Dietary-derived vitamin B12 protects Caenorhabditis elegans from thiol-reducing agents.

Background: One-carbon metabolism, which includes the folate and methionine cycles, involves the transfer of methyl groups which are then utilised as a part of multiple physiological processes including redox defence. During the methionine cycle, the vitamin B12-dependent enzyme methionine synthetase converts homocysteine to methionine. The enzyme S-adenosylmethionine (SAM) synthetase then uses methionine in the production of the reactive methyl carrier SAM.

TRACY-WIDOM AT EACH EDGE OF REAL COVARIANCE AND MANOVA ESTIMATORS.

We study the sample covariance matrix for real-valued data with general population covariance, as well as MANOVA-type covariance estimators in variance components models under null hypotheses of global sphericity. In the limit as matrix dimensions increase proportionally, the asymptotic spectra of such estimators may have multiple disjoint intervals of support, possibly intersecting the negative half line. We show that the distribution of the extremal eigenvalue at each regular edge of the support has a GOE Tracy-Widom limit.

The Dose-Effects of Caffeine on Lower Body Maximal Strength, Muscular Endurance, and Rating of Perceived Exertion in Strength-Trained Females.

Caffeine supplementation has shown to be an effective ergogenic aid enhancing athletic performance, although limited research within female populations exists. Therefore, the aim of the investigation was to assess the effect of pre-exercise caffeine supplementation on strength performance and muscular endurance in strength-trained females. In a double-blind, randomised, counterbalanced design, fourteen strength-trained females using hormonal contraception consumed either 3 or 6 mg·kg BM of caffeine or placebo (PLA).

The effects of plant cysteine proteinases on the nematode cuticle.

Background: Plant-derived cysteine proteinases of the papain family (CPs) attack nematodes by digesting the cuticle, leading to rupture and death of the worm. The nematode cuticle is composed of collagens and cuticlins, but the specific molecular target(s) for the proteinases have yet to be identified.

Methods: This study followed the course of nematode cuticle disruption using immunohistochemistry, scanning electron microscopy and proteomics, using a free-living nematode, Caenorhabditis elegans and the murine GI nematode Heligmosomoides bakeri (H.

Asymptotics of eigenstructure of sample correlation matrices for high-dimensional spiked models.

Sample correlation matrices are widely used, but for high-dimensional data little is known about their spectral properties beyond "null models", which assume the data have independent coordinates. In the class of spiked models, we apply random matrix theory to derive asymptotic first-order and distributional results for both leading eigenvalues and eigenvectors of sample correlation matrices, assuming a high-dimensional regime in which the ratio , of number of variables to sample size , converges to a positive constant. While the first-order spectral properties of sample correlation matrices match those of sample covariance matrices, their asymptotic distributions can differ significantly.

Fast and Accurate Binary Response Mixed Model Analysis Via Expectation Propagation.

Expectation propagation is a general prescription for approximation of integrals in statistical inference problems. Its literature is mainly concerned with Bayesian inference scenarios. However, expectation propagation can also be used to approximate integrals arising in statistical inference.

EIGENVALUE DISTRIBUTIONS OF VARIANCE COMPONENTS ESTIMATORS IN HIGH-DIMENSIONAL RANDOM EFFECTS MODELS.

We study the spectra of MANOVA estimators for variance component covariance matrices in multivariate random effects models. When the dimensionality of the observations is large and comparable to the number of realizations of each random effect, we show that the empirical spectra of such estimators are well-approximated by deterministic laws. The Stieltjes transforms of these laws are characterized by systems of fixed-point equations, which are numerically solvable by a simple iterative procedure.

EDGEWORTH CORRECTION FOR THE LARGEST EIGENVALUE IN A SPIKED PCA MODEL.

We study improved approximations to the distribution of the largest eigenvalue of the sample covariance matrix of zero-mean Gaussian observations in dimension + 1. We assume that one population principal component has variance ℓ > 1 and the remaining 'noise' components have common variance 1. In the high-dimensional limit 0, we study Edgeworth corrections to the limiting Gaussian distribution of in the supercritical case .

PCA in High Dimensions: An orientation.

When the data are high dimensional, widely used multivariate statistical methods such as principal component analysis can behave in unexpected ways. In settings where the dimension of the observations is comparable to the sample size, upward bias in sample eigenvalues and inconsistency of sample eigenvectors are among the most notable phenomena that appear. These phenomena, and the limiting behavior of the rescaled extreme sample eigenvalues, have recently been investigated in detail under the spiked covariance model.

Optimal Shrinkage of Eigenvalues in the Spiked Covariance Model.

We show that in a common high-dimensional covariance model, the choice of loss function has a profound effect on optimal estimation. In an asymptotic framework based on the Spiked Covariance model and use of orthogonally invariant estimators, we show that optimal estimation of the population covariance matrix boils down to design of an optimal shrinker that acts elementwise on the sample eigenvalues. Indeed, to each loss function there corresponds a unique admissible eigenvalue shrinker * dominating all other shrinkers.

Tail sums of Wishart and Gaussian eigenvalues beyond the bulk edge.

Consider the classical Gaussian unitary ensemble of size and the real white Wishart ensemble with variables and degrees of freedom. In the limits of large and , with positive ratio in the Wishart case, the expected number of eigenvalues that exit the upper bulk edge is less than one, approaching 0.031 and 0.

Roy's largest root test under rank-one alternatives.

Roy's largest root is a common test statistic in multivariate analysis, statistical signal processing and allied fields. Despite its ubiquity, provision of accurate and tractable approximations to its distribution under the alternative has been a longstanding open problem. Assuming Gaussian observations and a rank-one alternative, or concentrated noncentrality, we derive simple yet accurate approximations for the most common low-dimensional settings.

EXACT MINIMAX ESTIMATION OF THE PREDICTIVE DENSITY IN SPARSE GAUSSIAN MODELS.

We consider estimating the predictive density under Kullback-Leibler loss in an sparse Gaussian sequence model. Explicit expressions of the first order minimax risk along with its exact constant, asymptotically least favorable priors and optimal predictive density estimates are derived. Compared to the sparse recovery results involving point estimation of the normal mean, new decision theoretic phenomena are seen.

Consequences of a screening programme on the prevalence of congenital hereditary sensorineural deafness in the Australian Cattle Dog.

Genetic disease testing programmes are used in domestic animal breeds to guide selective breeding with the aim of reducing disease prevalence. We assessed the change in the prevalence of canine congenital hereditary sensorineural deafness (CHSD) in litters of Australian Cattle Dogs following the introduction of a brainstem auditory evoked response (BAER) testing programme. We studied 608 pups from 122 litters from 10 breeding kennels.

Joint density of eigenvalues in spiked multivariate models.

The classical methods of multivariate analysis are based on the eigenvalues of one or two sample covariance matrices. In many applications of these methods, for example to high dimensional data, it is natural to consider alternative hypotheses which are a low rank departure from the null hypothesis. For rank one alternatives, this note provides a representation for the joint eigenvalue density in terms of a single contour integral.

MINIMAX BOUNDS FOR SPARSE PCA WITH NOISY HIGH-DIMENSIONAL DATA.

We study the problem of estimating the leading eigenvectors of a high-dimensional population covariance matrix based on independent Gaussian observations. We establish a lower bound on the minimax risk of estimators under the loss, in the joint limit as dimension and sample size increase to infinity, under various models of sparsity for the population eigenvectors. The lower bound on the risk points to the existence of different regimes of sparsity of the eigenvectors.

Innate immune response to homologous rotavirus infection in the small intestinal villous epithelium at single-cell resolution.

"Bulk" measurements of antiviral innate immune responses from pooled cells yield averaged signals and do not reveal underlying signaling heterogeneity in infected and bystander single cells. We examined such heterogeneity in the small intestine during rotavirus (RV) infection. Murine RV EW robustly activated type I IFNs and several antiviral genes (IFN-stimulated genes) in the intestine by bulk analysis, the source of induced IFNs primarily being hematopoietic cells.

Prevalence of congenital hereditary sensorineural deafness in Australian Cattle Dogs and associations with coat characteristics and sex.

Background: Congenital hereditary sensorineural deafness (CHSD) occurs in many dog breeds, including Australian Cattle Dogs. In some breeds, CHSD is associated with a lack of cochlear melanocytes in the stria vascularis, certain coat characteristics, and potentially, abnormalities in neuroepithelial pigment production. This study investigates phenotypic markers for CHSD in 899 Australian Cattle Dogs.

FAST APPROACH TO THE TRACY-WIDOM LAW AT THE EDGE OF GOE AND GUE.

We study the rate of convergence for the largest eigenvalue distributions in the Gaussian unitary and orthogonal ensembles to their Tracy-Widom limits. We show that one can achieve an () rate with particular choices of the centering and scaling constants. The arguments here also shed light on more complicated cases of Laguerre and Jacobi ensembles, in both unitary and orthogonal versions.

Normalization, testing, and false discovery rate estimation for RNA-sequencing data.

We discuss the identification of genes that are associated with an outcome in RNA sequencing and other sequence-based comparative genomic experiments. RNA-sequencing data take the form of counts, so models based on the Gaussian distribution are unsuitable. Moreover, normalization is challenging because different sequencing experiments may generate quite different total numbers of reads.

The use of vascular access ports for blood collection in feline blood donors.

We investigated vascular access ports for feline blood donation. Eight cats were anesthetized for conventional blood collection by jugular venipuncture at the beginning and end of the study. In-between conventional collections, vascular access ports were used for collection with or without sedation every 6 to 8 wk for 6 mo.

Ditch blocking, water chemistry and organic carbon flux: evidence that blanket bog restoration reduces erosion and fluvial carbon loss.

The potential for restoration of peatlands to deliver benefits beyond habitat restoration is poorly understood. There may be impacts on discharge water quality, peat erosion, flow rates and flood risk, and nutrient fluxes. This study aimed to assess the impact of drain blocking, as a form of peatland restoration, on an upland blanket bog, by measuring water chemistry and colour, and loss of both dissolved (DOC) and particulate organic carbon (POC).

Outcome of children requiring intensive care following haematopoietic SCT for primary immunodeficiency and other non-malignant disorders.

Haematopoietic SCT (HSCT) is curative for many children with primary immunodeficiencies or other non-malignant conditions. Outcome for those admitted to intensive care following HSCT for oncology diagnoses has historically been very poor. There is no literature available specifically regarding the outcome for children with primary immunodeficiency requiring intensive care following HSCT.

High dimensional Bernstein-von Mises: simple examples.

In Gaussian sequence models with Gaussian priors, we develop some simple examples to illustrate three perspectives on matching of posterior and frequentist probabilities when the dimension p increases with sample size n: (i) convergence of joint posterior distributions, (ii) behavior of a non-linear functional: squared error loss, and (iii) estimation of linear functionals. The three settings are progressively less demanding in terms of conditions needed for validity of the Bernstein-von Mises theorem.

Congenital sensorineural deafness in Australian stumpy-tail cattle dogs is an autosomal recessive trait that maps to CFA10.

Background: Congenital sensorineural deafness is an inherited condition found in many dog breeds, including Australian Stumpy-tail Cattle Dogs (ASCD). This deafness is evident in young pups and may affect one ear (unilateral) or both ears (bilateral). The genetic locus/loci involved is unknown for all dog breeds.