21 research outputs found

    Breaking free from the crystal lattice:Structural biology in solution to study protein degraders

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    Structural biology offers a versatile arsenal of techniques and methods to investigate the structure and conformational dynamics of proteins and their assemblies. The growing field of targeted protein degradation centres on the premise of developing small molecules, termed degraders, to induce proximity between an E3 ligase and a protein of interest to be signalled for degradation. This new drug modality brings with it new opportunities and challenges to structural biologists. Here we discuss how several structural biology techniques, including nuclear magnetic resonance, cryo-electron microscopy, structural mass spectrometry and small angle scattering, have been explored to complement X-ray crystallography in studying degraders and their ternary complexes. Together the studies covered in this review make a case for the invaluable perspectives that integrative structural biology techniques in solution can bring to understanding ternary complexes and designing degraders

    WDPM: the Wetland DEM Ponding Model

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    Canada First Research Excellence Fund’s Global Water Futures programme, Natural Sciences and Engineering Research Council of Canada’s Discovery Grants programme and by Agriculture and Agri-food CanadaPeer ReviewedThe hydrography of the Canadian Prairies and adjacent northern US Great Plains is unusual in that the landscape is flat and recently formed due to the effects of pleistocene glaciation and a semi-arid climate since holocene deglaciation. Therefore, there has not been sufficient energy, time, or runoff water to carve typical dendritic surface water drainage networks in many locations. In these regions, runoff is often detented and sometimes stored by the millions of depressions (known locally as “potholes” or “sloughs”) that cover the landscape. Conventional hydrological models are unable to simulate the spatial distribution of ponded water in prairie basins dominated by depressional storage. When the depressions are filled, the detented water may overflow to another depression, through a process known as “fill and spill” (Spence & Woo, 2003). Therefore, the fraction of a depression-dominated prairie basin that contributes flow to the outlet changes dynamically with the state of water storage within the basin. The WDPM simulates the spatial distribution of ponded water, as it is added, removed or drained, and can be used to calculate the changing connected/contributing fraction of a prairie basin

    Comyco: Quality-Aware Adaptive Video Streaming via Imitation Learning

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    Learning-based Adaptive Bit Rate~(ABR) method, aiming to learn outstanding strategies without any presumptions, has become one of the research hotspots for adaptive streaming. However, it typically suffers from several issues, i.e., low sample efficiency and lack of awareness of the video quality information. In this paper, we propose Comyco, a video quality-aware ABR approach that enormously improves the learning-based methods by tackling the above issues. Comyco trains the policy via imitating expert trajectories given by the instant solver, which can not only avoid redundant exploration but also make better use of the collected samples. Meanwhile, Comyco attempts to pick the chunk with higher perceptual video qualities rather than video bitrates. To achieve this, we construct Comyco's neural network architecture, video datasets and QoE metrics with video quality features. Using trace-driven and real-world experiments, we demonstrate significant improvements of Comyco's sample efficiency in comparison to prior work, with 1700x improvements in terms of the number of samples required and 16x improvements on training time required. Moreover, results illustrate that Comyco outperforms previously proposed methods, with the improvements on average QoE of 7.5% - 16.79%. Especially, Comyco also surpasses state-of-the-art approach Pensieve by 7.37% on average video quality under the same rebuffering time.Comment: ACM Multimedia 201

    Biomarkers for the diagnosis of venous thromboembolism: D-dimer, thrombin generation, procoagulant phospholipid and soluble P-selectin

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    Background The diagnostic algorithm for venous thromboembolism (VTE) currently involves a composite of pre-test probability, D-dimer and imaging. Other laboratory tests, however, may assist in the identification of patients with VTE. Aim To assess the accuracy of different coagulation tests (D-dimer, thrombin generation, phospholipid-dependent (PPL) clotting time, soluble P-selectin (sP-selectin)) as biomarkers of acute VTE. Methods Random samples arriving at the Coagulation Laboratory at Mater Dei Hospital (Msida, Malta) from the Accident and Emergency Department with a request for D-dimer measurement were collected between August 2015 and February 2016. The following tests were performed: Innovance D-dimer (Siemens Healthcare Diagnostics), HemosIL D-dimer HS (Instrumentation Laboratory), thrombin generation (using the calibrated automated thrombogram), STA Procoag PPL (Diagnostica Stago) and sP-selectin (Affymetrix; eBioscience). VTE was objectively confirmed by compression ultrasonography, CT pulmonary angiography or ventilation/perfusion lung scan. Results 100 samples were collected (33 with VTE). A strong positive linear correlation was found between the two D-dimer tests (r=0.97, p<0.001). Patients with VTE showed significantly higher sP-selectin concentrations compared with patients without VTE (75.7 ng/mL vs 53.0 ng/mL, p<0.001). In the random forest plot, the two D-dimer assays showed the highest variable importance, followed by sP-selectin. A sP-selectin cut-off of 74.8 ng/mL was associated with 72.7% sensitivity and 78.2% specificity for acute VTE in our cohort. Conclusion Our results confirmed D-dimer as the main biomarker of VTE and speculated a role for sP-selectin. The impact of thrombin generation was limited and no role emerged for the PPL clotting time. These observations need to be confirmed in large management studies

    Anthropometric and Physical Qualities of Elite Male Youth Rugby League Players

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    Rugby league is a collision team sport played at junior and senior levels worldwide, whereby players require highly developed anthropometric and physical qualities (i.e., speed, change of direction speed, aerobic capacity, muscular strength and power). Within junior levels, professional clubs and national governing bodies implement talent identification and development programmes to support the development of youth (i.e., 13-20 years) rugby league players into professional athletes. This review presents and critically appraises the anthropometric and physical qualities of elite male youth rugby league players aged between 13 and 20 years by age category, playing standard and playing position. Height, body mass, body composition, linear speed, change of direction speed, aerobic capacity, muscular strength and power characteristics are presented and demonstrate that qualities develop with age and differentiate between playing standard and playing position. This highlights the importance of anthropometric and physical qualities for the identification and development of youth rugby league players. However, factors such as maturity status, variability in development, longitudinal monitoring and career attainment should be considered to help understand, identify and develop the physical qualities of youth players. Further extensive research is required into the anthropometric and physical qualities of youth rugby league players, specifically considering national standardized testing batteries, links between physical qualities and match performance, together with intervention studies, to inform the physical development of youth rugby league players for talent identification and development purposes

    BOLA: Near-Optimal Bitrate Adaptation for Online Videos

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