Embedding high-level quantum mechanical approaches within linear-scaling density functional theory

Advances in computational methods in recent decades have significantly expanded the range of problems in condensed matter physics that can be tackled from first principles. Linear-scaling density functional theory methods enable quantum mechanical calculations to be performed on systems containing tens of thousands of atoms, with modern approaches capable of reproducing the accuracy of plane wave DFT approaches. This opens up the possibility of treating highly complex molecular systems such as doped organic molecular crystals that require the dopant molecule to be contained within a large periodic structure. One example of such a system is pentacene in p-terphenyl, a system that finds use as a room-temperature maser. Understanding the maser mechanism requires both a highly accurate description of the pentacene molecule and a computationally efficient approach that can correctly capture the impact of the p-terphenyl host on the active pentacene subsystem. Quantum embedding allows an accurate but expensive hybrid functional to be embedded within a cheaper semi-local functional, for maximum combination of accuracy and efficiency in a DFT-in-DFT framework. In this dissertation we consider the implementation of embedded mean-field theory (EMFT) in the linear-scaling DFT software package ONETEP, enabling hybrid functionals to be used on selected subsystems within a cheaper DFT environment. This approach is validated for several types of molecular systems, including a crystalline structure containing several thousand atoms, demonstrating the potential of the EMFT approach when combined with linear-scaling and verifying the importance of using a large explicit host environment for accurate calculations.Open Acces

Impact of External Cue Validity on Driving Performance in Parkinson's Disease

This study sought to investigate the impact of external cue validity on simulated driving performance in 19 Parkinson's disease (PD) patients and 19 healthy age-matched controls. Braking points and distance between deceleration point and braking point were analysed for red traffic signals preceded either by Valid Cues (correctly predicting signal), Invalid Cues (incorrectly predicting signal), and No Cues. Results showed that PD drivers braked significantly later and travelled significantly further between deceleration and braking points compared with controls for Invalid and No-Cue conditions. No significant group differences were observed for driving performance in response to Valid Cues. The benefit of Valid Cues relative to Invalid Cues and No Cues was significantly greater for PD drivers compared with controls. Trail Making Test (B-A) scores correlated with driving performance for PDs only. These results highlight the importance of external cues and higher cognitive functioning for driving performance in mild to moderate PD

What's the risk? A comparison of actual and perceived driving risk

It has long been presumed that drivers’ perceptions of risk play an important role in guiding on-road behaviour. The answer to how accurately drivers perceive the momentary risk of a driving situation, however, is unknown. This research compared drivers’ perceptions of the momentary risk for a range of roads to the objective risk associated with those roads. Videos of rural roads, filmed from the drivers’ perspective, were presented to 69 participants seated in a driving simulator while they indicated the momentary levels of risk they were experiencing by moving a risk meter mounted on the steering wheel. Estimates of the objective levels of risk for the roads were calculated using road protection scores from the KiwiRAP database (part of the International Road Assessment Programme). Subsequently, the participants also provided risk estimates for still photos taken from the videos. Another group of 10 participants viewed the videos and photos while their eye movements and fixations were recorded. In a third experiment, 14 participants drove a subset of the roads in a car while providing risk ratings at selected points of interest. Results showed a high degree of consistency across the different methods. Certain road situations were rated as being riskier than the objective risk, and perhaps more importantly, the risk of other situations was significantly under-rated. Horizontal curves and narrow lanes were associated with over-rated risk estimates, while intersections and roadside hazards such as narrow road shoulders, power poles and ditches were significantly under-rated. Analysis of eye movements indicated that drivers did not fixate these features and that the spread of fixations, pupil size and eye blinks were significantly correlated with the risk ratings. An analysis of the road design elements at 77 locations in the video revealed five road characteristics that predicted nearly 80% of the variance in drivers’ risk perceptions; horizontal curvature, lane and shoulder width, gradient, and the presence of median barriers

Structure-Kinetic Profiling of Haloperidol Analogues at the Human Dopamine D2 Receptor

Haloperidol is a typical antipsychotic drug (APD) associated with an increased risk of extrapyramidal side-effects (EPS) and hyperprolactinemia relative to atypical APDs such as clozapine. Both drugs are dopamine D2 receptor (D2R) antagonists, with contrasting kinetic profiles. Haloperidol displays fast association/slow dissociation at the D2R whereas clozapine exhibits relatively slow association/fast dissociation. Recently, we have provided evidence that slow dissociation from the D2R predicts hyperprolactinemia, whereas fast association predicts EPS. Unfortunately, clozapine can cause severe side-effects independent of its D2R action. Our results suggest an optimal kinetic profile for D2R antagonist APDs that avoids EPS. To begin exploring this hypothesis, we conducted a structure-kinetic relationship study of haloperidol and reveal that subtle structural modifications dramatically change binding kinetic rate constants, affording compounds with a clozapine-like kinetic profile. Thus, optimisation of these kinetic parameters may allow development of novel APDs based on the haloperidol scaffold with improved side-effect profiles

Data Assimilation Enhancements to Air Force Weathers Land Information System

The United States Air Force (USAF) has a proud and storied tradition of enabling significant advancements in the area of characterizing and modeling land state information. 557th Weather Wing (557 WW; DoDs Executive Agent for Land Information) provides routine geospatial intelligence information to warfighters, planners, and decision makers at all echelons and services of the U.S. military, government and intelligence community. 557 WW and its predecessors have been home to the DoDs only operational regional and global land data analysis systems since January 1958. As a trusted partner since 2005, Air Force Weather (AFW) has relied on the Hydrological Sciences Laboratory at NASA/GSFC to lead the interagency scientific collaboration known as the Land Information System (LIS). LIS is an advanced software framework for high performance land surface modeling and data assimilation of geospatial intelligence (GEOINT) information

Uncoupling the structure–activity relationships of β2 adrenergic receptor ligands from membrane binding

Ligand binding to membrane proteins may be significantly influenced by the interaction of ligands with the membrane. In particular, the microscopic ligand concentration within the membrane surface solvation layer may exceed that in bulk solvent, resulting in overestimation of the intrinsic protein−ligand binding contribution to the apparent/measured affinity. Using published binding data for a set of small molecules with the β2 adrenergic receptor, we demonstrate that deconvolution of membrane and protein binding contributions allows for improved structure−activity relationship analysis and structure-based drug design. Molecular dynamics simulations of ligand bound membrane protein complexes were used to validate binding poses, allowing analysis of key interactions and binding site solvation to develop structure−activity relationships of β2 ligand binding. The resulting relationships are consistent with intrinsic binding affinity (corrected for membrane interaction). The successful structure-based design of ligands targeting membrane proteins may require an assessment of membrane affinity to uncouple protein binding from membrane interactions

The Demise of Islet Allotransplantation in the US: A Call for an Urgent Regulatory Update The ISLETS FOR US Collaborative

Islet allotransplantation in the United States (US) is facing an imminent demise. Despite nearly three decades of progress in the field, an archaic regulatory framework has stymied US clinical practice. Current regulations do not reflect the state-of-the-art in clinical or technical practices. In the US, islets are considered biologic drugs and more than minimally manipulated human cell and tissue products (HCT/Ps). Across the world, human islets are appropriately defined as minimally manipulated tissue which has led to islet transplantation becoming a standard-of-care procedure for patients with type 1 diabetes mellitus and problematic hypoglycemia. As a result of the outdated US regulations, only eleven patients underwent allo-ITx in the US between 2011-2016 and all in the setting of a clinical trial. Herein, we describe the current regulations pertaining to islet transplantation in the United States. We explore the progress which has been made in the field and demonstrate why the regulatory framework must be updated to both, better reflect our current clinical practice and to deal with upcoming challenges. We propose specific updates to current regulations which are required for the renaissance of ethical, safe, effective, and affordable allo-ITx in the United States

Measurement of the Hadronic Photon Structure Function F_2^gamma at LEP2

The hadronic structure function of the photon F_2^gamma is measured as a function of Bjorken x and of the factorisation scale Q^2 using data taken by the OPAL detector at LEP. Previous OPAL measurements of the x dependence of F_2^gamma are extended to an average Q^2 of 767 GeV^2. The Q^2 evolution of F_2^gamma is studied for average Q^2 between 11.9 and 1051 GeV^2. As predicted by QCD, the data show positive scaling violations in F_2^gamma. Several parameterisations of F_2^gamma are in agreement with the measurements whereas the quark-parton model prediction fails to describe the data.Comment: 4 pages, 2 figures, to appear in the proceedings of Photon 2001, Ascona, Switzerlan

Search for the Standard Model Higgs Boson with the OPAL Detector at LEP

This paper summarises the search for the Standard Model Higgs boson in e+e- collisions at centre-of-mass energies up to 209 GeV performed by the OPAL Collaboration at LEP. The consistency of the data with the background hypothesis and various Higgs boson mass hypotheses is examined. No indication of a signal is found in the data and a lower bound of 112.7GeV/C^2 is obtained on the mass of the Standard Model Higgs boson at the 95% CL.Comment: 51 pages, 21 figure

Search for R-Parity Violating Decays of Scalar Fermions at LEP

A search for pair-produced scalar fermions under the assumption that R-parity is not conserved has been performed using data collected with the OPAL detector at LEP. The data samples analysed correspond to an integrated luminosity of about 610 pb-1 collected at centre-of-mass energies of sqrt(s) 189-209 GeV. An important consequence of R-parity violation is that the lightest supersymmetric particle is expected to be unstable. Searches of R-parity violating decays of charged sleptons, sneutrinos and squarks have been performed under the assumptions that the lightest supersymmetric particle decays promptly and that only one of the R-parity violating couplings is dominant for each of the decay modes considered. Such processes would yield final states consisting of leptons, jets, or both with or without missing energy. No significant single-like excess of events has been observed with respect to the Standard Model expectations. Limits on the production cross- section of scalar fermions in R-parity violating scenarios are obtained. Constraints on the supersymmetric particle masses are also presented in an R-parity violating framework analogous to the Constrained Minimal Supersymmetric Standard Model.Comment: 51 pages, 24 figures, Submitted to Eur. Phys. J.