Accurate detection of dysmorphic nuclei using dynamic programming and supervised classification

A vast array of pathologies is typified by the presence of nuclei with an abnormal morphology. Dysmorphic nuclear phenotypes feature dramatic size changes or foldings, but also entail much subtler deviations such as nuclear protrusions called blebs. Due to their unpredictable size, shape and intensity, dysmorphic nuclei are often not accurately detected in standard image analysis routines. To enable accurate detection of dysmorphic nuclei in confocal and widefield fluorescence microscopy images, we have developed an automated segmentation algorithm, called Blebbed Nuclei Detector (BleND), which relies on two-pass thresholding for initial nuclear contour detection, and an optimal path finding algorithm, based on dynamic programming, for refining these contours. Using a robust error metric, we show that our method matches manual segmentation in terms of precision and outperforms state-of-the-art nuclear segmentation methods. Its high performance allowed for building and integrating a robust classifier that recognizes dysmorphic nuclei with an accuracy above 95%. The combined segmentation-classification routine is bound to facilitate nucleus-based diagnostics and enable real-time recognition of dysmorphic nuclei in intelligent microscopy workflows

Highly automatic quantification of myocardial oedema in patients with acute myocardial infarction using bright blood T2-weighted CMR

<p>Background: T2-weighted cardiovascular magnetic resonance (CMR) is clinically-useful for imaging the ischemic area-at-risk and amount of salvageable myocardium in patients with acute myocardial infarction (MI). However, to date, quantification of oedema is user-defined and potentially subjective.</p> <p>Methods: We describe a highly automatic framework for quantifying myocardial oedema from bright blood T2-weighted CMR in patients with acute MI. Our approach retains user input (i.e. clinical judgment) to confirm the presence of oedema on an image which is then subjected to an automatic analysis. The new method was tested on 25 consecutive acute MI patients who had a CMR within 48 hours of hospital admission. Left ventricular wall boundaries were delineated automatically by variational level set methods followed by automatic detection of myocardial oedema by fitting a Rayleigh-Gaussian mixture statistical model. These data were compared with results from manual segmentation of the left ventricular wall and oedema, the current standard approach.</p> <p>Results: The mean perpendicular distances between automatically detected left ventricular boundaries and corresponding manual delineated boundaries were in the range of 1-2 mm. Dice similarity coefficients for agreement (0=no agreement, 1=perfect agreement) between manual delineation and automatic segmentation of the left ventricular wall boundaries and oedema regions were 0.86 and 0.74, respectively.</p&gt

Peaks detection and alignment for mass spectrometry data

The goal of this paper is to review existing methods for protein mass spectrometry data analysis, and to present a new methodology for automatic extraction of significant peaks (biomarkers). For the pre-processing step required for data from MALDI-TOF or SELDI- TOF spectra, we use a purely nonparametric approach that combines stationary invariant wavelet transform for noise removal and penalized spline quantile regression for baseline correction. We further present a multi-scale spectra alignment technique that is based on identification of statistically significant peaks from a set of spectra. This method allows one to find common peaks in a set of spectra that can subsequently be mapped to individual proteins. This may serve as useful biomarkers in medical applications, or as individual features for further multidimensional statistical analysis. MALDI-TOF spectra obtained from serum samples are used throughout the paper to illustrate the methodology

Vision-Based Finger Detection, Tracking, and Event Identification Techniques for Multi-Touch Sensing and Display Systems

This study presents efficient vision-based finger detection, tracking, and event identification techniques and a low-cost hardware framework for multi-touch sensing and display applications. The proposed approach uses a fast bright-blob segmentation process based on automatic multilevel histogram thresholding to extract the pixels of touch blobs obtained from scattered infrared lights captured by a video camera. The advantage of this automatic multilevel thresholding approach is its robustness and adaptability when dealing with various ambient lighting conditions and spurious infrared noises. To extract the connected components of these touch blobs, a connected-component analysis procedure is applied to the bright pixels acquired by the previous stage. After extracting the touch blobs from each of the captured image frames, a blob tracking and event recognition process analyzes the spatial and temporal information of these touch blobs from consecutive frames to determine the possible touch events and actions performed by users. This process also refines the detection results and corrects for errors and occlusions caused by noise and errors during the blob extraction process. The proposed blob tracking and touch event recognition process includes two phases. First, the phase of blob tracking associates the motion correspondence of blobs in succeeding frames by analyzing their spatial and temporal features. The touch event recognition process can identify meaningful touch events based on the motion information of touch blobs, such as finger moving, rotating, pressing, hovering, and clicking actions. Experimental results demonstrate that the proposed vision-based finger detection, tracking, and event identification system is feasible and effective for multi-touch sensing applications in various operational environments and conditions

Delaunay triangulation based image enhancement for echocardiography images

A novel image enhancement approach for automatic echocardiography image processing is proposed. The main steps include undecimated wavelet based speckle noise reduction, edge detection, followed by a regional enhancement process that employs Delaunay triangulation based thresholding. The edge detection is performed using a fuzzy logic based center point detection and a subsequent radial search based fuzzy multiscale edge detection. The edges obtained are used as the vertices for Delaunay triangulation for enhancement purposes. This method enhances the heart wall region in the echo image. This technique is applied to both synthetic and real image sets that were obtained from a local hospital

Silhouette coverage analysis for multi-modal video surveillance

In order to improve the accuracy in video-based object detection, the proposed multi-modal video surveillance system takes advantage of the different kinds of information represented by visual, thermal and/or depth imaging sensors. The multi-modal object detector of the system can be split up in two consecutive parts: the registration and the coverage analysis. The multi-modal image registration is performed using a three step silhouette-mapping algorithm which detects the rotation, scale and translation between moving objects in the visual, (thermal) infrared and/or depth images. First, moving object silhouettes are extracted to separate the calibration objects, i.e., the foreground, from the static background. Key components are dynamic background subtraction, foreground enhancement and automatic thresholding. Then, 1D contour vectors are generated from the resulting multi-modal silhouettes using silhouette boundary extraction, cartesian to polar transform and radial vector analysis. Next, to retrieve the rotation angle and the scale factor between the multi-sensor image, these contours are mapped on each other using circular cross correlation and contour scaling. Finally, the translation between the images is calculated using maximization of binary correlation. The silhouette coverage analysis also starts with moving object silhouette extraction. Then, it uses the registration information, i.e., rotation angle, scale factor and translation vector, to map the thermal, depth and visual silhouette images on each other. Finally, the coverage of the resulting multi-modal silhouette map is computed and is analyzed over time to reduce false alarms and to improve object detection. Prior experiments on real-world multi-sensor video sequences indicate that automated multi-modal video surveillance is promising. This paper shows that merging information from multi-modal video further increases the detection results

Recognition of landslides in lunar impact craters

Landslides have been observed on several planets and minor bodies of the solar System, including the Moon. Notwithstanding different types of slope failures have been studied on the Moon, a detailed lunar landslide inventory is still pending. Undoubtedly, such will be in a benefit for future geological and morphological studies, as well in hazard, risk and suscept- ibility assessments. A preliminary survey of lunar landslides in impact craters has been done using visual inspection on images and digital elevation model (DEM) (Brunetti et al. 2015) but this method suffers from subjective interpretation. A new methodology based on polynomial interpolation of crater cross-sections extracted from global lunar DEMs is presented in this paper. Because of their properties, Chebyshev polynomials were already exploited for para- metric classification of different crater morphologies (Mahanti et al., 2014). Here, their use has been extended to the discrimination of slumps in simple impact craters. Two criteria for recognition have provided the best results: one based on fixing an empirical absolute thresholding and a second based on statistical adaptive thresholding. The application of both criteria to a data set made up of 204 lunar craters’ cross-sections has demonstrated that the former criterion provides the best recognition

Ball-Scale Based Hierarchical Multi-Object Recognition in 3D Medical Images

This paper investigates, using prior shape models and the concept of ball scale (b-scale), ways of automatically recognizing objects in 3D images without performing elaborate searches or optimization. That is, the goal is to place the model in a single shot close to the right pose (position, orientation, and scale) in a given image so that the model boundaries fall in the close vicinity of object boundaries in the image. This is achieved via the following set of key ideas: (a) A semi-automatic way of constructing a multi-object shape model assembly. (b) A novel strategy of encoding, via b-scale, the pose relationship between objects in the training images and their intensity patterns captured in b-scale images. (c) A hierarchical mechanism of positioning the model, in a one-shot way, in a given image from a knowledge of the learnt pose relationship and the b-scale image of the given image to be segmented. The evaluation results on a set of 20 routine clinical abdominal female and male CT data sets indicate the following: (1) Incorporating a large number of objects improves the recognition accuracy dramatically. (2) The recognition algorithm can be thought as a hierarchical framework such that quick replacement of the model assembly is defined as coarse recognition and delineation itself is known as finest recognition. (3) Scale yields useful information about the relationship between the model assembly and any given image such that the recognition results in a placement of the model close to the actual pose without doing any elaborate searches or optimization. (4) Effective object recognition can make delineation most accurate.Comment: This paper was published and presented in SPIE Medical Imaging 201