343 research outputs found

    Optimisation of an exemplar oculomotor model using multi-objective genetic algorithms executed on a GPU-CPU combination.

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    BACKGROUND: Parameter optimisation is a critical step in the construction of computational biology models. In eye movement research, computational models are increasingly important to understanding the mechanistic basis of normal and abnormal behaviour. In this study, we considered an existing neurobiological model of fast eye movements (saccades), capable of generating realistic simulations of: (i) normal horizontal saccades; and (ii) infantile nystagmus - pathological ocular oscillations that can be subdivided into different waveform classes. By developing appropriate fitness functions, we optimised the model to existing experimental saccade and nystagmus data, using a well-established multi-objective genetic algorithm. This algorithm required the model to be numerically integrated for very large numbers of parameter combinations. To address this computational bottleneck, we implemented a master-slave parallelisation, in which the model integrations were distributed across the compute units of a GPU, under the control of a CPU. RESULTS: While previous nystagmus fitting has been based on reproducing qualitative waveform characteristics, our optimisation protocol enabled us to perform the first direct fits of a model to experimental recordings. The fits to normal eye movements showed that although saccades of different amplitudes can be accurately simulated by individual parameter sets, a single set capable of fitting all amplitudes simultaneously cannot be determined. The fits to nystagmus oscillations systematically identified the parameter regimes in which the model can reproduce a number of canonical nystagmus waveforms to a high accuracy, whilst also identifying some waveforms that the model cannot simulate. Using a GPU to perform the model integrations yielded a speedup of around 20 compared to a high-end CPU. CONCLUSIONS: The results of both optimisation problems enabled us to quantify the predictive capacity of the model, suggesting specific modifications that could expand its repertoire of simulated behaviours. In addition, the optimal parameter distributions we obtained were consistent with previous computational studies that had proposed the saccadic braking signal to be the origin of the instability preceding the development of infantile nystagmus oscillations. Finally, the master-slave parallelisation method we developed to accelerate the optimisation process can be readily adapted to fit other highly parametrised computational biology models to experimental data

    Environmental life cycle assessment of Mediterranean sea bass and sea bream

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    The aquaculture sector is the fastest growing food production industry, with sea bass and sea bream consisting important exporting goods in the Mediterranean region. This work presents results of a life cycle assessment of Mediterranean sea bass and sea bream, based on primary data collected from a Greek producer. The system boundary included fish feed production and the rearing operation, as well as the packaging and delivery processes, which were neglected in preceding literature studies. The life cycle inventory developed addressed previous data gaps in the production of Mediterranean aquaculture species. Comparison to preceding studies revealed differences on the production inventories and identified methodological choices leading to variability. Packaging and delivery processes were found to contribute approximately 40% towards the global warming score. The production of both sea bass and sea bream was shown to come with high eutrophication impacts occurring from the rearing stage. The feed production was identified as the most environmental impact intensive process throughout the life cycle. Sea bass came with lower environmental impacts per unit live mass, which was reversed when the species were compared on a protein basis. The replicable and transparent model presented here, contributes towards the more accurate quantification of the environmental impacts associated with Mediterranean aquaculture species and supports efforts aiming to promote environmental protection through dietary change

    Erratum to: 36th International Symposium on Intensive Care and Emergency Medicine

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    [This corrects the article DOI: 10.1186/s13054-016-1208-6.]

    A922 Sequential measurement of 1 hour creatinine clearance (1-CRCL) in critically ill patients at risk of acute kidney injury (AKI)

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    The Development of Inclusive Learning Relationships in Mainstream Settings: A Multimodal Perspective

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    The debate regarding the inclusion of children with Special Educational Needs and Disabilities (SEND) in mainstream education in the UK partly revolves around what makes the classroom environment inclusive. Through the potential offered by the specific qualitative methodologies employed, this study aimed to explore the development of teachers’ pedagogical practices and learning relationships upon the inclusive education of children with special educational needs and disabilities in two primary school classes. The study considered the views and behaviours of primary school pupils with and without special educational needs, primary school teachers and teaching assistants (TAs) in one mainstream school. Drawing on a multimodal approach to discourse analysis to account for the complex relationships between symbolic and non-verbal modes of classroom signification, the study explored how meaning is produced in classrooms and children’s modes of communication, as well as in teachers’ practices. The two classes are compared on the basis of teaching observations, interviews, transcripts of dialogues, and analyses of classroom organisation and decoration. This paper suggests that the greatest influence on the educational and social outcomes of students with special educational needs is the behaviour and practices of the classroom teacher
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