Advanced Biomedical Image Analysis

A comprehensive reference of cutting-edge advanced techniques for quantitative image processing and analysis Medical diagnostics and intervention, and biomedical research rely progressively on imaging techniques, namely, the ability to capture, store, analyze, and display images at the organ, tissue, cellular, and molecular level. These tasks are supported by increasingly powerful computer methods to process and analyze images. This text serves as an authoritative resource and self-study guide explaining sophisticated techniques of quantitative image analysis, with a focus on biomedical applications. It offers both theory and practical examples for immediate application of the topics as well as for in-depth study. Advanced Biomedical Image Analysis presents methods in the four major areas of image processing: image enhancement and restoration, image segmentation, image quantification and classification, and image visualization. In each instance, the theory, mathematical foundation, and basic description of an image processing operator is provided, as well as a discussion of performance features, advantages, and limitations. Key algorithms are provided in pseudo-code to help with implementation, and biomedical examples are included in each chapter. Image registration, storage, transport, and compression are also covered, and there is a review of image analysis and visualization software. The accompanying live DVD contains a selection of image analysis software, and it provides most of the algorithms from the book so readers can immediately put their new knowledge to use. Members of the academic community involved in image-related research as well as members of the professional R&D sector will rely on this volume. It is also well suited as a textbook for graduate-level image processing classes in the computer science and engineering fields.

As its title suggests, this innovative book has been written for life scientists needing to analyse their data sets, and programmers, wanting a better understanding of the types of experimental images life scientists investigate on a regular basis. Each chapter presents one self-contained biomedical experiment to be analysed. Part I of the book presents its two basic ingredients: essential concepts of image analysis and Matlab. In Part II, algorithms and techniques are shown as series of «recipes» or solved examples that show how specific techniques are applied to a biomedical experiments like Western Blots, Histology, Scratch Wound Assays and Fluoresence. Each recipe begins with simple techniques that gradually advance in complexity. Part III presents some advanced techniques for the generation of publication quality figures. The book does not assume any computational or mathematical expertise. A practical, clearly-written introduction to biomedical image analysis that provides the tools for life scientists and engineers to use when solving problems in their own laboratories. Presents the basic concepts of MATLAB software and uses it throughout to show how it can execute flexible and powerful image analysis programs tailored to the specific needs of the problem. Within the context of four biomedical cases, it shows algorithms and techniques as series of «recipes», or solved examples that show how a particular technique is applied in a specific experiment. Companion website containing example datasets, MATLAB files and figures from the book.

The book will help assist a reader in the development of techniques for analysis of biomedical signals and computer aided diagnoses with a pedagogical examination of basic and advanced topics accompanied by over 350 figures and illustrations. Wide range of filtering techniques presented to address various applications 800 mathematical expressions and equations Practical questions, problems and laboratory exercises Includes fractals and chaos theory with biomedical applications

Features a solid foundation of mathematical and computational tools to formulate and solve real-world PDE problems across various fields With a step-by-step approach to solving partial differential equations (PDEs), Differential Equation Analysis in Biomedical Science and Engineering: Partial Differential Equation Applications with R successfully applies computational techniques for solving real-world PDE problems that are found in a variety of fields, including chemistry, physics, biology, and physiology. The book provides readers with the necessary knowledge to reproduce and extend the computed numerical solutions and is a valuable resource for dealing with a broad class of linear and nonlinear partial differential equations. The author’s primary focus is on models expressed as systems of PDEs, which generally result from including spatial effects so that the PDE dependent variables are functions of both space and time, unlike ordinary differential equation (ODE) systems that pertain to time only. As such, the book emphasizes details of the numerical algorithms and how the solutions were computed. Featuring computer-based mathematical models for solving real-world problems in the biological and biomedical sciences and engineering, the book also includes: R routines to facilitate the immediate use of computation for solving differential equation problems without having to first learn the basic concepts of numerical analysis and programming for PDEs Models as systems of PDEs and associated initial and boundary conditions with explanations of the associated chemistry, physics, biology, and physiology Numerical solutions of the presented model equations with a discussion of the important features of the solutions Aspects of general PDE computation through various biomedical science and engineering applications Differential Equation Analysis in Biomedical Science and Engineering: Partial Differential Equation Applications with R is an excellent reference for researchers, scientists, clinicians, medical researchers, engineers, statisticians, epidemiologists, and pharmacokineticists who are interested in both clinical applications and interpretation of experimental data with mathematical models in order to efficiently solve the associated differential equations. The book is also useful as a textbook for graduate-level courses in mathematics, biomedical science and engineering, biology, biophysics, biochemistry, medicine, and engineering.

The new edition adds a chapter on multiple linear regression in biomedical research, with sections including the multiple linear regressions model and least squares; the ANOVA table, parameter estimates, and confidence intervals; partial f-tests; polynomial regression; and analysis of covariance. * Organized by problem rather than method, so it guides readers to the correct technique for solving the problem at hand.

Features a practical approach to the analysis of biomedical data via mathematical methods and provides a MATLAB® toolbox for the collection, visualization, and evaluation of experimental and real-life data Applied Mathematics for the Analysis of Biomedical Data: Models, Methods, and MATLAB® presents a practical approach to the task that biological scientists face when analyzing data. The primary focus is on the application of mathematical models and scientific computing methods to provide insight into the behavior of biological systems. The author draws upon his experience in academia, industry, and government–sponsored research as well as his expertise in MATLAB to produce a suite of computer programs with applications in epidemiology, machine learning, and biostatistics. These models are derived from real–world data and concerns. Among the topics included are the spread of infectious disease (HIV/AIDS) through a population, statistical pattern recognition methods to determine the presence of disease in a diagnostic sample, and the fundamentals of hypothesis testing. In addition, the author uses his professional experiences to present unique case studies whose analyses provide detailed insights into biological systems and the problems inherent in their examination. The book contains a well-developed and tested set of MATLAB functions that act as a general toolbox for practitioners of quantitative biology and biostatistics. This combination of MATLAB functions and practical tips amplifies the book’s technical merit and value to industry professionals. Through numerous examples and sample code blocks, the book provides readers with illustrations of MATLAB programming. Moreover, the associated toolbox permits readers to engage in the process of data analysis without needing to delve deeply into the mathematical theory. This gives an accessible view of the material for readers with varied backgrounds. As a result, the book provides a streamlined framework for the development of mathematical models, algorithms, and the corresponding computer code. In addition, the book features: Real–world computational procedures that can be readily applied to similar problems without the need for keen mathematical acumen Clear delineation of topics to accelerate access to data analysis Access to a book companion website containing the MATLAB toolbox created for this book, as well as a Solutions Manual with solutions to selected exercises Applied Mathematics for the Analysis of Biomedical Data: Models, Methods, and MATLAB® is an excellent textbook for students in mathematics, biostatistics, the life and social sciences, and quantitative, computational, and mathematical biology. This book is also an ideal reference for industrial scientists, biostatisticians, product development scientists, and practitioners who use mathematical models of biological systems in biomedical research, medical device development, and pharmaceutical submissions.

This book develops the stochastic geometry framework for image analysis purpose. Two main frameworks are described: marked point process and random closed sets models. We derive the main issues for defining an appropriate model. The algorithms for sampling and optimizing the models as well as for estimating parameters are reviewed. Numerous applications, covering remote sensing images, biological and medical imaging, are detailed. This book provides all the necessary tools for developing an image analysis application based on modern stochastic modeling.

Multiresolution analysis using the wavelet transform has received considerable attention in recent years by researchers in various fields. It is a powerful tool for efficiently representing signals and images at multiple levels of detail with many inherent advantages, including compression, level-of-detail display, progressive transmission, level-of-detail editing, filtering, modeling, fractals and multifractals, etc. This book aims to provide a simple formalization and new clarity on multiresolution analysis, rendering accessible obscure techniques, and merging, unifying or completing the technique with encoding, feature extraction, compressive sensing, multifractal analysis and texture analysis. It is aimed at industrial engineers, medical researchers, university lab attendants, lecturer-researchers and researchers from various specializations. It is also intended to contribute to the studies of graduate students in engineering, particularly in the fields of medical imaging, intelligent instrumentation, telecommunications, and signal and image processing. Given the diversity of the problems posed and addressed, this book paves the way for the development of new research themes, such as brain–computer interface (BCI), compressive sensing, functional magnetic resonance imaging (fMRI), tissue characterization (bones, skin, etc.) and the analysis of complex phenomena in general. Throughout the chapters, informative illustrations assist the uninitiated reader in better conceptualizing certain concepts, taking the form of numerous figures and recent applications in biomedical engineering, communication, multimedia, finance, etc.

Introducing a revolutionary new model for the statistical analysis of experimental data In this important book, internationally acclaimed statistician, Chihiro Hirotsu, goes beyond classical analysis of variance (ANOVA) model to offer a unified theory and advanced techniques for the statistical analysis of experimental data. Dr. Hirotsu introduces the groundbreaking concept of advanced analysis of variance (AANOVA) and explains how the AANOVA approach exceeds the limitations of ANOVA methods to allow for global reasoning utilizing special methods of simultaneous inference leading to individual conclusions. Focusing on normal, binomial, and categorical data, Dr. Hirotsu explores ANOVA theory and practice and reviews current developments in the field. He then introduces three new advanced approaches, namely: testing for equivalence and non-inferiority; simultaneous testing for directional (monotonic or restricted) alternatives and change-point hypotheses; and analyses emerging from categorical data. Using real-world examples, he shows how these three recognizable families of problems have important applications in most practical activities involving experimental data in an array of research areas, including bioequivalence, clinical trials, industrial experiments, pharmaco-statistics, and quality control, to name just a few. • Written in an expository style which will encourage readers to explore applications for AANOVA techniques in their own research • Focuses on dealing with real data, providing real-world examples drawn from the fields of statistical quality control, clinical trials, and drug testing • Describes advanced methods developed and refined by the author over the course of his long career as research engineer and statistician • Introduces advanced technologies for AANOVA data analysis that build upon the basic ANOVA principles and practices Introducing a breakthrough approach to statistical analysis which overcomes the limitations of the ANOVA model, Advanced Analysis of Variance is an indispensable resource for researchers and practitioners working in fields within which the statistical analysis of experimental data is a crucial research component. Chihiro Hirotsu is a Senior Researcher at the Collaborative Research Center, Meisei University, and Professor Emeritus at the University of Tokyo. He is a fellow of the American Statistical Association, an elected member of the International Statistical Institute, and he has been awarded the Japan Statistical Society Prize (2005) and the Ouchi Prize (2006). His work has been published in Biometrika, Biometrics, and Computational Statistics & Data Analysis, among other premier research journals.

The first text to bridge the gap between image processing and jump regression analysis Recent statistical tools developed to estimate jump curves and surfaces have broad applications, specifically in the area of image processing. Often, significant differences in technical terminologies make communication between the disciplines of image processing and jump regression analysis difficult. In easy-to-understand language, Image Processing and Jump Regression Analysis builds a bridge between the worlds of computer graphics and statistics by addressing both the connections and the differences between these two disciplines. The author provides a systematic analysis of the methodology behind nonparametric jump regression analysis by outlining procedures that are easy to use, simple to compute, and have proven statistical theory behind them. Key topics include: Conventional smoothing procedures Estimation of jump regression curves Estimation of jump location curves of regression surfaces Jump-preserving surface reconstruction based on local smoothing Edge detection in image processing Edge-preserving image restoration With mathematical proofs kept to a minimum, this book is uniquely accessible to a broad readership. It may be used as a primary text in nonparametric regression analysis and image processing as well as a reference guide for academicians and industry professionals focused on image processing or curve/surface estimation.