Multiple Instance Choquet Integral for multiresolution sensor fusion

Imagine you are traveling to Columbia, MO for the first time. On your flight to Columbia, the woman sitting next to you recommended a bakery by a large park with a big yellow umbrella outside. After you land, you need directions to the hotel from the airport. Suppose you are driving a rental car, you will need to park your car at a parking lot or a parking structure. After a good night's sleep in the hotel, you may decide to go for a run in the morning on the closest trail and stop by that recommended bakery under a big yellow umbrella. It would be helpful in the course of completing all these tasks to accurately distinguish the proper car route and walking trail, find a parking lot, and pinpoint the yellow umbrella. Satellite imagery and other geo-tagged data such as Open Street Maps provide effective information for this goal. Open Street Maps can provide road information and suggest bakery within a five-mile radius. The yellow umbrella is a distinctive color and, perhaps, is made of a distinctive material that can be identified from a hyperspectral camera. Open Street Maps polygons are tagged with information such as "parking lot" and "sidewalk." All these information can and should be fused to help identify and offer better guidance on the tasks you are completing. Supervised learning methods generally require precise labels for each training data point. It is hard (and probably at an extra cost) to manually go through and label each pixel in the training imagery. GPS coordinates cannot always be fully trusted as a GPS device may only be accurate to the level of several pixels. In many cases, it is practically infeasible to obtain accurate pixel-level training labels to perform fusion for all the imagery and maps available. Besides, the training data may come in a variety of data types, such as imagery or as a 3D point cloud. The imagery may have different resolutions, scales and, even, coordinate systems. Previous fusion methods are generally only limited to data mapped to the same pixel grid, with accurate labels. Furthermore, most fusion methods are restricted to only two sources, even if certain methods, such as pan-sharpening, can deal with different geo-spatial types or data of different resolution. It is, therefore, necessary and important, to come up with a way to perform fusion on multiple sources of imagery and map data, possibly with different resolutions and of different geo-spatial types with consideration of uncertain labels. I propose a Multiple Instance Choquet Integral framework for multi-resolution multisensor fusion with uncertain training labels. The Multiple Instance Choquet Integral (MICI) framework addresses uncertain training labels and performs both classification and regression. Three classifier fusion models, i.e. the noisy-or, min-max, and generalized-mean models, are derived under MICI. The Multi-Resolution Multiple Instance Choquet Integral (MR-MICI) framework is built upon the MICI framework and further addresses multiresolution in the fusion sources in addition to the uncertainty in training labels. For both MICI and MR-MICI, a monotonic normalized fuzzy measure is learned to be used with the Choquet integral to perform two-class classifier fusion given bag-level training labels. An optimization scheme based on the evolutionary algorithm is used to optimize the models proposed. For regression problems where the desired prediction is real-valued, the primary instance assumption is adopted. The algorithms are applied to target detection, regression and scene understanding applications. Experiments are conducted on the fusion of remote sensing data (hyperspectral and LiDAR) over the campus of University of Southern Mississippi - Gulfpark. Clothpanel sub-pixel and super-pixel targets were placed on campus with varying levels of occlusion and the proposed algorithms can successfully detect the targets in the scene. A semi-supervised approach is developed to automatically generate training labels based on data from Google Maps, Google Earth and Open Street Map. Based on such training labels with uncertainty, the proposed algorithms can also identify materials on campus for scene understanding, such as road, buildings, sidewalks, etc. In addition, the algorithms are used for weed detection and real-valued crop yield prediction experiments based on remote sensing data that can provide information for agricultural applications.Includes biblographical reference

Unraveling the intricacies of spatial organization of the ErbB receptors and downstream signaling pathways

Faced with the complexity of diseases such as cancer which has 1012 mutations, altering gene expression, and disrupting regulatory networks, there has been a paradigm shift in the biological sciences and what has emerged is a much more quantitative field of biology. Mathematical modeling can aid in biological discovery with the development of predictive models that provide future direction for experimentalist. In this work, I have contributed to the development of novel computational approaches which explore mechanisms of receptor aggregation and predict the effects of downstream signaling. The coupled spatial non-spatial simulation algorithm, CSNSA is a tool that I took part in developing, which implements a spatial kinetic Monte Carlo for capturing receptor interactions on the cell membrane with Gillespies stochastic simulation algorithm, SSA, for temporal cytosolic interactions. Using this framework we determine that receptor clustering significantly enhances downstream signaling. In the next study the goal was to understand mechanisms of clustering. Cytoskeletal interactions with mobile proteins are known to hinder diffusion. Using a Monte Carlo approach we simulate these interactions, determining at what cytoskeletal distribution and receptor concentration optimal clustering occurs and when it is inhibited. We investigate oligomerization induced trapping to determine mechanisms of clustering, and our results show that the cytoskeletal interactions lead to receptor clustering. After exploring the mechanisms of clustering we determine how receptor aggregation effects downstream signaling. We further proceed by implementing the adaptively coarse grained Monte Carlo, ACGMC to determine if \u27receptor-sharing\u27 occurs when receptors are clustered. In our proposed \u27receptor-sharing\u27 mechanism a cytosolic species binds with a receptor then disassociates and rebinds a neighboring receptor. We tested our hypothesis using a novel computational approach, the ACGMC, an algorithm which enables the spatial temporal evolution of the system in three dimensions by using a coarse graining approach. In this framework we are modeling EGFR reaction-diffusion events on the plasma membrane while capturing the spatial-temporal dynamics of proteins in the cytosol. From this framework we observe \u27receptor-sharing\u27 which may be an important mechanism in the regulation and overall efficiency of signal transduction. In summary, I have helped to develop predictive computational tools that take systems biology in a new direction.\u2

A comparison of the CAR and DAGAR spatial random effects models with an application to diabetics rate estimation in Belgium

When hierarchically modelling an epidemiological phenomenon on a finite collection of sites in space, one must always take a latent spatial effect into account in order to capture the correlation structure that links the phenomenon to the territory. In this work, we compare two autoregressive spatial models that can be used for this purpose: the classical CAR model and the more recent DAGAR model. Differently from the former, the latter has a desirable property: its ρ parameter can be naturally interpreted as the average neighbor pair correlation and, in addition, this parameter can be directly estimated when the effect is modelled using a DAGAR rather than a CAR structure. As an application, we model the diabetics rate in Belgium in 2014 and show the adequacy of these models in predicting the response variable when no covariates are available

A Statistical Approach to the Alignment of fMRI Data

Multi-subject functional Magnetic Resonance Image studies are critical. The anatomical and functional structure varies across subjects, so the image alignment is necessary. We define a probabilistic model to describe functional alignment. Imposing a prior distribution, as the matrix Fisher Von Mises distribution, of the orthogonal transformation parameter, the anatomical information is embedded in the estimation of the parameters, i.e., penalizing the combination of spatially distant voxels. Real applications show an improvement in the classification and interpretability of the results compared to various functional alignment methods

Computer aided classification of histopathological damage in images of haematoxylin and eosin stained human skin

EngD ThesisExcised human skin can be used as a model to assess the potency, immunogenicity and contact sensitivity of potential therapeutics or cosmetics via the assessment of histological damage. The current method of assessing the damage uses traditional manual histological assessment, which is inherently subjective, time consuming and prone to intra-observer variability. Computer aided analysis has the potential to address issues surrounding traditional histological techniques through the application of quantitative analysis. This thesis describes the development of a computer aided process to assess the immune-mediated structural breakdown of human skin tissue. Research presented includes assessment and optimisation of image acquisition methodologies, development of an image processing and segmentation algorithm, identification and extraction of a novel set of descriptive image features and the evaluation of a selected subset of these features in a classification model. A new segmentation method is presented to identify epidermis tissue from skin with varying degrees of histopathological damage. Combining enhanced colour information with general image intensity information, the fully automated methodology segments the epidermis with a mean specificity of 97.7%, a mean sensitivity of 89.4% and a mean accuracy of 96.5% and segments effectively for different severities of tissue damage. A set of 140 feature measurements containing information about the tissue changes associated with different grades of histopathological skin damage were identified and a wrapper algorithm employed to select a subset of the extracted features, evaluating feature subsets based their prediction error for an independent test set in a Naïve Bayes Classifier. The final classification algorithm classified a 169 image set with an accuracy of 94.1%, of these images 20 were an unseen validation set for which the accuracy was 85.0%. The final classification method has a comparable accuracy to the existing manual method, improved repeatability and reproducibility and does not require an experienced histopathologist

Choquet Integral Algorithm for T-cell Epitope Prediction Based on Fuzzy Measure.

[[abstract]]"Epitope is an antigen segment which is recognized by the immune system specifically and induces immune response. To accurately predict epitopes is essential in vaccine design that is one goal of immunoinformatics. In this study, we consider the coupling effects of physicochemical properties in an amino acid with fuzzy theory to improve the prediction accuracy.

Front-Line Physicians' Satisfaction with Information Systems in Hospitals

Day-to-day operations management in hospital units is difficult due to continuously varying situations, several actors involved and a vast number of information systems in use. The aim of this study was to describe front-line physicians' satisfaction with existing information systems needed to support the day-to-day operations management in hospitals. A cross-sectional survey was used and data chosen with stratified random sampling were collected in nine hospitals. Data were analyzed with descriptive and inferential statistical methods. The response rate was 65 % (n = 111). The physicians reported that information systems support their decision making to some extent, but they do not improve access to information nor are they tailored for physicians. The respondents also reported that they need to use several information systems to support decision making and that they would prefer one information system to access important information. Improved information access would better support physicians' decision making and has the potential to improve the quality of decisions and speed up the decision making process.Peer reviewe