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High Resolution sections of eMouseAtlas Models: EMA21, Theiler Stage 12 TS12(8 dpc)
No full textHigh resolution images of each section used for the Mouse Atlas 3D models. Images are sub-sampled for the 3D models to provide approximately iso-tropic voxel dimensions, here the images are at the full resolution of the original digitisation
Photogrammetry model of Jurassic fossil nurse log
No full textPhotogrammetry model of Jurassic fossil nurse log.
A ca. 150-million-year-old nurse log was discovered and described from the Jurassic of Scotland, using classic palaeobotanical techniques and microscopy. The wood was collected along the foreshore north east of Helmsdale (58°07'15.8"N 3°37'48.6"W).
We interpret our new finding within the evolution of conifers with a literature review of fossil nurse logs, fungal and arthropod evolution.
The method to create the photogrammetry model was as follows: Images of thin sections examined at the University of Edinburgh were taken using a Keyence VHX-7000N. The HDR Function of the Keyence VHX-7000N was used to maximise image quality. Macro scale features of the nurse log were taken under cross-polarised light with a Canon EOS 5D Mark IV camera and EF 100mm f/2.8L Macro IS USM lens. This camera and lens set up was also used to capture the 3D structure of the nurse log using photogrammetry. Photographs were taken of the specimen placed on a Genie mini II turntable from Syrp Lab within a 16”x16” Neewer Studio Box lightbox. A scaled model and renders were created using AgiSoft Metashape Professional (64-bit).>Nurse log rotation0001-0250.mkv
A video showing the 3D structure of the fossil nurse log
>Nurse log with texture.glb
A 3D object file of the fossil nurse log
High Resolution sections of eMouseAtlas Models: EMA145, Theiler Stage 12 TS12(cultured) - Head
No full textHigh resolution images of each section used for the Mouse Atlas 3D models. Images are sub-sampled for the 3D models to provide approximately iso-tropic voxel dimensions, here the images are at the full resolution of the original digitisation
Tackling chronic wasting disease in Europe - cervid samples for genetic analysis
No full textTissue samples representative of wild populations of roe and red deer in France and Germany were obtained with collaboration from stakeholders (e.g. hunting associations). Additional samples from other species (e.g. sika deer, fallow deer, moose) and other countries were also obtained. Genomic DNA was extracted from tissues and used to analyse sequence variation in the PRNP gene, to estimate genetic susceptibility of surveyed species/populations to the prion disease, chronic wasting disease (CWD). This dataset records tissue/DNA samples collected for this project, along with information about species, sex, location of sampled animals, with the aim of making the samples available on request to other scientists for further research. This research was made possible by funding from ICRAD, an ERA-NET co-funded under European Union’s Horizon 2020 research and innovation programme
(https://research-and-innovation.ec.europa.eu/funding/funding-opportunities/funding-programmes-and-open-calls/horizon-2020_en), under Grant Agreement n°862605
3D-printable phantoms for quantitative dynamic contrast-enhanced MRI
No full textThis dataset contains the experimental data and code required to reproduce results and figures in the article "3D-printable phantoms for quantitative dynamic contrast-enhanced MRI" (final published version).
Abstract
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Purpose:
A novel 3D-printed phantom design and methodology is proposed, addressing important requirements for technical validation, quality assurance and multi-site harmonisation of quantitative dynamic contrast-enhanced (DCE-) MRI measurements.
Methods:
Phantoms were produced by 3D-printing gels incorporating channels and pores as proxies for blood vessels and extravascular extracellular space, respectively. A flow circuit was designed to reproduce clinically relevant arterial input functions (AIF). Using nine gels with variable porosity and channel size we evaluated the effect of 3D-printing parameters on DCE-MRI parameters obtained using the extended Tofts (ET) model. Physical gel and fitted model parameters were correlated by multiple linear regression.
Results:
All phantoms generated realistic AIFs and tissue-like signal enhancement curves were accurately modelled by the ET model. As hypothesised, vp was positively associated with vchan (B = 0.86, p < 0.001) and showed a weaker, negative association with vpore (B = -0.18, p = 0.006); PS was positively associated with both vchan (B = 0.13 min-1, p < 0.001) and vpore (B = 0.051 min-1, p < 0.001). ve was positively associated with vpore (B = 0.90, p < 0.001) but not vchan. Fitted parameters were repeatable (coefficient of variation 2.1 - 3.2 %).
Conclusions:
Tailorable 3D printed porous gel phantoms generating tissue-mimicking DCE-MRI signals have the potential to support validation, quality assurance and multi-site harmonisation of quantitative DCE-MRI.Refer to readme.txt file
High Resolution sections of eMouseAtlas Models: EMA224, Theiler Stage 10 TS10(cultured)- Embryo
No full textHigh resolution images of each section used for the Mouse Atlas 3D models. Images are sub-sampled for the 3D models to provide approximately iso-tropic voxel dimensions, here the images are at the full resolution of the original digitisation
The cost of resetting discrete-time random walks
No full textThis submission contains 4 files (2 Julia programs, 1 Mathematica notebook and 1 .zip file) relevant to an upcoming publication, "The cost of resetting discrete-time random walks".
Julia Programs:
(i) Monte Carlo simulation to calculate the total cost distribution associated with resetting and jumps for a discrete-time random walker with stochastic resetting.
(ii) Numerical inverse Laplace transform algorithm based on "A Unified Framework for Numerically Inverting Laplace Transforms" by J. Abate and W. Whitt (INFORMS Journal on Computing, 2006). This is used to compare analytical results with Monte Carlo simulations.
Mathematica Notebook:
(i) The Mathematica notebook contains the derivation of the solution for the discrete-time random walker with a Laplace jump distribution and linear jump and resetting costs.
Simulation_data.zip file
(i) The .zip file includes simulation data, numerical inversion results, and a GNUplot script for visualization
Dataset for lift and trailing-edge deflection of passively morphing aerofoils
No full textThis dataset provides the results of the time-resolved force and trailing-edge deflection measurements for NACA0012 aerofoils undergoing periodic plunging motions. These experiments are conducted at the water channel facility at the University of Edinburgh. The aerofoil has a chord of c = 0.15 m and a span of 0.3 m. The flexible part of the aerofoil is made of glass-fibre composite, which has Young’s (tensile) modulus E = 1.86 GPa and density ρm = 2600 kg m^−3. The length of the flexible skin-section is 2/3 that of the chord. The trailing-edge surfaces have thickness b = 0.6 mm, giving a second moment of area of I = 5.4 × 10^−12 m^4. The reduced frequency is fixed at k = 0.2
Dataset for Impedance Spectroscopy of Hafnium Oxide: Memristive and Memcapacitive Switching with Annealing
No full textIn this study, we report binary resistive and capacitive switching in Hafnium oxide HfOx memristors. Given that annealed devices are widely recognised in the literature for exhibiting improved switching properties, we compared the behavior of as-deposited and annealed samples. Both devices exhibit pinched hysteresis with bipolar switching; however, annealed devices show significantly enhanced ON/OFF ratios for both resistive (1:100) and capacitive (1:3) states. The enhanced performance is attributed to post-deposition annealing at 400 °C, which induces monoclinic phase and hence results in a film that exhibits mixed amorphous and crystalline phase. To investigate the dynamic, frequency-dependent characteristics of these devices, we performed impedance spectroscopy analysis to get Bode and Nyquist plot. The Bode plot indicates that these devices function as tuneable low-pass filters, with as-deposited devices providing a bandwidth of 0.82 MHz and annealed devices exhibiting a significantly expanded bandwidth of 9.43 MHz. The Nyquist plots reveal the presence of a constant phase element (CPE) in both devices, with a stronger presence in annealed devices. The modeled parameters align well with experimental data within acceptable error margins. Additionally, LTspice simulations verify the model and the presence of non-ideal parameters. Our comprehensive study underscores the potential of HfOx memristors as reliable and tuneable memcapacitors, exhibiting improved performance for annealed devices
WeightGait Dataset
No full textHere we introduce the WeightGait dataset: a dataset developed for the purposes of facilitating vision-based gait assessment methodologies with more realistic conditions comparable to real world use. The motivation for this dataset is to create a testing environment for gait assessment algorithms that is closer to the realities of application. To accomplish this, unlike other similar datasets, we do two main things uniquely: We simulate overlapping abnormalities, for a total of 9 different combinations of abnormality detailed below. The background and equipment used are imperfect and noisy to simulate the similar hardship experienced when trying to install a gait monitor into someone's home. This means cheap recording equipment for scalability resulting in relatively low-frames per recording. It also means slight feet/head clipping at times, only a single camera view to detect depth and no curation to the background or the clothing/walking speed of the participants. The original 2D joint positions are estimated on the original videos using a lightweight implementation of the algorithm given in the paper 'HigherHRNet'