A note on the evaluation of a beta-casein variant in bovine breeds by allele-specific PCR and relevance to β-casomorphin

peer-reviewedThis work was supported by Enterprise Ireland and by a Teagasc Walsh fellowship to A.F. Keating.Two genetic variants of the bovine β-casein gene (A1 and B) encode a histidine residue at codon 67, resulting in potential liberation of a bioactive peptide, β-casomorphin, upon digestion. An allele-specific PCR (AS-PCR) was evaluated to distinguish between the β-casomorphin-releasing variants (A1 and B) and the non-releasing variants. AS-PCR successfully distinguished β-casein variants in 41 of 42 animals as confirmed by sequence analysis. Overall, while the incidence of the homozygous A1 and B animals (i.e., homozygous for the histidine residue; 21.4%) was lower than that for animals without the histidine residue (30.9% respectively), 69% of animals carried at least one allele for the histidine residue at codon 67.Teagasc Walsh Fellowship ProgrammeEnterprise Irelan

Establishment of guayule plants in a limed bark medium at low phosphate levels

Seedlings of guayule (Parthenium argentatum Gray) were successfully grown on a milled and composted pine bark medium. Liming and saturation of the medium was carried out for a 4-week period, prior to the addition of a VAM fungal inoculum and guayule seeds. This was done to permit an increase and stabilization of pH. Rock phosphate was incorporated into the medium at levels of 1.5, 3, 6 and 12mgdm−3, while other nutrients were provided by a modified Hoagland’s solution (lacking phosphate) with a nitrogen level of 70mgdm−3. Although poor seedling growth was recorded, it is suggested that seedlings may be pre-adapted to transplantation in a potentially hostile environment

Differentially Private Gaussian Processes

A major challenge for machine learning is increasing the availability of data while respecting the privacy of individuals. Here we combine the provable privacy guarantees of the Differential Privacy framework with the flexibility of Gaussian processes (GPs). We propose a method using GPs to provide Differentially Private (DP) regression. We then improve this method by crafting the DP noise covariance structure to efficiently protect the training data, while minimising the scale of the added noise. We find that, for the dataset used, this cloaking method achieves the greatest accuracy, while still providing privacy guarantees, and offers practical DP for regression over multi-dimensional inputs. Together these methods provide a starter toolkit for combining differential privacy and GPs

Differentially private regression and classification with sparse Gaussian processes

A continuing challenge for machine learning is providing methods to perform computation on data while ensuring the data remains private. In this paper we build on the provable privacy guarantees of differential privacy which has been combined with Gaussian processes through the previously published \emph{cloaking method}. In this paper we solve several shortcomings of this method, starting with the problem of predictions in regions with low data density. We experiment with the use of inducing points to provide a sparse approximation and show that these can provide robust differential privacy in outlier areas and at higher dimensions. We then look at classification, and modify the Laplace approximation approach to provide differentially private predictions. We then combine this with the sparse approximation and demonstrate the capability to perform classification in high dimensions. We finally explore the issue of hyperparameter selection and develop a method for their private selection. This paper and associated libraries provide a robust toolkit for combining differential privacy and GPs in a practical manner

Formal Derivation of Concurrent Garbage Collectors

Concurrent garbage collectors are notoriously difficult to implement correctly. Previous approaches to the issue of producing correct collectors have mainly been based on posit-and-prove verification or on the application of domain-specific templates and transformations. We show how to derive the upper reaches of a family of concurrent garbage collectors by refinement from a formal specification, emphasizing the application of domain-independent design theories and transformations. A key contribution is an extension to the classical lattice-theoretic fixpoint theorems to account for the dynamics of concurrent mutation and collection.Comment: 38 pages, 21 figures. The short version of this paper appeared in the Proceedings of MPC 201

Residual stress characterization of single and triple-pass autogenously welded stainless steel pipes

Using neutron diffraction the components of the residual stress field have been determined in the region near a mid-length groove in two identical austenitic stainless pipes in which weld beads had been laid down. One pipe sample had a single pass, and the second a triple pass, autogenous weld deposited around the groove circumference. The results show the effect on the stress field of the additional weld deposited and are compared to the results of Finite Element Modelling. The hoop stress component is found to be generally tensile, and greater in the triple pass weldment than in the single pass weldment. The hoop stresses reach peak values of around 400 MPa in tension. X-ray measurements of the residual stress components on the near inner surface of the pipe weldments are also presented, and show tensile stresses in both pipes, with a higher magnitude in the three-pass weldment

Limits on Cosmological Variation of Strong Interaction and Quark Masses from Big Bang Nucleosynthesis, Cosmic, Laboratory and Oklo Data

Recent data on cosmological variation of the electromagnetic fine structure constant from distant quasar (QSO) absorption spectra have inspired a more general discussion of possible variation of other constants. We discuss variation of strong scale and quark masses. We derive the limits on their relative change from (i) primordial Big-Bang Nucleosynthesis (BBN); (ii) Oklo natural nuclear reactor, (iii) quasar absorption spectra, and (iv) laboratory measurements of hyperfine intervals.Comment: 10 pages 2 figurs: second version have several references added and some new comment

Simulating radiation damage in Ga stabilised δ-Pu

Radiation events in Ga stablised δ-Pu are investigated by means of Molecular Dynamics simulations. Pu 5 at.% Ga is considered using the Modified Embedded Atom Method to govern the atomic interactions. Cascades were initiated with Primary Knock-on Atom (PKA) energies in the range of 0.4–10 keV, with trajectories deduced through comprehensive sampling of a representative set of directions, combined with different Ga atomic positions. The displacement threshold energy, Ed, for Pu and Ga atoms was also determined through similar extensive studies to aid the understanding and interpretation of the cascade results. Values of Ed between 5 and 40 eV were determined for Pu, with Ga PKAs requiring generally more energy to create a defect with Ed between 8 and 70 eV. Low energy collision cascades, initiated with energies in the range of 0.4–1 keV, show that the cascades form in a similar manner to other fcc metals with a vacancy rich zone surrounded by isolated interstitial defects. A feature of these cascades is that the displaced Ga atoms return to lattice sites during the ballistic phase, leading to a lack of Ga-type residual defects. Higher energy cascades show similar features but with the development of an amorphous region at the cascade core of around 5 nm diameter at 5 keV. Quantitatively, the residual number of defects found shows no distinct variation to that for previous work on pure Pu, suggesting the inclusion of Ga does not significantly effect the susceptibility or resistance of Pu to initial cascade development