This book is for anyone who has biomedical data and needs to identify variables that predict an outcome, for two-group outcomes such as tumor/not-tumor, survival/death, or response from treatment. Statistical learning machines are ideally suited to these types of prediction problems, especially if the variables being studied may not meet the assumptions of traditional techniques. Learning machines come from the world of probability and computer science but are not yet widely used in biomedical research. This introduction brings learning machine techniques to the biomedical world in an accessible way, explaining the underlying principles in nontechnical language and using extensive examples and figures. The authors connect these new methods to familiar techniques by showing how to use the learning machine models to generate smaller, more easily interpretable traditional models. Coverage includes single decision trees, multiple-tree techniques such as Random ForestsTM, neural nets, support vector machines, nearest neighbors and boosting.
An Introduction to Statistical Learning provides an accessible overview of the field of statistical learning, an essential toolset for making sense of the vast and complex data sets that have emerged in fields ranging from biology to finance, marketing, and astrophysics in the past twenty years. This book presents some of the most important modeling and prediction techniques, along with relevant applications. Topics include linear regression, classification, resampling methods, shrinkage approaches, tree-based methods, support vector machines, clustering, deep learning, survival analysis, multiple testing, and more. Color graphics and real-world examples are used to illustrate the methods presented. This book is targeted at statisticians and non-statisticians alike, who wish to use cutting-edge statistical learning techniques to analyze their data. Four of the authors co-wrote An Introduction to Statistical Learning, With Applications in R (ISLR), which has become a mainstay of undergraduate and graduate classrooms worldwide, as well as an important reference book for data scientists. One of the keys to its success was that each chapter contains a tutorial on implementing the analyses and methods presented in the R scientific computing environment. However, in recent years Python has become a popular language for data science, and there has been increasing demand for a Python-based alternative to ISLR. Hence, this book (ISLP) covers the same materials as ISLR but with labs implemented in Python. These labs will be useful both for Python novices, as well as experienced users.
Computational Learning Approaches to Data Analytics in Biomedical Applications provides a unified framework for biomedical data analysis using varied machine learning and statistical techniques. It presents insights on biomedical data processing, innovative clustering algorithms and techniques, and connections between statistical analysis and clustering. The book introduces and discusses the major problems relating to data analytics, provides a review of influential and state-of-the-art learning algorithms for biomedical applications, reviews cluster validity indices and how to select the appropriate index, and includes an overview of statistical methods that can be applied to increase confidence in the clustering framework and analysis of the results obtained. - Includes an overview of data analytics in biomedical applications and current challenges - Updates on the latest research in supervised learning algorithms and applications, clustering algorithms and cluster validation indices - Provides complete coverage of computational and statistical analysis tools for biomedical data analysis - Presents hands-on training on the use of Python libraries, MATLAB® tools, WEKA, SAP-HANA and R/Bioconductor
Within the healthcare domain, big data is defined as any ``high volume, high diversity biological, clinical, environmental, and lifestyle information collected from single individuals to large cohorts, in relation to their health and wellness status, at one or several time points.'' Such data is crucial because within it lies vast amounts of invaluable information that could potentially change a patient's life, opening doors to alternate therapies, drugs, and diagnostic tools. Signal Processing and Machine Learning for Biomedical Big Data thus discusses modalities; the numerous ways in which this data is captured via sensors; and various sample rates and dimensionalities. Capturing, analyzing, storing, and visualizing such massive data has required new shifts in signal processing paradigms and new ways of combining signal processing with machine learning tools. This book covers several of these aspects in two ways: firstly, through theoretical signal processing chapters where tools aimed at big data (be it biomedical or otherwise) are described; and, secondly, through application-driven chapters focusing on existing applications of signal processing and machine learning for big biomedical data. This text aimed at the curious researcher working in the field, as well as undergraduate and graduate students eager to learn how signal processing can help with big data analysis. It is the hope of Drs. Sejdic and Falk that this book will bring together signal processing and machine learning researchers to unlock existing bottlenecks within the healthcare field, thereby improving patient quality-of-life. Provides an overview of recent state-of-the-art signal processing and machine learning algorithms for biomedical big data, including applications in the neuroimaging, cardiac, retinal, genomic, sleep, patient outcome prediction, critical care, and rehabilitation domains. Provides contributed chapters from world leaders in the fields of big data and signal processing, covering topics such as data quality, data compression, statistical and graph signal processing techniques, and deep learning and their applications within the biomedical sphere. This book’s material covers how expert domain knowledge can be used to advance signal processing and machine learning for biomedical big data applications.
Overview of biomedical data science -- Spreadsheet tools and tips -- Biostatistics primer -- Data visualization -- Introduction to databases -- Big data -- Bioinformatics and precision medicine -- Programming languages for data analysis -- Machine learning -- Artificial intelligence -- Biomedical data science resources -- Appendix A: Glossary -- Appendix B: Using data.world -- Appendix C: Chapter exercises.
This book covers several of the statistical concepts and data analytic skills needed to succeed in data-driven life science research. The authors proceed from relatively basic concepts related to computed p-values to advanced topics related to analyzing highthroughput data. They include the R code that performs this analysis and connect the lines of code to the statistical and mathematical concepts explained.
Biomedical and Health Informatics is an important field that brings tremendous opportunities and helps address challenges due to an abundance of available biomedical data. This book examines and demonstrates state-of-the-art approaches for IoT and Machine Learning based biomedical and health related applications. This book aims to provide computational methods for accumulating, updating and changing knowledge in intelligent systems and particularly learning mechanisms that help us to induce knowledge from the data. It is helpful in cases where direct algorithmic solutions are unavailable, there is lack of formal models, or the knowledge about the application domain is inadequately defined. In the future IoT has the impending capability to change the way we work and live. These computing methods also play a significant role in design and optimization in diverse engineering disciplines. With the influence and the development of the IoT concept, the need for AI (artificial intelligence) techniques has become more significant than ever. The aim of these techniques is to accept imprecision, uncertainties and approximations to get a rapid solution. However, recent advancements in representation of intelligent IoTsystems generate a more intelligent and robust system providing a human interpretable, low-cost, and approximate solution. Intelligent IoT systems have demonstrated great performance to a variety of areas including big data analytics, time series, biomedical and health informatics. This book will be very beneficial for the new researchers and practitioners working in the biomedical and healthcare fields to quickly know the best performing methods. It will also be suitable for a wide range of readers who may not be scientists but who are also interested in the practice of such areas as medical image retrieval, brain image segmentation, among others. • Discusses deep learning, IoT, machine learning, and biomedical data analysis with broad coverage of basic scientific applications • Presents deep learning and the tremendous improvement in accuracy, robustness, and cross- language generalizability it has over conventional approaches • Discusses various techniques of IoT systems for healthcare data analytics • Provides state-of-the-art methods of deep learning, machine learning and IoT in biomedical and health informatics • Focuses more on the application of algorithms in various real life biomedical and engineering problems
One of the grand challenges in our digital world are the large, complex and often weakly structured data sets, and massive amounts of unstructured information. This “big data” challenge is most evident in biomedical informatics: the trend towards precision medicine has resulted in an explosion in the amount of generated biomedical data sets. Despite the fact that human experts are very good at pattern recognition in dimensions of = 3; most of the data is high-dimensional, which makes manual analysis often impossible and neither the medical doctor nor the biomedical researcher can memorize all these facts. A synergistic combination of methodologies and approaches of two fields offer ideal conditions towards unraveling these problems: Human–Computer Interaction (HCI) and Knowledge Discovery/Data Mining (KDD), with the goal of supporting human capabilities with machine learning./ppThis state-of-the-art survey is an output of the HCI-KDD expert network and features 19 carefully selected and reviewed papers related to seven hot and promising research areas: Area 1: Data Integration, Data Pre-processing and Data Mapping; Area 2: Data Mining Algorithms; Area 3: Graph-based Data Mining; Area 4: Entropy-Based Data Mining; Area 5: Topological Data Mining; Area 6 Data Visualization and Area 7: Privacy, Data Protection, Safety and Security.
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.
