Compressive Sensing DNA Microarrays

Compressive sensing microarrays (CSMs) are DNA-based sensors that operate using group testing and compressive sensing (CS) principles. In contrast to conventional DNA microarrays, in which each genetic sensor is designed to respond to a single target, in a CSM, each sensor responds to a set of targets. We study the problem of designing CSMs that simultaneously account for both the constraints from CS theory and the biochemistry of probe-target DNA hybridization. An appropriate cross-hybridization model is proposed for CSMs, and several methods are developed for probe design and CS signal recovery based on the new model. Lab experiments suggest that in order to achieve accurate hybridization profiling, consensus probe sequences are required to have sequence homology of at least 80% with all targets to be detected. Furthermore, out-of-equilibrium datasets are usually as accurate as those obtained from equilibrium conditions. Consequently, one can use CSMs in applications in which only short hybridization times are allowed

True colour retrieval from multiple illuminant scene’s image

This paper presents an algorithm to retrieve the true colour of an image captured under multiple illuminant. The proposed method uses a histogram analysis and K-means++ clustering technique to split the input image into a number of segments. It then determines normalised average absolute difference (NAAD) for each resulting segment’s colour component. If the NAAD of the segment’s component is greater than an empirically determined threshold. It assumes that the segment does not represent a uniform colour area, hence the segment’s colour component is selected to be used for image colour constancy adjustment. The initial colour balancing factor for each chosen segment’s component is calculated using the Minkowski norm based on the principal that the average values of image colour components are achromatic. It finally calculates colour constancy adjustment factors for each image pixel by fusing the initial colour constancy factors of the chosen segments weighted by the normalised Euclidian distances of the pixel from the centroids of the selected segments. Experimental results using benchmark single and multiple illuminant image datasets, show that the proposed method’s images subjectively exhibit highest colour constancy in the presence of multiple illuminant and also when image contains uniform colour areas

Color Constancy Adjustment using Sub-blocks of the Image

Extreme presence of the source light in digital images decreases the performance of many image processing algorithms, such as video analytics, object tracking and image segmentation. This paper presents a color constancy adjustment technique, which lessens the impact of large unvarying color areas of the image on the performance of the existing statistical based color correction algorithms. The proposed algorithm splits the input image into several non-overlapping blocks. It uses the Average Absolute Difference (AAD) value of each block’s color component as a measure to determine if the block has adequate color information to contribute to the color adjustment of the whole image. It is shown through experiments that by excluding the unvarying color areas of the image, the performances of the existing statistical-based color constancy methods are significantly improved. The experimental results of four benchmark image datasets validate that the proposed framework using Gray World, Max-RGB and Shades of Gray statistics-based methods’ images have significantly higher subjective and competitive objective color constancy than those of the existing and the state-of-the-art methods’ images

Predicting asthma attacks in primary care: protocol for developing a machine learning-based prediction model

INTRODUCTION: Asthma is a long-term condition with rapid onset worsening of symptoms ('attacks') which can be unpredictable and may prove fatal. Models predicting asthma attacks require high sensitivity to minimise mortality risk, and high specificity to avoid unnecessary prescribing of preventative medications that carry an associated risk of adverse events. We aim to create a risk score to predict asthma attacks in primary care using a statistical learning approach trained on routinely collected electronic health record data. // METHODS AND ANALYSIS: We will employ machine-learning classifiers (naïve Bayes, support vector machines, and random forests) to create an asthma attack risk prediction model, using the Asthma Learning Health System (ALHS) study patient registry comprising 500 000 individuals across 75 Scottish general practices, with linked longitudinal primary care prescribing records, primary care Read codes, accident and emergency records, hospital admissions and deaths. Models will be compared on a partition of the dataset reserved for validation, and the final model will be tested in both an unseen partition of the derivation dataset and an external dataset from the Seasonal Influenza Vaccination Effectiveness II (SIVE II) study. // ETHICS AND DISSEMINATION: Permissions for the ALHS project were obtained from the South East Scotland Research Ethics Committee 02 [16/SS/0130] and the Public Benefit and Privacy Panel for Health and Social Care (1516-0489). Permissions for the SIVE II project were obtained from the Privacy Advisory Committee (National Services NHS Scotland) [68/14] and the National Research Ethics Committee West Midlands-Edgbaston [15/WM/0035]. The subsequent research paper will be submitted for publication to a peer-reviewed journal and code scripts used for all components of the data cleaning, compiling, and analysis will be made available in the open source GitHub website (https://github.com/hollytibble)