Multi-Layered Paper-Based Microfluidic Platform For Point-Of-Care Male Fertility Test

Archival abstract submitte

A Lens-Calibrated Active Marker Metrology System

This paper presents a prototypical marker tracking system, MT, which is capable of recording multiple mobile robot trajectories in parallel for offline analysis. The system is also capable of providing trajectory data in realtime to agents (such as robots in an arena) and implements several multi-agent operators to simplify agent-based perception. The latter characteristic provides an ability to minimise the normally expensive process of implementing agent-centric perceptual mechanisms and provides a means for multiagent "global knowledge" (Parker 1993)

Beam instrumentation for the Tevatron Collider

The Tevatron in Collider Run II (2001-present) is operating with six times more bunches and many times higher beam intensities and luminosities than in Run I (1992-1995). Beam diagnostics were crucial for the machine start-up and the never-ending luminosity upgrade campaign. We present the overall picture of the Tevatron diagnostics development for Run II, outline machine needs for new instrumentation, present several notable examples that led to Tevatron performance improvements, and discuss the lessons for future colliders

Reconstruction of implanted marker trajectories from cone-beam CT projection images using interdimensional correlation modeling

PURPOSE: Cone-beam CT (CBCT) is a widely used imaging modality for image-guided radiotherapy. Most vendors provide CBCT systems that are mounted on a linac gantry. Thus, CBCT can be used to estimate the actual 3-dimensional (3D) position of moving respiratory targets in the thoracic/abdominal region using 2D projection images. The authors have developed a method for estimating the 3D trajectory of respiratory-induced target motion from CBCT projection images using interdimensional correlation modeling. METHODS: Because the superior-inferior (SI) motion of a target can be easily analyzed on projection images of a gantry-mounted CBCT system, the authors investigated the interdimensional correlation of the SI motion with left-right and anterior-posterior (AP) movements while the gantry is rotating. A simple linear model and a state-augmented model were implemented and applied to the interdimensional correlation analysis, and their performance was compared. The parameters of the interdimensional correlation models were determined by least-square estimation of the 2D error between the actual and estimated projected target position. The method was validated using 160 3D tumor trajectories from 46 thoracic/abdominal cancer patients obtained during CyberKnife treatment. The authors' simulations assumed two application scenarios: (1) retrospective estimation for the purpose of moving tumor setup used just after volumetric matching with CBCT; and (2) on-the-fly estimation for the purpose of real-time target position estimation during gating or tracking delivery, either for full-rotation volumetric-modulated arc therapy (VMAT) in 60 s or a stationary six-field intensity-modulated radiation therapy (IMRT) with a beam delivery time of 20 s. RESULTS: For the retrospective CBCT simulations, the mean 3D root-mean-square error (RMSE) for all 4893 trajectory segments was 0.41 mm (simple linear model) and 0.35 mm (state-augmented model). In the on-the-fly simulations, prior projections over more than 60° appear to be necessary for reliable estimations. The mean 3D RMSE during beam delivery after the simple linear model had established with a prior 90° projection data was 0.42 mm for VMAT and 0.45 mm for IMRT. CONCLUSIONS: The proposed method does not require any internal/external correlation or statistical modeling to estimate the target trajectory and can be used for both retrospective image-guided radiotherapy with CBCT projection images and real-time target position monitoring for respiratory gating or tracking.NHMRC, National Research Foundation of Kore

An image-based data-driven analysis of cellular architecture in a developing tissue

Quantitative microscopy is becoming increasingly crucial in efforts to disentangle the complexity of organogenesis, yet adoption of the potent new toolbox provided by modern data science has been slow, primarily because it is often not directly applicable to developmental imaging data. We tackle this issue with a newly developed algorithm that uses point cloud-based morphometry to unpack the rich information encoded in 3D image data into a straightforward numerical representation. This enabled us to employ data science tools, including machine learning, to analyze and integrate cell morphology, intracellular organization, gene expression and annotated contextual knowledge. We apply these techniques to construct and explore a quantitative atlas of cellular architecture for the zebrafish posterior lateral line primordium, an experimentally tractable model of complex self-organized organogenesis. In doing so, we are able to retrieve both previously established and novel biologically relevant patterns, demonstrating the potential of our data-driven approach

VIOLA - A multi-purpose and web-based visualization tool for neuronal-network simulation output

Neuronal network models and corresponding computer simulations are invaluable tools to aid the interpretation of the relationship between neuron properties, connectivity and measured activity in cortical tissue. Spatiotemporal patterns of activity propagating across the cortical surface as observed experimentally can for example be described by neuronal network models with layered geometry and distance-dependent connectivity. The interpretation of the resulting stream of multi-modal and multi-dimensional simulation data calls for integrating interactive visualization steps into existing simulation-analysis workflows. Here, we present a set of interactive visualization concepts called views for the visual analysis of activity data in topological network models, and a corresponding reference implementation VIOLA (VIsualization Of Layer Activity). The software is a lightweight, open-source, web-based and platform-independent application combining and adapting modern interactive visualization paradigms, such as coordinated multiple views, for massively parallel neurophysiological data. For a use-case demonstration we consider spiking activity data of a two-population, layered point-neuron network model subject to a spatially confined excitation originating from an external population. With the multiple coordinated views, an explorative and qualitative assessment of the spatiotemporal features of neuronal activity can be performed upfront of a detailed quantitative data analysis of specific aspects of the data. Furthermore, ongoing efforts including the European Human Brain Project aim at providing online user portals for integrated model development, simulation, analysis and provenance tracking, wherein interactive visual analysis tools are one component. Browser-compatible, web-technology based solutions are therefore required. Within this scope, with VIOLA we provide a first prototype.Comment: 38 pages, 10 figures, 3 table

Valoración de la calidad de imágenes panorámicas esféricas

[EN] In recent years, the production of panoramic images has been boosted by the increasing use of digital photographiccameras and mobile phones. However, for highly demanding applications such as long-range deformation monitoring, theaccuracy and quality control of panoramic images and processes used to obtain accurate 3D models should be properlyassessed. Therefore, prior to being applied in real projects, the quality of the spherical panoramic images generated bythree widely used computer programs (Agisoft Metashape, GigaPan Stitch and PTGui) is evaluated using the same imagesof a photogrammetric laboratory full of control points and an outdoor environment by shooting from several stations. Inaddition to the assessment of the geometrical accuracy, the study also includes important aspects for practical efficiencysuch as workflow, speed of processing, user-friendliness, or exporting products and formats available. The results of thecomparisons show that Agisoft Metashape meets the required geometric specifications with higher quality and has clearadvantages in performance if compared to the other two tested programs.[ES] En los últimos años, la producción de imágenes panorámicas se ha visto impulsada por el uso cada vez mayor de cámaras fotográficas digitales y teléfonos móviles. Sin embargo, deben evaluarse adecuadamente en aplicaciones altamente exigentes como la monitorización de deformaciones a grandes distancias, la precisión y el control de calidad de las imágenes panorámicas y los procesos utilizados para obtener modelos 3D precisos. Por consiguiente, antes de ser aplicadas en proyectos reales, se evalúa la calidad de las imágenes panorámicas esféricas generadas por tres programas informáticos ampliamente utilizados (Agisoft Metashape, GigaPan Stitch y PTGui) utilizando las mismas imágenes de un laboratorio fotogramétrico lleno de puntos de apoyo y del exterior desde varias estaciones. Además de la evaluación de la precisión geométrica, el estudio también incluye aspectos importantes para la eficiencia práctica como es el flujo de trabajo, la velocidad de procesamiento, la facilidad de uso o la exportación de productos y los formatos disponibles. Los resultados de las comparaciones muestran que Agisoft Metashape cumple con las especificaciones geométricas requeridas con mayor calidad y tiene claras ventajas de rendimiento si se compara con los otros dos programas testeados.Javadi, P.; Lerma, J.; García-Asenjo, L.; Garrigues, P. (2021). Quality assessment of spherical panoramic images. En Proceedings 3rd Congress in Geomatics Engineering. Editorial Universitat Politècnica de València. 7-14. https://doi.org/10.4995/CiGeo2021.2021.12728OCS71

Neutrino emission characteristics of black hole formation in three-dimensional simulations of stellar collapse

Neutrinos are unique probes of core-collapse supernova dynamics, especially in the case of black hole (BH) forming stellar collapses, where the electromagnetic emission may be faint or absent. By investigating two 3D hydrodynamical simulations of BH-forming stellar collapses of mass 40 and 75 M_sun, we identify the physical processes preceding BH formation through neutrinos, and forecast the neutrino signal expected in the existing IceCube and Super-Kamiokande detectors, as well as in the future generation DUNE facility. Prior to the abrupt termination of the neutrino signal corresponding to BH formation, both models develop episodes of strong and long-lasting activity by the spiral standing accretion shock instability (SASI). We find that the spiral SASI peak in the Fourier power spectrum of the neutrino event rate will be distinguishable at 3 sigma above the detector noise for distances up to O(30) kpc in the most optimistic scenario, with IceCube having the highest sensitivity. Interestingly, given the long duration of the spiral SASI episodes, the spectrograms of the expected neutrino event rate carry clear signs of the evolution of the blue spiral SASI frequency as a function of time, as the shock radius and post-shock fluid velocity evolve. Due to the high accretion luminosity and its large-amplitude SASI-induced modulations, any contribution from asymmetric (dipolar or quadrupolar) neutrino emission associated with the lepton emission self-sustained asymmetry (LESA) is far subdominant in the neutrino signal.Comment: 25 pages, including 19 figures. Discussion on LESA expanded; conclusions unchanged. Matches version accepted for publication in Phys. Rev. D. Animated visualizations available at: https://wwwmpa.mpa-garching.mpg.de/ccsnarchive/data/Walk2019