Review: to be or not to be an identifiable model. Is this a relevant question in animal science modelling?

International audienceWhat is a good (useful) mathematical model in animal science? For models constructed for prediction purposes, the question of model adequacy (usefulness) has been traditionally tackled by statistical analysis applied to observed experimental data relative to model-predicted variables. However, little attention has been paid to analytic tools that exploit the mathematical properties of the model equations. For example, in the context of model calibration, before attempting a numerical estimation of the model parameters, we might want to know if we have any chance of success in estimating a unique best value of the model parameters from available measurements. This question of uniqueness is referred to as structural identifiability; a mathematical property that is defined on the sole basis of the model structure within a hypothetical ideal experiment determined by a setting of model inputs (stimuli) and observable variables (measurements). Structural identifiability analysis applied to dynamic models described by ordinary differential equations (ODE) is a common practice in control engineering and system identification. This analysis demands mathematical technicalities that are beyond the academic background of animal science, which might explain the lack of pervasiveness of identifiability analysis in animal science modelling. To fill this gap, in this paper we address the analysis of structural identifiability from a practitioner perspective by capitalizing on the use of dedicated software tools. Our objectives are (i) to provide a comprehensive explanation of the structural identifiability notion for the community of animal science modelling, (ii) to assess the relevance of identifiability analysis in animal science modelling and (iii) to motivate the community to use identifiability analysis in the modelling practice (when the identifiability question is relevant). We focus our study on ODE models. By using illustrative examples that include published mathematical models describing lactation in cattle, we show how structural identifiability analysis can contribute to advancing mathematical modelling in animal science towards the production of useful models and highly informative experiments. Rather than attempting to impose a systematic identifiability analysis to the modelling community during model developments, we wish to open a window towards the discovery of a powerful tool for model construction and experiment design

A mathematical model for breath gas analysis of volatile organic compounds with special emphasis on acetone

Recommended standardized procedures for determining exhaled lower respiratory nitric oxide and nasal nitric oxide have been developed by task forces of the European Respiratory Society and the American Thoracic Society. These recommendations have paved the way for the measurement of nitric oxide to become a diagnostic tool for specific clinical applications. It would be desirable to develop similar guidelines for the sampling of other trace gases in exhaled breath, especially volatile organic compounds (VOCs) which reflect ongoing metabolism. The concentrations of water-soluble, blood-borne substances in exhaled breath are influenced by: (i) breathing patterns affecting gas exchange in the conducting airways; (ii) the concentrations in the tracheo-bronchial lining fluid; (iii) the alveolar and systemic concentrations of the compound. The classical Farhi equation takes only the alveolar concentrations into account. Real-time measurements of acetone in end-tidal breath under an ergometer challenge show characteristics which cannot be explained within the Farhi setting. Here we develop a compartment model that reliably captures these profiles and is capable of relating breath to the systemic concentrations of acetone. By comparison with experimental data it is inferred that the major part of variability in breath acetone concentrations (e.g., in response to moderate exercise or altered breathing patterns) can be attributed to airway gas exchange, with minimal changes of the underlying blood and tissue concentrations. Moreover, it is deduced that measured end-tidal breath concentrations of acetone determined during resting conditions and free breathing will be rather poor indicators for endogenous levels. Particularly, the current formulation includes the classical Farhi and the Scheid series inhomogeneity model as special limiting cases.Comment: 38 page

Markerless deformation capture of hoverfly wings using multiple calibrated cameras

This thesis introduces an algorithm for the automated deformation capture of hoverfly wings from multiple camera image sequences. The algorithm is capable of extracting dense surface measurements, without the aid of fiducial markers, over an arbitrary number of wingbeats of hovering flight and requires limited manual initialisation. A novel motion prediction method, called the ‘normalised stroke model’, makes use of the similarity of adjacent wing strokes to predict wing keypoint locations, which are then iteratively refined in a stereo image registration procedure. Outlier removal, wing fitting and further refinement using independently reconstructed boundary points complete the algorithm. It was tested on two hovering data sets, as well as a challenging flight manoeuvre. By comparing the 3-d positions of keypoints extracted from these surfaces with those resulting from manual identification, the accuracy of the algorithm is shown to approach that of a fully manual approach. In particular, half of the algorithm-extracted keypoints were within 0.17mm of manually identified keypoints, approximately equal to the error of the manual identification process. This algorithm is unique among purely image based flapping flight studies in the level of automation it achieves, and its generality would make it applicable to wing tracking of other insects

Cognitive Principles in Robust Multimodal Interpretation

Multimodal conversational interfaces provide a natural means for users to communicate with computer systems through multiple modalities such as speech and gesture. To build effective multimodal interfaces, automated interpretation of user multimodal inputs is important. Inspired by the previous investigation on cognitive status in multimodal human machine interaction, we have developed a greedy algorithm for interpreting user referring expressions (i.e., multimodal reference resolution). This algorithm incorporates the cognitive principles of Conversational Implicature and Givenness Hierarchy and applies constraints from various sources (e.g., temporal, semantic, and contextual) to resolve references. Our empirical results have shown the advantage of this algorithm in efficiently resolving a variety of user references. Because of its simplicity and generality, this approach has the potential to improve the robustness of multimodal input interpretation

Operational progression of digital soil assessment for agricultural growth in Tasmania, Australia

Tasmania, Australia, is currently undergoing a period of agricultural expansion through the development of new irrigation schemes across the State, primarily to stimulate the economy and ensure future food security. ‘Operational Progression of Digital Soil Assessment (DSA) for Agricultural Growth in Tasmania, Australia’ presents the adaptation and operationalisation of quantitative approaches for regional land evaluation within these schemes, specifically applied Digital Soil Mapping (DSM) to inform a land suitability evaluation for 20 different agricultural crops, and ultimately a spatial indication of the State’s agricultural versatility and capital. DSM had not previously been applied or tested in Tasmania; the research examines and validates DSM approaches with respect to the State’s unique and complex soils and biophysical interactions with climate and terrain, and how these apply to various agricultural land uses. The thesis is a major contribution to the methodology and development of one of the first major operational DSA programs in Australia, and forms a framework for this type of DSM approach to be used in future operational land evaluation elsewhere

NASA/MSFC FY88 Global Scale Atmospheric Processes Research Program Review

Interest in environmental issues and the magnitude of the environmental changes continues. One way to gain more understanding of the atmosphere is to make measurements on a global scale from space. The Earth Observation System is a series of new sensors to measure globally atmospheric parameters. Analysis of satellite data by developing algorithms to interpret the radiance information improves the understanding and also defines requirements for these sensors. One measure of knowledge of the atmosphere lies in the ability to predict its behavior. Use of numerical and experimental models provides a better understanding of these processes. These efforts are described in the context of satellite data analysis and fundamental studies of atmospheric dynamics which examine selected processes important to the global circulation