Thedevelopmentoftechnologiesforhigh–throughputmeasurementofgene expression in biological system is providing powerful new tools for inv- tigating the transcriptome on a genomic scale, and across diverse biol- ical systems and experimental designs. This technological transformation is generating an increasing demand for data analysis in biological inv- tigations of gene expression. This book focuses on data analysis of gene expression microarrays. The goal is to provide guidance to practitioners in deciding which statistical approaches and packages may be indicated for their projects, in choosing among the various options provided by those packages, and in correctly interpreting the results. The book is a collection of chapters written by authors of statistical so- ware for microarray data analysis. Each chapter describes the conceptual and methodological underpinning of data analysis tools as well as their software implementation, and will enable readers to both understand and implement an analysis approach. Methods touch on all aspects of statis- cal analysis of microarrays, from annotation and ?ltering to clustering and classi?cation. All software packages described are free to academic users. The materials presented cover a range of software tools designed for varied audiences. Some chapters describe simple menu-driven software in a user-friendly fashion and are designed to be accessible to microarray data analystswithoutformalquantitativetraining.Mostchaptersaredirectedat microarray data analysts with master’s-level training in computer science, biostatistics, or bioinformatics. A minority of more advanced chapters are intended for doctoral students and researchers.

Thedevelopmentoftechnologiesforhigh–throughputmeasurementofgene expression in biological system is providing powerful new tools for inv- tigating the transcriptome on a genomic scale, and across diverse biol- ical systems and experimental designs. This technological transformation is generating an increasing demand for data analysis in biological inv- tigations of gene expression. This book focuses on data analysis of gene expression microarrays. The goal is to provide guidance to practitioners in deciding which statistical approaches and packages may be indicated for their projects, in choosing among the various options provided by those packages, and in correctly interpreting the results. The book is a collection of chapters written by authors of statistical so- ware for microarray data analysis. Each chapter describes the conceptual and methodological underpinning of data analysis tools as well as their software implementation, and will enable readers to both understand and implement an analysis approach. Methods touch on all aspects of statis- cal analysis of microarrays, from annotation and ?ltering to clustering and classi?cation. All software packages described are free to academic users. The materials presented cover a range of software tools designed for varied audiences. Some chapters describe simple menu-driven software in a user-friendly fashion and are designed to be accessible to microarray data analystswithoutformalquantitativetraining.Mostchaptersaredirectedat microarray data analysts with master’s-level training in computer science, biostatistics, or bioinformatics. A minority of more advanced chapters are intended for doctoral students and researchers.

Decision theory provides a formal framework for making logical choices in the face of uncertainty. Given a set of alternatives, a set of consequences, and a correspondence between those sets, decision theory offers conceptually simple procedures for choice. This book presents an overview of the fundamental concepts and outcomes of rational decision making under uncertainty, highlighting the implications for statistical practice. The authors have developed a series of self contained chapters focusing on bridging the gaps between the different fields that have contributed to rational decision making and presenting ideas in a unified framework and notation while respecting and highlighting the different and sometimes conflicting perspectives. This book: * Provides a rich collection of techniques and procedures. * Discusses the foundational aspects and modern day practice. * Links foundations to practical applications in biostatistics, computer science, engineering and economics. * Presents different perspectives and controversies to encourage readers to form their own opinion of decision making and statistics. Decision Theory is fundamental to all scientific disciplines, including biostatistics, computer science, economics and engineering. Anyone interested in the whys and wherefores of statistical science will find much to enjoy in this book.

Decision theory provides a formal framework for making logical choices in the face of uncertainty. Given a set of alternatives, a set of consequences, and a correspondence between those sets, decision theory offers conceptually simple procedures for choice. This book presents an overview of the fundamental concepts and outcomes of rational decision making under uncertainty, highlighting the implications for statistical practice. The authors have developed a series of self contained chapters focusing on bridging the gaps between the different fields that have contributed to rational decision making and presenting ideas in a unified framework and notation while respecting and highlighting the different and sometimes conflicting perspectives. This book: * Provides a rich collection of techniques and procedures.* Discusses the foundational aspects and modern day practice.* Links foundations to practical applications in biostatistics, computer science, engineering and economics.* Presents different perspectives and controversies to encourage readers to form their own opinion of decision making and statistics. Decision Theory is fundamental to all scientific disciplines, including biostatistics, computer science, economics and engineering. Anyone interested in the whys and wherefores of statistical science will find much to enjoy in this book.

Medical decision making has evolved in recent years, as more complex problems are being faced and addressed based on increasingly large amounts of data. In parallel, advances in computing have led to a host of new and powerful statistical tools to support decision making. Simulation-based Bayesian methods are especially promising, as they provide a unified framework for data collection, inference, and decision making. In addition, these methods are simple to interpret, and can help to address the most pressing practical and ethical concerns arising in medical decision making.* Provides an overview of the necessary methodological background, including Bayesian inference, Monte Carlo simulation, and utility theory.* Driven by three real applications, presented as extensively detailed case studies.* Case studies include simplified versions of the analysis, to approach complex modelling in stages.* Features coverage of meta-analysis, decision analysis, and comprehensive decision modeling.* Accessible to readers with only a basic statistical knowledge.Primarily aimed at students and practitioners of biostatistics, the book will also appeal to those working in statistics, medical informatics, evidence-based medicine, health economics, health services research, and health policy.

Thedevelopmentoftechnologiesforhigh–throughputmeasurementofgene expression in biological system is providing powerful new tools for inv- tigating the transcriptome on a genomic scale, and across diverse biol- ical systems and experimental designs. This technological transformation is generating an increasing demand for data analysis in biological inv- tigations of gene expression. This book focuses on data analysis of gene expression microarrays. The goal is to provide guidance to practitioners in deciding which statistical approaches and packages may be indicated for their projects, in choosing among the various options provided by those packages, and in correctly interpreting the results. The book is a collection of chapters written by authors of statistical so- ware for microarray data analysis. Each chapter describes the conceptual and methodological underpinning of data analysis tools as well as their software implementation, and will enable readers to both understand and implement an analysis approach. Methods touch on all aspects of statis- cal analysis of microarrays, from annotation and ?ltering to clustering and classi?cation. All software packages described are free to academic users. The materials presented cover a range of software tools designed for varied audiences. Some chapters describe simple menu-driven software in a user-friendly fashion and are designed to be accessible to microarray data analystswithoutformalquantitativetraining.Mostchaptersaredirectedat microarray data analysts with master’s-level training in computer science, biostatistics, or bioinformatics. A minority of more advanced chapters are intended for doctoral students and researchers.

Thedevelopmentoftechnologiesforhigh–throughputmeasurementofgene expression in biological system is providing powerful new tools for inv- tigating the transcriptome on a genomic scale, and across diverse biol- ical systems and experimental designs. This technological transformation is generating an increasing demand for data analysis in biological inv- tigations of gene expression. This book focuses on data analysis of gene expression microarrays. The goal is to provide guidance to practitioners in deciding which statistical approaches and packages may be indicated for their projects, in choosing among the various options provided by those packages, and in correctly interpreting the results. The book is a collection of chapters written by authors of statistical so- ware for microarray data analysis. Each chapter describes the conceptual and methodological underpinning of data analysis tools as well as their software implementation, and will enable readers to both understand and implement an analysis approach. Methods touch on all aspects of statis- cal analysis of microarrays, from annotation and ?ltering to clustering and classi?cation. All software packages described are free to academic users. The materials presented cover a range of software tools designed for varied audiences. Some chapters describe simple menu-driven software in a user-friendly fashion and are designed to be accessible to microarray data analystswithoutformalquantitativetraining.Mostchaptersaredirectedat microarray data analysts with master’s-level training in computer science, biostatistics, or bioinformatics. A minority of more advanced chapters are intended for doctoral students and researchers.

Decision theory provides a formal framework for making logical choices in the face of uncertainty. Given a set of alternatives, a set of consequences, and a correspondence between those sets, decision theory offers conceptually simple procedures for choice. This book presents an overview of the fundamental concepts and outcomes of rational decision making under uncertainty, highlighting the implications for statistical practice. The authors have developed a series of self contained chapters focusing on bridging the gaps between the different fields that have contributed to rational decision making and presenting ideas in a unified framework and notation while respecting and highlighting the different and sometimes conflicting perspectives. This book: * Provides a rich collection of techniques and procedures. * Discusses the foundational aspects and modern day practice. * Links foundations to practical applications in biostatistics, computer science, engineering and economics. * Presents different perspectives and controversies to encourage readers to form their own opinion of decision making and statistics. Decision Theory is fundamental to all scientific disciplines, including biostatistics, computer science, economics and engineering. Anyone interested in the whys and wherefores of statistical science will find much to enjoy in this book.

Decision theory provides a formal framework for making logical choices in the face of uncertainty. Given a set of alternatives, a set of consequences, and a correspondence between those sets, decision theory offers conceptually simple procedures for choice. This book presents an overview of the fundamental concepts and outcomes of rational decision making under uncertainty, highlighting the implications for statistical practice. The authors have developed a series of self contained chapters focusing on bridging the gaps between the different fields that have contributed to rational decision making and presenting ideas in a unified framework and notation while respecting and highlighting the different and sometimes conflicting perspectives. This book: * Provides a rich collection of techniques and procedures.* Discusses the foundational aspects and modern day practice.* Links foundations to practical applications in biostatistics, computer science, engineering and economics.* Presents different perspectives and controversies to encourage readers to form their own opinion of decision making and statistics. Decision Theory is fundamental to all scientific disciplines, including biostatistics, computer science, economics and engineering. Anyone interested in the whys and wherefores of statistical science will find much to enjoy in this book.

Medical decision making has evolved in recent years, as more complex problems are being faced and addressed based on increasingly large amounts of data. In parallel, advances in computing have led to a host of new and powerful statistical tools to support decision making. Simulation-based Bayesian methods are especially promising, as they provide a unified framework for data collection, inference, and decision making. In addition, these methods are simple to interpret, and can help to address the most pressing practical and ethical concerns arising in medical decision making.* Provides an overview of the necessary methodological background, including Bayesian inference, Monte Carlo simulation, and utility theory.* Driven by three real applications, presented as extensively detailed case studies.* Case studies include simplified versions of the analysis, to approach complex modelling in stages.* Features coverage of meta-analysis, decision analysis, and comprehensive decision modeling.* Accessible to readers with only a basic statistical knowledge.Primarily aimed at students and practitioners of biostatistics, the book will also appeal to those working in statistics, medical informatics, evidence-based medicine, health economics, health services research, and health policy.