Prediction of progression in idiopathic pulmonary fibrosis using CT scans atbaseline: A quantum particle swarm optimization - Random forest approach

Idiopathic pulmonary fibrosis (IPF) is a fatal lung disease characterized by an unpredictable progressive declinein lung function. Natural history of IPF is unknown and the prediction of disease progression at the time ofdiagnosis is notoriously difficult. High resolution computed tomography (HRCT) has been used for the diagnosisof IPF, but not generally for monitoring purpose. The objective of this work is to develop a novel predictivemodel for the radiological progression pattern at voxel-wise level using only baseline HRCT scans. Mainly, thereare two challenges: (a) obtaining a data set of features for region of interest (ROI) on baseline HRCT scans andtheir follow-up status; and (b) simultaneously selecting important features from high-dimensional space, andoptimizing the prediction performance. We resolved the first challenge by implementing a study design andhaving an expert radiologist contour ROIs at baseline scans, depending on its progression status in follow-upvisits. For the second challenge, we integrated the feature selection with prediction by developing an algorithmusing a wrapper method that combines quantum particle swarm optimization to select a small number of featureswith random forest to classify early patterns of progression. We applied our proposed algorithm to analyzeanonymized HRCT images from 50 IPF subjects from a multi-center clinical trial. We showed that it yields aparsimonious model with 81.8% sensitivity, 82.2% specificity and an overall accuracy rate of 82.1% at the ROIlevel. These results are superior to other popular feature selections and classification methods, in that ourmethod produces higher accuracy in prediction of progression and more balanced sensitivity and specificity witha smaller number of selected features. Our work is the first approach to show that it is possible to use onlybaseline HRCT scans to predict progressive ROIs at 6 months to 1year follow-ups using artificial intelligence

Improving 6D Pose Estimation of Objects in Clutter via Physics-aware Monte Carlo Tree Search

This work proposes a process for efficiently searching over combinations of individual object 6D pose hypotheses in cluttered scenes, especially in cases involving occlusions and objects resting on each other. The initial set of candidate object poses is generated from state-of-the-art object detection and global point cloud registration techniques. The best-scored pose per object by using these techniques may not be accurate due to overlaps and occlusions. Nevertheless, experimental indications provided in this work show that object poses with lower ranks may be closer to the real poses than ones with high ranks according to registration techniques. This motivates a global optimization process for improving these poses by taking into account scene-level physical interactions between objects. It also implies that the Cartesian product of candidate poses for interacting objects must be searched so as to identify the best scene-level hypothesis. To perform the search efficiently, the candidate poses for each object are clustered so as to reduce their number but still keep a sufficient diversity. Then, searching over the combinations of candidate object poses is performed through a Monte Carlo Tree Search (MCTS) process that uses the similarity between the observed depth image of the scene and a rendering of the scene given the hypothesized pose as a score that guides the search procedure. MCTS handles in a principled way the tradeoff between fine-tuning the most promising poses and exploring new ones, by using the Upper Confidence Bound (UCB) technique. Experimental results indicate that this process is able to quickly identify in cluttered scenes physically-consistent object poses that are significantly closer to ground truth compared to poses found by point cloud registration methods.Comment: 8 pages, 4 figure

Metaheuristic design of feedforward neural networks: a review of two decades of research

Over the past two decades, the feedforward neural network (FNN) optimization has been a key interest among the researchers and practitioners of multiple disciplines. The FNN optimization is often viewed from the various perspectives: the optimization of weights, network architecture, activation nodes, learning parameters, learning environment, etc. Researchers adopted such different viewpoints mainly to improve the FNN's generalization ability. The gradient-descent algorithm such as backpropagation has been widely applied to optimize the FNNs. Its success is evident from the FNN's application to numerous real-world problems. However, due to the limitations of the gradient-based optimization methods, the metaheuristic algorithms including the evolutionary algorithms, swarm intelligence, etc., are still being widely explored by the researchers aiming to obtain generalized FNN for a given problem. This article attempts to summarize a broad spectrum of FNN optimization methodologies including conventional and metaheuristic approaches. This article also tries to connect various research directions emerged out of the FNN optimization practices, such as evolving neural network (NN), cooperative coevolution NN, complex-valued NN, deep learning, extreme learning machine, quantum NN, etc. Additionally, it provides interesting research challenges for future research to cope-up with the present information processing era

Elephant Search with Deep Learning for Microarray Data Analysis

Even though there is a plethora of research in Microarray gene expression data analysis, still, it poses challenges for researchers to effectively and efficiently analyze the large yet complex expression of genes. The feature (gene) selection method is of paramount importance for understanding the differences in biological and non-biological variation between samples. In order to address this problem, a novel elephant search (ES) based optimization is proposed to select best gene expressions from the large volume of microarray data. Further, a promising machine learning method is envisioned to leverage such high dimensional and complex microarray dataset for extracting hidden patterns inside to make a meaningful prediction and most accurate classification. In particular, stochastic gradient descent based Deep learning (DL) with softmax activation function is then used on the reduced features (genes) for better classification of different samples according to their gene expression levels. The experiments are carried out on nine most popular Cancer microarray gene selection datasets, obtained from UCI machine learning repository. The empirical results obtained by the proposed elephant search based deep learning (ESDL) approach are compared with most recent published article for its suitability in future Bioinformatics research.Comment: 12 pages, 5 Tabl

Artificial Immune Systems - Models, algorithms and applications

Copyright © 2010 Academic Research Publishing Agency.This article has been made available through the Brunel Open Access Publishing Fund.Artificial Immune Systems (AIS) are computational paradigms that belong to the computational intelligence family and are inspired by the biological immune system. During the past decade, they have attracted a lot of interest from researchers aiming to develop immune-based models and techniques to solve complex computational or engineering problems. This work presents a survey of existing AIS models and algorithms with a focus on the last five years.This article is available through the Brunel Open Access Publishing Fun

Accurate and automatic NOAA-AVHRR image navigation using a global contour matching approach

The problem of precise and automatic AVHRR image navigation is tractable in theory, but has proved to be somewhat difficult in practice. The authors' work has been motivated by the need for a fully automatic and operational navigation system capable of geo-referencing NOAA-AVHRR images with high accuracy and without operator supervision. The proposed method is based on the simultaneous use of an orbital model and a contour matching approach. This last process, relying on an affine transformation model, is used to correct the errors caused by inaccuracies in orbit modeling, nonzero value for the spacecraft's roll, pitch and yaw, errors due to inaccuracies in the satellite positioning and failures in the satellite internal clock. The automatic global contour matching process is summarized as follows: i) Estimation of the gradient energy map (edges) in the sensed image and detection of the cloudless (reliable) areas in this map. ii) Initialization of the affine model parameters by minimizing the Euclidean distance between the reference and sensed images objects. iii) Simultaneous optimization of all reference image contours on the sensed image by energy minimization in the domain of the global transformation parameters. The process is iterated in a hierarchical way, reducing the parameter searching space at each iteration. The proposed image navigation algorithm has proved to be capable of geo-referencing a satellite image within 1 pixel.Peer ReviewedPostprint (published version