central Role of Mitochondrial Dysfunction
Endometrial Aging and Reproductive Decline: The Central Role of Mitochondrial Dysfunction Open
Socioeconomic factors have led an increasing number of women to postpone childbirth, thereby elevating the risks of reduced fertility, pregnancy complications, preterm birth, cesarean delivery, and chromosomal abnormalities. While diminish…
View article: Reaction‐norm animal model analysis of average daily gain heat tolerance in purebred Duroc pigs
Reaction‐norm animal model analysis of average daily gain heat tolerance in purebred Duroc pigs Open
The present study aimed to genetically improve growth performance under high‐heat environments by specifically designing a reaction‐norm animal model (RNAM) for purebred Duroc pigs in Japan. A total of 54,750 records of average daily gain …
View article: Evaluation of genomic prediction considering non‐additive genetic effects on fatty acid traits of Japanese Black cattle
Evaluation of genomic prediction considering non‐additive genetic effects on fatty acid traits of Japanese Black cattle Open
Genomic prediction was conducted using 2494 Japanese Black cattle from Hiroshima Prefecture and both single‐nucleotide polymorphism information and phenotype data on monounsaturated fatty acid (MUFA) and oleic acid (C18:1) analyzed with ga…
View article: Comparing pedigree and genomic inbreeding coefficients, and inbreeding depression of reproductive traits in Japanese Black cattle
Comparing pedigree and genomic inbreeding coefficients, and inbreeding depression of reproductive traits in Japanese Black cattle Open
Background Pedigree-based inbreeding coefficients have been generally included in statistical models for genetic evaluation of Japanese Black cattle. The use of genomic data is expected to provide precise assessment of inbreeding level and…
View article: Application of linear and machine learning models to genomic prediction of fatty acid composition in Japanese Black cattle
Application of linear and machine learning models to genomic prediction of fatty acid composition in Japanese Black cattle Open
We collected 3180 records of oleic acid (C18:1) and monounsaturated fatty acid (MUFA) measured using gas chromatography (GC) and 6960 records of C18:1 and MUFA measured using near‐infrared spectroscopy (NIRS) in intermuscular fat samples o…
View article: Performance of the No-U-Turn sampler in multi-trait variance component estimation using genomic data
Performance of the No-U-Turn sampler in multi-trait variance component estimation using genomic data Open
Background Multi-trait genetic parameter estimation is an important topic for target traits with few records and with a low heritability and when the genetic correlation between target and secondary traits is strong. However, estimating co…
View article: Additional file 2 of Performance of the No-U-Turn sampler in multi-trait variance component estimation using genomic data
Additional file 2 of Performance of the No-U-Turn sampler in multi-trait variance component estimation using genomic data Open
Additional file 2. RStan code for the NUTS algorithm with an IW prior of a multi-trait animal model.
View article: Additional file 1 of Performance of the No-U-Turn sampler in multi-trait variance component estimation using genomic data
Additional file 1 of Performance of the No-U-Turn sampler in multi-trait variance component estimation using genomic data Open
Additional file 1. RStan code for the NUTS algorithm with an LKJ prior of a multi-trait animal model. RStan is the R interface to Stan. The user writes the analysis model in the test.stan file and runs Stan by using test.stan in R. The use…
View article: Differential Metabolomics Profiles Identified by CE-TOFMS between High and Low Intramuscular Fat Amount in Fattening Pigs
Differential Metabolomics Profiles Identified by CE-TOFMS between High and Low Intramuscular Fat Amount in Fattening Pigs Open
The amount of intramuscular fat (IMF) present in the loin eye area is one of the most important characteristics of high-quality pork. IMF measurements are currently impractical without a labor-intensive process. Metabolomic profiling could…
View article: Inferring phenotypic causal structure among farrowing and weaning traits in pigs
Inferring phenotypic causal structure among farrowing and weaning traits in pigs Open
Direct selection for litter size or weight at weaning in pigs is often hindered by external interventions such as cross‐fostering. The objective of this study was to infer the causal structure among phenotypes of reproductive traits in pig…
View article: Tunings for leapfrog integration of Hamiltonian Monte Carlo for estimating genetic parameters
Tunings for leapfrog integration of Hamiltonian Monte Carlo for estimating genetic parameters Open
A Hamiltonian Monte Carlo algorithm is a Markov Chain Monte Carlo method that is considered more effective than the conventional Gibbs sampling method. Hamiltonian Monte Carlo is based on Hamiltonian dynamics, and it follows Hamilton’s equ…
View article: MOESM1 of Performance of Hamiltonian Monte Carlo and No-U-Turn Sampler for estimating genetic parameters and breeding values
MOESM1 of Performance of Hamiltonian Monte Carlo and No-U-Turn Sampler for estimating genetic parameters and breeding values Open
Additional file 1. RStan code for the NUTS algorithm. RStan is the R interface to Stan. The user writes the analysis model in the test.stan file and runs Stan by using test.stan in R. The user needs to input the following parameters; J: n…
View article: MOESM4 of Performance of Hamiltonian Monte Carlo and No-U-Turn Sampler for estimating genetic parameters and breeding values
MOESM4 of Performance of Hamiltonian Monte Carlo and No-U-Turn Sampler for estimating genetic parameters and breeding values Open
Additional file 4. Simulated data with a heritability of 0.5.
View article: MOESM2 of Performance of Hamiltonian Monte Carlo and No-U-Turn Sampler for estimating genetic parameters and breeding values
MOESM2 of Performance of Hamiltonian Monte Carlo and No-U-Turn Sampler for estimating genetic parameters and breeding values Open
Additional file 2. Simulated data with a heritability of 0.1.
View article: MOESM3 of Performance of Hamiltonian Monte Carlo and No-U-Turn Sampler for estimating genetic parameters and breeding values
MOESM3 of Performance of Hamiltonian Monte Carlo and No-U-Turn Sampler for estimating genetic parameters and breeding values Open
Additional file 3. Simulated data with a heritability of 0.3.
View article: Aces of estimates (and ) and regression coefficients ( and ) of on full PIC dataset () and on phenotypic value () in the test population for the PIC pig dataset.
Aces of estimates (and ) and regression coefficients ( and ) of on full PIC dataset () and on phenotypic value () in the test population for the PIC pig dataset. Open
Aces of estimates (and ) and regression coefficients ( and ) of on full PIC dataset () and on phenotypic value () in the test population for the PIC pig dataset.
View article: Examination of the Number of Loci Necessary for Inbreeding Evaluation with DNA Markers
Examination of the Number of Loci Necessary for Inbreeding Evaluation with DNA Markers Open
単純な家系構造を持つ実験家系を分析材料として，DNAマーカーの数がマーカーを用いた近交度評価に与える影響をシミュレーションにより検討した。個体ごとのマーカー近交度は，マーカー数の検討のための反復回数を増加させても，個体ごとのばらつきはほとんど変化しなかった。マーカー数を増加させると，マーカー近交度のばらつきは抽出ごとおよび個体ごとのいずれにおいても小さくなった。また，マーカー近交度による個体間の順序の逆転も少なくなった。一方，多型の程度が異なるマーカーから抽出したマーカー近…