Modelling and analysis of planar cell polarity

Planar cell polarity (PCP) occurs in the epithelia of many animals and can lead to the alignment of hairs, bristles and feathers; physiologically, it can organise ciliary beating. Here we present two approaches to modelling this phenomenon. The aim is to discover the basic mechanisms that drive PCP, while keeping the models mathematically tractable. We present a feedback and diffusion model, in which adjacent cell sides of neighbouring cells are coupled by a negative feedback loop and diffusion acts within the cell. This approach can give rise to polarity, but also to period two patterns. Polarisation arises via an instability provided a sufficiently strong feedback and sufficiently weak diffusion. Moreover, we discuss a conservative model in which proteins within a cell are redistributed depending on the amount of proteins in the neighbouring cells, coupled with intracellular diffusion. In this case polarity can arise from weakly polarised initial conditions or via a wave provided the diffusion is weak enough. Both models can overcome small anomalies in the initial conditions. Furthermore, the range of the effects of groups of cells with different properties than the surrounding cells depends on the strength of the initial global cue and the intracellular diffusion

Automatic Sound Event Detection and Classification of Great Ape Calls Using Neural Networks

We present a novel approach to automatically detect and classify great ape calls from continuous raw audio recordings collected during field research. Our method leverages deep pretrained and sequential neural networks, including wav2vec 2.0 and LSTM, and is validated on three data sets from three different great ape lineages (orangutans, chimpanzees, and bonobos). The recordings were collected by different researchers and include different annotation schemes, which our pipeline preprocesses and trains in a uniform fashion. Our results for call detection and classification attain high accuracy. Our method is aimed to be generalizable to other animal species, and more generally, sound event detection tasks. To foster future research, we make our pipeline and methods publicly available.Comment: Accepted at ICPhS 2023 (Poster

Modelling and analysis of planar cell polarity

Planar cell polarity (PCP) occurs in the epithelia of many animals and can lead to the alignment of hairs, bristles and feathers; physiologically, it can organise ciliary beating. Here we present two approaches to modelling this phenomenon. The aim is to discover the basic mechanisms that drive PCP, while keeping the models mathematically tractable. We present a feedback and diffusion model, in which adjacent cell sides of neighbouring cells are coupled by a negative feedback loop and diffusion acts within the cell. This approach can give rise to polarity, but also to period two patterns. Polarisation arises via an instability provided a sufficiently strong feedback and sufficiently weak diffusion. Moreover, we discuss a conservative model in which proteins within a cell are redistributed depending on the amount of proteins in the neighbouring cells, coupled with intracellular diffusion. In this case polarity can arise from weakly polarised initial conditions or via a wave provided the diffusion is weak enough. Both models can overcome small anomalies in the initial conditions. Furthermore, the range of the effects of groups of cells with different properties than the surrounding cells depends on the strength of the initial global cue and the intracellular diffusion

Test of Information Theory on the Boltzmann Equation

We examine information theory using the steady-state Boltzmann equation. In a nonequilibrium steady-state system under steady heat conduction, the thermodynamic quantities from information theory are calculated and compared with those from the steady-state Boltzmann equation. We have found that information theory is inconsistent with the steady-state Boltzmann equation.Comment: 12 page

Kinetic Theory of a Dilute Gas System under Steady Heat Conduction

The velocity distribution function of the steady-state Boltzmann equation for hard-core molecules in the presence of a temperature gradient has been obtained explicitly to second order in density and the temperature gradient. Some thermodynamical quantities are calculated from the velocity distribution function for hard-core molecules and compared with those for Maxwell molecules and the steady-state Bhatnagar-Gross-Krook(BGK) equation. We have found qualitative differences between hard-core molecules and Maxwell molecules in the thermodynamical quantities, and also confirmed that the steady-state BGK equation belongs to the same universality class as Maxwell molecules.Comment: 36 pages, 4 figures, 5 table

Assessment of Gas-Surface Interaction Models for Computation of Rarefied Hypersonic Flow

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/76727/1/AIAA-36375-113.pd

Is a persistent global bias necessary for the establishment of planar cell polarity?

Planar cell polarity (PCP)–the coordinated polarisation of a whole field of cells within the plane of a tissue–relies on the interaction of three modules: a global module that couples individual cellular polarity to the tissue axis, a local module that aligns the axis of polarisation of neighbouring cells, and a readout module that directs the correct outgrowth of PCP-regulated structures such as hairs and bristles. While much is known about the molecular components that are required for PCP, the functional details of–and interactions between–the modules remain unclear. In this work, we perform a mathematical and computational analysis of two previously proposed computational models of the local module (Amonlirdviman et al., Science, 307, 2005; Le Garrec et al., Dev. Dyn., 235, 2006). Both models can reproduce wild-type and mutant phenotypes of PCP observed in the Drosophila wing under the assumption that a tissue-wide polarity cue from the global module persists throughout the development of PCP. We demonstrate that both models can also generate tissue-level PCP when provided with only a transient initial polarity cue. However, in these models such transient cues are not sufficient to ensure robustness of the resulting cellular polarisation

Modelling and analysis of planar cell polarity

Planar cell polarity (PCP) occurs in the epithelia of many animals and can lead to the alignment of hairs, bristles and feathers; physiologically, it can organise ciliary beating. Here we present two approaches to modelling this phenomenon. The aim is to discover the basic mechanisms that drive PCP, while keeping the models mathematically tractable. We present a feedback and diffusion model, in which adjacent cell sides of neighbouring cells are coupled by a negative feedback loop and diffusion acts within the cell. This approach can give rise to polarity, but also to period two patterns. Polarisation arises via an instability provided a sufficiently strong feedback and sufficiently weak diffusion. Moreover, we discuss a conservative model in which proteins within a cell are redistributed depending on the amount of proteins in the neighbouring cells, coupled with intracellular diffusion. In this case polarity can arise from weakly polarised initial conditions or via a wave provided the diffusion is weak enough. Both models can overcome small anomalies in the initial conditions. Furthermore, the range of the effects of groups of cells with different properties than the surrounding cells depends on the strength of the initial global cue and the intracellular diffusion