Longitudinal Voxel-based morphometry with unified segmentation: evaluation on simulated Alzheimer’s disease

The goal of this work is to evaluate Voxel-Based Morphometry and three longitudinally-tailored methods of VBM.We use a cohort of simulated images produced by deforming original scans using a Finite Element Method, guided to emulate Alzheimer-like changes. The simulated images provide quite realistic data with a known pattern of spatial atrophy, with which VBM’s findings can be meaningfully compared. We believe this is the first evaluation of VBM for which anatomically-plausible ‘gold-standard’ results are available. The three longitudinal VBM methods have been implemented within the unified segmentation framework of SPM5; one of the techniques is a newly developed procedure, which shows promising potential

Evaluation of local and global atrophy measurement techniques with simulated Alzheimer's disease data

The main goal of this work was to evaluate several well-known methods which provide global (BSI and SIENA) or local (Jacobian integration) estimates of atrophy in brain structures using Magnetic Resonance images. For that purpose, we have generated realistic simulated Alzheimer's disease images in which volume changes are modelled with a Finite Element thermoelastic model, which mimic the patterns of change obtained from a cohort of 19 real controls and 27 probable Alzheimer's disease patients. SIENA and BSI results correlate very well with gold standard data (BSI mean absolute error <0.29%; SIENA <0.44%). Jacobian integration was guided by both fluid and FFD-based registration techniques and resulting deformation fields and associated Jacobians were compared, region by region, with gold standard ones. The FFD registration technique provided more satisfactory results than the fluid one. Mean absolute error differences between volume changes given by the FFD-based technique and the gold standard were: sulcal CSF <2.49%; lateral ventricles 2.25%; brain <0.36%; hippocampi <0.42%

Phenomenological model of diffuse global and regional atrophy using finite-element methods

The main goal of this work is the generation of ground-truth data for the validation of atrophy measurement techniques, commonly used in the study of neurodegenerative diseases such as dementia. Several techniques have been used to measure atrophy in cross-sectional and longitudinal studies, but it is extremely difficult to compare their performance since they have been applied to different patient populations. Furthermore, assessment of performance based on phantom measurements or simple scaled images overestimates these techniques' ability to capture the complexity of neurodegeneration of the human brain. We propose a method for atrophy simulation in structural magnetic resonance (MR) images based on finite-element methods. The method produces cohorts of brain images with known change that is physically and clinically plausible, providing data for objective evaluation of atrophy measurement techniques. Atrophy is simulated in different tissue compartments or in different neuroanatomical structures with a phenomenological model. This model of diffuse global and regional atrophy is based on volumetric measurements such as the brain or the hippocampus, from patients with known disease and guided by clinical knowledge of the relative pathological involvement of regions and tissues. The consequent biomechanical readjustment of structures is modelled using conventional physics-based techniques based on biomechanical tissue properties and simulating plausible tissue deformations with finite-element methods. A thermoelastic model of tissue deformation is employed, controlling the rate of progression of atrophy by means of a set of thermal coefficients, each one corresponding to a different type of tissue. Tissue characterization is performed by means of the meshing of a labelled brain atlas, creating a reference volumetric mesh that will be introduced to a finite-element solver to create the simulated deformations. Preliminary work on the simulation of acquisition artefa- - cts is also presented. Cross-sectional and

High Pressure Thermoelasticity of Body-centered Cubic Tantalum

We have investigated the thermoelasticity of body-centered cubic (bcc) tantalum from first principles by using the linearized augmented plane wave (LAPW) and mixed--basis pseudopotential methods for pressures up to 400 GPa and temperatures up to 10000 K. Electronic excitation contributions to the free energy were included from the band structures, and phonon contributions were included using the particle-in-a-cell (PIC) model. The computed elastic constants agree well with available ultrasonic and diamond anvil cell data at low pressures, and shock data at high pressures. The shear modulus $c_{44}$ and the anisotropy change behavior with increasing pressure around 150 GPa because of an electronic topological transition. We find that the main contribution of temperature to the elastic constants is from the thermal expansivity. The PIC model in conjunction with fast self-consistent techniques is shown to be a tractable approach to studying thermoelasticity.Comment: To be appear in Physical Review

The size of the proton - closing in on the radius puzzle

We analyze the recent electron-proton scattering data from Mainz using a dispersive framework that respects the constraints from analyticity and unitarity on the nucleon structure. We also perform a continued fraction analysis of these data. We find a small electric proton charge radius, r_E^p = 0.84_{-0.01}^{+0.01} fm, consistent with the recent determination from muonic hydrogen measurements and earlier dispersive analyses. We also extract the proton magnetic radius, r_M^p = 0.86_{-0.03}^{+0.02} fm, consistent with earlier determinations based on dispersion relations.Comment: 4 pages, 2 figures, fit improved, small modifications, section on continued fractions modified, conclusions on the proton charge radius unchanged, version accepted for publication in European Physical Journal

Crystal chemistry search of multiferroics with the stereochemically active lone pair

On the basis of our previous studies of magnetoelectric ordering of BiFeO3, TbMnO3, TbMn2O5 and BiMn2O5 we formulate the crystal chemistry criteria for the search of multiferroics and reveal potential multiferroics Pb2Cu(OH)4Cl2, Pb5Cr3F19, Mn(SeO3){\dot}H2O and BiPbSr2MnO6 each containing the ion with a lone pair.Comment: 4 pages, 8 figures,submitted to J Supercond Nov Mag

A mean-field kinetic lattice gas model of electrochemical cells

We develop Electrochemical Mean-Field Kinetic Equations (EMFKE) to simulate electrochemical cells. We start from a microscopic lattice-gas model with charged particles, and build mean-field kinetic equations following the lines of earlier work for neutral particles. We include the Poisson equation to account for the influence of the electric field on ion migration, and oxido-reduction processes on the electrode surfaces to allow for growth and dissolution. We confirm the viability of our approach by simulating (i) the electrochemical equilibrium at flat electrodes, which displays the correct charged double-layer, (ii) the growth kinetics of one-dimensional electrochemical cells during growth and dissolution, and (iii) electrochemical dendrites in two dimensions.Comment: 14 pages twocolumn, 17 figure

Observations and modeling of wave-supported sediment gravity flows on the Po prodelta and comparison to prior observations from the Eel shelf

Author Posting. © The Authors, 2006. This is the author's version of the work. It is posted here by permission of Elsevier B.V. for personal use, not for redistribution. The definitive version was published in Continental Shelf Research 27 (2007): 375-399, doi:10.1016/j.csr.2005.07.008.A mooring and tripod array was deployed from the fall of 2002 through the spring of 2003 on the Po prodelta to measure sediment transport processes associated with sediment delivered from the Po River. Observations on the prodelta revealed wave-supported gravity flows of high concentration mud suspensions that are dynamically and kinematically similar to those observed on the Eel shelf (Traykovski et al., 2000). Due to the dynamic similarity between the two sites, a simple one-dimensional across-shelf model with the appropriate bottom boundary condition was used to examine fluxes associated with this transport mechanism at both locations. To calculate the sediment concentrations associated with the wave-dominated and wave-current resuspension, a bottom boundary condition using a reference concentration was combined with an “active layer” formulation to limit the amount of sediment in suspension. Whereas the wave-supported gravity flow mechanism dominates the transport on the Eel shelf, on the Po prodelta flux due to this mechanism is equal in magnitude to transport due to wave resuspension and wind-forced mean currents in cross-shore direction. Southward transport due to wave resuspension and wind forced mean currents move an order of magnitude more sediment along-shore than the downslope flux associated wave-supported gravity flows.This work funded by the U.S. Office of Naval Research under grant number #N00014-02-10378, under the direction of program manager, Tom Drake

Stream food web response to a salmon carcass analogue addition in two central Idaho, U.S.A. streams

Pacific salmon and steelhead once contributed large amounts of marine-derived carbon, nitrogen and phosphorus to freshwater ecosystems in the Pacific Northwest of the United States of America (California, Oregon, Washington and Idaho). Declines in historically abundant anadromous salmonid populations represent a significant loss of returning nutrients across a large spatial scale. Recently, a manufactured salmon carcass analogue was developed and tested as a safe and effective method of delivering nutrients to freshwater and linked riparian ecosystems where marine-derived nutrients have been reduced or eliminated.We compared four streams: two reference and two treatment streams using salmon carcass analogue(s) (SCA) as a treatment. Response variables measured included: surface streamwater chemistry; nutrient limitation status; carbon and nitrogen stable isotopes; periphyton chlorophyll a and ash-free dry mass (AFDM); macroinvertebrate density and biomass; and leaf litter decomposition rates. Within each stream, upstream reference and downstream treatment reaches were sampled 1 year before, during, and 1 year after the addition of SCA.Periphyton chlorophyll a and AFDM and macroinvertebrate biomass were significantly higher in stream reaches treated with SCA. Enriched stable isotope (δ15N) signatures were observed in periphyton and macroinvertebrate samples collected from treatment reaches in both treatment streams, indicating trophic transfer from SCA to consumers. Densities of Ephemerellidae, Elmidae and Brachycentridae were significantly higher in treatment reaches. Macroinvertebrate community composition and structure, as measured by taxonomic richness and diversity, did not appear to respond significantly to SCA treatment. Leaf breakdown rates were variable among treatment streams: significantly higher in one stream treatment reach but not the other. Salmon carcass analogue treatments had no detectable effect on measured water chemistry variables.Our results suggest that SCA addition successfully increased periphyton and macroinvertebrate biomass with no detectable response in streamwater nutrient concentrations. Correspondingly, no change in nutrient limitation status was detected based on dissolved inorganic nitrogen to soluble reactive phosphorus ratios (DIN/SRP) and nutrient-diffusing substrata experiments. Salmon carcass analogues appear to increase freshwater productivity.Salmon carcass analogues represent a pathogen-free nutrient enhancement tool that mimics natural trophic transfer pathways, can be manufactured using recycled fish products, and is easily transported; however, salmon carcass analogues should not be viewed as a replacement for naturally spawning salmon and the important ecological processes they provide