1,590 research outputs found

    Construction of two whole genome radiation hybrid panels for dromedary (Camelus dromedarius): 5000RAD and 15000RAD

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    The availability of genomic resources including linkage information for camelids has been very limited. Here, we describe the construction of a set of two radiation hybrid (RH) panels (5000RAD and 15000RAD) for the dromedary (Camelus dromedarius) as a permanent genetic resource for camel genome researchers worldwide. For the 5000RAD panel, a total of 245 female camel-hamster radiation hybrid clones were collected, of which 186 were screened with 44 custom designed marker loci distributed throughout camel genome. The overall mean retention frequency (RF) of the final set of 93 hybrids was 47.7%. For the 15000RAD panel, 238 male dromedary-hamster radiation hybrid clones were collected, of which 93 were tested using 44 PCR markers. The final set of 90 clones had a mean RF of 39.9%. This 15000RAD panel is an important high-resolution complement to the main 5000RAD panel and an indispensable tool for resolving complex genomic regions. This valuable genetic resource of dromedary RH panels is expected to be instrumental for constructing a high resolution camel genome map. Construction of the set of RH panels is essential step toward chromosome level reference quality genome assembly that is critical for advancing camelid genomics and the development of custom genomic tools

    25^{25}O - Beyond the Neutron Dripline

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    Therapeutic subthalamic nucleus deep brain stimulation reverses cortico-thalamic coupling during voluntary movements in Parkinson's disease.

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    Deep brain stimulation of the subthalamic nucleus (STN DBS) has become an accepted treatment for patients experiencing the motor complications of Parkinson's disease (PD). While its successes are becoming increasingly apparent, the mechanisms underlying its action remain unclear. Multiple studies using radiotracer-based imaging have investigated DBS-induced regional changes in neural activity. However, little is known about the effect of DBS on connectivity within neural networks; in other words, whether DBS impacts upon functional integration of specialized regions of cortex. In this work, we report the first findings of fMRI in 10 subjects with PD and fully implanted DBS hardware receiving efficacious stimulation. Despite the technical demands associated with the safe acquisition of fMRI data from patients with implanted hardware, robust activation changes were identified in the insula cortex and thalamus in response to therapeutic STN DBS. We then quantified the neuromodulatory effects of DBS and compared sixteen dynamic causal models of effective connectivity between the two identified nodes. Using Bayesian model comparison, we found unequivocal evidence for the modulation of extrinsic (between region), i.e. cortico-thalamic and thalamo-cortical connections. Using Bayesian model parameter averaging we found that during voluntary movements, DBS reversed the effective connectivity between regions of the cortex and thalamus. This casts the therapeutic effects of DBS in a fundamentally new light, emphasising a role in changing distributed cortico-subcortical interactions. We conclude that STN DBS does impact upon the effective connectivity between the cortex and thalamus by changing their sensitivities to extrinsic afferents. Furthermore, we confirm that fMRI is both feasible and is tolerated well by these patients provided strict safety measures are adhered to

    Generalized Centrifugal Force Model for Pedestrian Dynamics

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    A spatially continuous force-based model for simulating pedestrian dynamics is introduced which includes an elliptical volume exclusion of pedestrians. We discuss the phenomena of oscillations and overlapping which occur for certain choices of the forces. The main intention of this work is the quantitative description of pedestrian movement in several geometries. Measurements of the fundamental diagram in narrow and wide corridors are performed. The results of the proposed model show good agreement with empirical data obtained in controlled experiments.Comment: 10 pages, 14 figures, accepted for publication as a Regular Article in Physical Review E. This version contains minor change

    Palynostratigraphy and Bayesian Age Stratigraphic Model of New CA-ID-TIMS Zircon Ages from the Walloon Coal Measures, Surat Basin, Australia

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    The Surat Basin hosts significant coal and coal seam gas resources. New high-precision CA-TIMS U/Pb zircon ages from tuffs and Bayesian age stratigraphic models are combined with palynology from fine-grained sedimentary rocks and zircon trace elements to provide further chronostratigraphic and biostratigraphic constrains on the Walloon Coal Measures in the eastern margin of the Surat Basin and infer the palaeoenvironment and tectonic setting. The tuff ages range from 165.88 ± 0.11 Ma to 158.84 ± 0.05 Ma, with those from the stratigraphically lower Taroom Coal Measures ranging from 165.88 ± 0.11 to 163.05 ± 0.08 Ma and Juandah Coal Measures ranging from 159.91 ± 0.04 to 158.84 ± 0.05 Ma. This corroborates that the lower part of the Walloon Coal Measures is Callovian and the upper part is Oxfordian. The palynology results from mudstones show that all samples are dominated by microfossils of spore-pollen with conifers being the most abundant. Our samples fall withinPrice’s (1997) stratigraphic zonation of APJ4.2 and APJ4.3. Posterior ages for palynology samples were estimated through Bayesian age stratigraphic modelling using stratigraphic depths and U-Pb zircon ages. The palaeoenvironment in the eastern portion of the basin is inferred to be predominantly fluvial, with spores and pollen derived from fresh water or terrestrial plants. Higher concentrations of green algae in one sample suggest that at times the water was somewhat stagnant. The zircons were derived from predominantly intermediate magmas, as indicated by the generally low Ti, Ta, and Nb values. The tectonic environment that the zircons were derived from was most likely a continental subduction zone due to their high U/Yb, low Nb/Yb and relatively low Hf concentrations. These new data support previous conclusions of the Surat Basin palaeoenvironment, contribute to the ongoing discussion about the tectonic setting of the basin and add new regional age marker horizons

    Structure and oxidation kinetics of the Si(100)-SiO2 interface

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    We present first-principles calculations of the structural and electronic properties of Si(001)-SiO2 interfaces. We first arrive at reasonable structures for the c-Si/a-SiO2 interface via a Monte-Carlo simulated annealing applied to an empirical interatomic potential, and then relax these structures using first-principles calculations within the framework of density-functional theory. We find a transition region at the interface, having a thickness on the order of 20\AA, in which there is some oxygen deficiency and a corresponding presence of sub-oxide Si species (mostly Si^+2 and Si^+3). Distributions of bond lengths and bond angles, and the nature of the electronic states at the interface, are investigated and discussed. The behavior of atomic oxygen in a-SiO2 is also investigated. The peroxyl linkage configuration is found to be lower in energy than interstitial or threefold configurations. Based on these results, we suggest a possible mechanism for oxygen diffusion in a-SiO2 that may be relevant to the oxidation process.Comment: 7 pages, two-column style with 6 postscript figures embedded. Uses REVTEX and epsf macros. Also available at http://www.physics.rutgers.edu/~dhv/preprints/index.html#ng_sio
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