92,344 research outputs found

    'BioNessie(G) - a grid enabled biochemical networks simulation environment

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    The simulation of biochemical networks provides insight and understanding about the underlying biochemical processes and pathways used by cells and organisms. BioNessie is a biochemical network simulator which has been developed at the University of Glasgow. This paper describes the simulator and focuses in particular on how it has been extended to benefit from a wide variety of high performance compute resources across the UK through Grid technologies to support larger scale simulations

    Hybrid Iterative Multiuser Detection for Channel Coded Space Division Multiple Access OFDM Systems

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    Space division multiple access (SDMA) aided orthogonal frequency division multiplexing (OFDM) systems assisted by efficient multiuser detection (MUD) techniques have recently attracted intensive research interests. The maximum likelihood detection (MLD) arrangement was found to attain the best performance, although this was achieved at the cost of a computational complexity, which increases exponentially both with the number of users and with the number of bits per symbol transmitted by higher order modulation schemes. By contrast, the minimum mean-square error (MMSE) SDMA-MUD exhibits a lower complexity at the cost of a performance loss. Forward error correction (FEC) schemes such as, for example, turbo trellis coded modulation (TTCM), may be efficiently combined with SDMA-OFDM systems for the sake of improving the achievable performance. Genetic algorithm (GA) based multiuser detection techniques have been shown to provide a good performance in MUD-aided code division multiple access (CDMA) systems. In this contribution, a GA-aided MMSE MUD is proposed for employment in a TTCM assisted SDMA-OFDM system, which is capable of achieving a similar performance to that attained by its optimum MLD-aided counterpart at a significantly lower complexity, especially at high user loads. Moreover, when the proposed biased Q-function based mutation (BQM) assisted iterative GA (IGA) MUD is employed, the GA-aided system’s performance can be further improved, for example, by reducing the bit error ratio (BER) measured at 3 dB by about five orders of magnitude in comparison to the TTCM assisted MMSE-SDMA-OFDM benchmarker system, while still maintaining modest complexity

    Effect of Statistical Fluctuation in Monte Carlo Based Photon Beam Dose Calculation on Gamma Index Evaluation

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    The gamma-index test has been commonly adopted to quantify the degree of agreement between a reference dose distribution and an evaluation dose distribution. Monte Carlo (MC) simulation has been widely used for the radiotherapy dose calculation for both clinical and research purposes. The goal of this work is to investigate both theoretically and experimentally the impact of the MC statistical fluctuation on the gamma-index test when the fluctuation exists in the reference, the evaluation, or both dose distributions. To the first order approximation, we theoretically demonstrated in a simplified model that the statistical fluctuation tends to overestimate gamma-index values when existing in the reference dose distribution and underestimate gamma-index values when existing in the evaluation dose distribution given the original gamma-index is relatively large for the statistical fluctuation. Our numerical experiments using clinical photon radiation therapy cases have shown that 1) when performing a gamma-index test between an MC reference dose and a non-MC evaluation dose, the average gamma-index is overestimated and the passing rate decreases with the increase of the noise level in the reference dose; 2) when performing a gamma-index test between a non-MC reference dose and an MC evaluation dose, the average gamma-index is underestimated when they are within the clinically relevant range and the passing rate increases with the increase of the noise level in the evaluation dose; 3) when performing a gamma-index test between an MC reference dose and an MC evaluation dose, the passing rate is overestimated due to the noise in the evaluation dose and underestimated due to the noise in the reference dose. We conclude that the gamma-index test should be used with caution when comparing dose distributions computed with Monte Carlo simulation
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