J. Michael Brady

Bio: J. Michael Brady is an academic researcher from University of Oxford. The author has contributed to research in topics: Image registration & Feature (computer vision). The author has an hindex of 20, co-authored 66 publications receiving 15070 citations.

Segmentation of brain MR images through a hidden Markov random field model and the expectation-maximization algorithm

Abstract: The finite mixture (FM) model is the most commonly used model for statistical segmentation of brain magnetic resonance (MR) images because of its simple mathematical form and the piecewise constant nature of ideal brain MR images. However, being a histogram-based model, the FM has an intrinsic limitation-no spatial information is taken into account. This causes the FM model to work only on well-defined images with low levels of noise; unfortunately, this is often not the the case due to artifacts such as partial volume effect and bias field distortion. Under these conditions, FM model-based methods produce unreliable results. Here, the authors propose a novel hidden Markov random field (HMRF) model, which is a stochastic process generated by a MRF whose state sequence cannot be observed directly but which can be indirectly estimated through observations. Mathematically, it can be shown that the FM model is a degenerate version of the HMRF model. The advantage of the HMRF model derives from the way in which the spatial information is encoded through the mutual influences of neighboring sites. Although MRF modeling has been employed in MR image segmentation by other researchers, most reported methods are limited to using MRF as a general prior in an FM model-based approach. To fit the HMRF model, an EM algorithm is used. The authors show that by incorporating both the HMRF model and the EM algorithm into a HMRF-EM framework, an accurate and robust segmentation can be achieved. More importantly, the HMRF-EM framework can easily be combined with other techniques. As an example, the authors show how the bias field correction algorithm of Guillemaud and Brady (1997) can be incorporated into this framework to achieve a three-dimensional fully automated approach for brain MR image segmentation.

SUSAN—A New Approach to Low Level Image Processing

Abstract: This paper describes a new approach to low level image processing; in particular, edge and corner detection and structure preserving noise reduction. Non-linear filtering is used to define which parts of the image are closely related to each individual pixel; each pixel has associated with it a local image region which is of similar brightness to that pixel. The new feature detectors are based on the minimization of this local image region, and the noise reduction method uses this region as the smoothing neighbourhood. The resulting methods are accurate, noise resistant and fast. Details of the new feature detectors and of the new noise reduction method are described, along with test results.

The Curvature Primal Sketch

Abstract: In this paper we introduce a novel representation of the significant changes in curvature along the bounding contour of planar shape. We call the representation the Curvature Primal Sketch because of the close analogy to the primal sketch representation advocated by Marr for describing significant intensity changes. We define a set of primitive parameterized curvature discontinuities, and derive expressions for their convolutions with the first and second derivatives of a Gaussian. We describe an implemented algorithm that computes the Curvature Primal Sketch by matching the multiscale convolutions of a shape, and illustrate its performance on a set of tool shapes. Several applications of the representation are sketched.

Imaging biomarker roadmap for cancer studies.

Abstract: Imaging biomarkers (IBs) are integral to the routine management of patients with cancer. IBs used daily in oncology include clinical TNM stage, objective response and left ventricular ejection fraction. Other CT, MRI, PET and ultrasonography biomarkers are used extensively in cancer research and drug development. New IBs need to be established either as useful tools for testing research hypotheses in clinical trials and research studies, or as clinical decision-making tools for use in healthcare, by crossing 'translational gaps' through validation and qualification. Important differences exist between IBs and biospecimen-derived biomarkers and, therefore, the development of IBs requires a tailored 'roadmap'. Recognizing this need, Cancer Research UK (CRUK) and the European Organisation for Research and Treatment of Cancer (EORTC) assembled experts to review, debate and summarize the challenges of IB validation and qualification. This consensus group has produced 14 key recommendations for accelerating the clinical translation of IBs, which highlight the role of parallel (rather than sequential) tracks of technical (assay) validation, biological/clinical validation and assessment of cost-effectiveness; the need for IB standardization and accreditation systems; the need to continually revisit IB precision; an alternative framework for biological/clinical validation of IBs; and the essential requirements for multicentre studies to qualify IBs for clinical use.

Pattern Recognition and Machine Learning

Abstract: Probability Distributions.- Linear Models for Regression.- Linear Models for Classification.- Neural Networks.- Kernel Methods.- Sparse Kernel Machines.- Graphical Models.- Mixture Models and EM.- Approximate Inference.- Sampling Methods.- Continuous Latent Variables.- Sequential Data.- Combining Models.

Fast robust automated brain extraction

Abstract: An automated method for segmenting magnetic resonance head images into brain and non-brain has been developed. It is very robust and accurate and has been tested on thousands of data sets from a wide variety of scanners and taken with a wide variety of MR sequences. The method, Brain Extraction Tool (BET), uses a deformable model that evolves to fit the brain's surface by the application of a set of locally adaptive model forces. The method is very fast and requires no preregistration or other pre-processing before being applied. We describe the new method and give examples of results and the results of extensive quantitative testing against "gold-standard" hand segmentations, and two other popular automated methods.