Synchronous stimulation in the rubber hand illusion task boosts the subsequent sense of ownership on the vicarious agency task

The relationship between sense of agency and sense of ownership remains unclear. Here we investigated this relationship by manipulating ownership using the rubber hand illusion and assessing the resulting impact on self-experiences during the vicarious agency illusion. We tested whether modulating ownership towards another limb using the rubber hand illusion would subsequently influence the illusory experience of ownership and agency towards a similar-looking limb in the vicarious agency task. Crucially, the vicarious agency measures both sense of agency and sense of ownership at the same time, while removing the confounding influence of motor signals. Our results replicated the well-established effects of both paradigms. We also found that manipulating the sense of ownership with the rubber hand illusion influenced the subsequent vicarious experience of ownership but not the vicarious experience of agency. This supports the idea that sense of agency and sense of ownership are, at least partially, independent experiences

Modelling polarity-driven laminar patterns in bilayer tissues with mixed signalling mechanisms

Recent advances in high-resolution experimental methods have highlighted the significance of cell signal pathway crosstalk and localised signalling activity in the development and disease of numerous biological systems. The investigation of multiple signal pathways often introduces different methods of cell-cell communication, i.e. contact-based or diffusive signalling, which generates both a spatial and temporal dependence on cell behaviours. Motivated by cellular mechanisms that control cell-fate decisions in developing bilayer tissues, we use dynamical systems coupled with multilayer graphs to analyse the role of signalling polarity and pathway crosstalk in fine-grain pattern formation of protein activity. Specifically, we study how multilayer graph edge structures and weights influence the layer-wise (laminar) patterning of cells in bilayer structures, which are commonly found in glandular tissues. We present sufficient conditions for existence, uniqueness and instability of homogeneous cell states in the large-scale spatially discrete dynamical system. Using methods of pattern templating by graph partitioning to generate quotient systems in combination with concepts from monotone dynamical systems, we exploit the extensive dimensionality reduction to provide existence conditions for the polarity required to induce fine-grain laminar patterns with multiple spatially dependent intracellular components. We then explore the spectral links between the quotient and large-scale dynamical systems to extend the laminar patterning criteria from existence to convergence for sufficiently large amounts of cellular polarity in the large-scale dynamical system, independent of spatial dimension and number of cells in the tissue

Lattice four-dimensional N=4 SYM is practical

We show that nonperturbative lattice studies of four-dimensional N=4 Super-Yang-Mills are within reach. We use Ginsparg-Wilson fermions to avoid gluino masses and an exact implementation of the (chiral) $R$-symmetry, which greatly limits the number of counterterms that must be fine-tuned. Only bosonic operators require fine tuning, so all tunings can be done ``offline'' by a Ferrenberg-Swendsen type reweighting. We show what measurables can be used to perform the tuning.Comment: 4 page

Harnessing cross-species alignment to discover SNPs and generate a draft genome sequence of a bighorn sheep (Ovis canadensis)

Background: Whole genome sequences (WGS) have proliferated as sequencing technology continues to improve and costs decline. While many WGS of model or domestic organisms have been produced, a growing number of non-model species are also being sequenced. In the absence of a reference, construction of a genome sequence necessitates de novo assembly which may be beyond the ability of many labs due to the large volumes of raw sequence data and extensive bioinformatics required. In contrast, the presence of a reference WGS allows for alignment which is more tractable than assembly. Recent work has highlighted that the reference need not come from the same species, potentially enabling a wide array of species WGS to be constructed using cross-species alignment. Here we report on the creation a draft WGS from a single bighorn sheep (Ovis canadensis) using alignment to the closely related domestic sheep (Ovis aries). Results: Two sequencing libraries on SOLiD platforms yielded over 865 million reads, and combined alignment to the domestic sheep reference resulted in a nearly complete sequence (95% coverage of the reference) at an average of 12x read depth (104 SD). From this we discovered over 15 million variants and annotated them relative to the domestic sheep reference. We then conducted an enrichment analysis of those SNPs showing fixed differences between the reference and sequenced individual and found significant differences in a number of gene ontology (GO) terms, including those associated with reproduction, muscle properties, and bone deposition. Conclusion: Our results demonstrate that cross-species alignment enables the creation of novel WGS for non-model organisms. The bighorn sheep WGS will provide a resource for future resequencing studies or comparative genomics

3D N = 1 SYM Chern-Simons theory on the Lattice

We present a method to implement 3-dimensional N = 1 SUSY Yang-Mills theory (a theory with two real supercharges containing gauge fields and an adjoint Majorana fermion) on the lattice, including a way to implement the Chern-Simons term present in this theory. At nonzero Chern-Simons number our implementation suffers from a sign problem which will make the numerical effort grow exponentially with volume. We also show that the theory with vanishing Chern-Simons number is anomalous; its partition function identically vanishes.Comment: v2, minor changes: expanded discussion in section III c, typos corrected, 17 pages, 9 figure

Three Dimensional N=2 Supersymmetry on the Lattice

We show how 3-dimensional, N=2 supersymmetric theories, including super QCD with matter fields, can be put on the lattice with existing techniques, in a way which will recover supersymmetry in the small lattice spacing limit. Residual supersymmetry breaking effects are suppressed in the small lattice spacing limit by at least one power of the lattice spacing a.Comment: 21 pages, 2 figures, typo corrected, reference adde

Further development of spinal cord retreatment dose estimation: including radiotherapy with protons and light ions

Purpose A graphical user interface (GUI) was developed to aid in the assessment of changes in the radiation tolerance of spinal cord/similar central nervous system tissues with time between two individual treatment courses. Methods The GUI allows any combination of photons, protons (or ions) to be used as the initial, or retreatment, radiotherapy courses. Allowances for clinical circumstances, of reduced tolerance, can also be made. The radiobiological model was published previously and has been incorporated with additional checks and safety features, to be as safe to use as possible. The proton option includes use of a fixed RBE of 1.1 (set as the default), or a variable RBE, the latter depending on the proton linear energy transfer (LET) for organs at risk. This second LET-based approach can also be used for ions, by changing the LET parameters. Results GUI screenshots are used to show the input and output parameters for different clinical situations used in worked examples. The results from the GUI are in agreement with manual calculations, but the results are now rapidly available without tedious and error-prone manual computations. The software outputs provide a maximum dose limit boundary, which should not be exceeded. Clinicians may also choose to further lower the number of treatment fractions, whilst using the same dose per fraction (or conversely a lower dose per fraction but with the same number of fractions) in order to achieve the intended clinical benefit as safely as possible. Conclusions The new GUI will allow scientific-based estimations of time related radiation tolerance changes in the spinal cord and similar central nervous tissues (optic chiasm, brainstem), which can be used to guide the choice of retreatment dose fractionation schedules, with either photons, protons or ions

Modelling polarity-driven laminar patterns in bilayer tissues with mixed signalling mechanisms

Recent advances in high-resolution experimental methods have highlighted the significance of cell signal pathway crosstalk and localised signalling activity in the development and disease of numerous biological systems. The investigation of multiple signal pathways often introduces different methods of cell-cell communication, i.e. contact-based or diffusive signalling, which generates both a spatial and temporal dependence on cell behaviours. Motivated by cellular mechanisms that control cell-fate decisions in developing bilayer tissues, we use dynamical systems coupled with multilayer graphs to analyse the role of signalling polarity and pathway crosstalk in fine-grain pattern formation of protein activity. Specifically, we study how multilayer graph edge structures and weights influence the layer-wise (laminar) patterning of cells in bilayer structures, which are commonly found in glandular tissues. We present sufficient conditions for existence, uniqueness and instability of homogeneous cell states in the large-scale spatially discrete dynamical system. Using methods of pattern templating by graph partitioning to generate quotient systems, in combination with concepts from monotone dynamical systems, we exploit the extensive dimensionality reduction to provide existence conditions for the polarity required to induce fine-grain laminar patterns with multiple spatially dependent intracellular components. We then explore the spectral links between the quotient and large-scale dynamical systems to extend the laminar patterning criteria from existence to convergence for sufficiently large amounts of cellular polarity in the large-scale dynamical system, independent of spatial dimension and number of cells in the tissue

A general computational framework for COVID-19 modelling with applications to testing varied interventions in education environments

We construct a spatially-compartmental, individual-based model of the spread of SARS-CoV-2 in indoor spaces. The model can be used to predict the infection rates in a variety of locations when various non-pharmaceutical interventions (NPIs) are introduced. Tasked by the Welsh Government, we apply the model to secondary schools and to Further and Higher Education environments. Specifically, we consider student populations mixing in a classroom and in halls of residence. We focus on assessing the potential efficacy of Lateral Flow Devices (LFDs) when used in broad-based screens for asymptomatic infection or in ‘test-to-release’ scenarios in which individuals who have been exposed to infection are released from isolation after a negative LFD result. LFDs are also compared to other NPIs; we find that, although LFD testing can be used to mitigate the spread of SARS-CoV-2, it is more effective to invest in personal protective equipment, e.g., masks, and in increasing ventilation quality. In addition, we provide an open-access and user-friendly online applet that simulates the model, complete with user tutorials to encourage the use of the model to aid educational policy decisions as input infection data becomes available