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Microarray Image Analysis

Author: Karl Fraser
Publisher: CRC Press
ISBN: 9781420091540
Size: 71.44 MB
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To harness the high-throughput potential of DNA microarray technology, it is crucial that the analysis stages of the process are decoupled from the requirements of operator assistance. Microarray Image Analysis: An Algorithmic Approach presents an automatic system for microarray image processing to make this decoupling a reality. The proposed system integrates and extends traditional analytical-based methods and custom-designed novel algorithms. The book first explores a new technique that takes advantage of a multiview approach to image analysis and addresses the challenges of applying powerful traditional techniques, such as clustering, to full-scale microarray experiments. It then presents an effective feature identification approach, an innovative technique that renders highly detailed surface models, a new approach to subgrid detection, a novel technique for the background removal process, and a useful technique for removing "noise." The authors also develop an expectation–maximization (EM) algorithm for modeling gene regulatory networks from gene expression time series data. The final chapter describes the overall benefits of these techniques in the biological and computer sciences and reviews future research topics. This book systematically brings together the fields of image processing, data analysis, and molecular biology to advance the state of the art in this important area. Although the text focuses on improving the processes involved in the analysis of microarray image data, the methods discussed can be applied to a broad range of medical and computer vision analysis areas.

Music Data Analysis

Author: Claus Weihs
Publisher: CRC Press
ISBN: 1315353830
Size: 41.75 MB
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This book provides a comprehensive overview of music data analysis, from introductory material to advanced concepts. It covers various applications including transcription and segmentation as well as chord and harmony, instrument and tempo recognition. It also discusses the implementation aspects of music data analysis such as architecture, user interface and hardware. It is ideal for use in university classes with an interest in music data analysis. It also could be used in computer science and statistics as well as musicology.

Exploratory Data Analysis With Matlab Third Edition

Author: Wendy L. Martinez
Publisher: CRC Press
ISBN: 1315349841
Size: 31.10 MB
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Praise for the Second Edition: "The authors present an intuitive and easy-to-read book. ... accompanied by many examples, proposed exercises, good references, and comprehensive appendices that initiate the reader unfamiliar with MATLAB." —Adolfo Alvarez Pinto, International Statistical Review "Practitioners of EDA who use MATLAB will want a copy of this book. ... The authors have done a great service by bringing together so many EDA routines, but their main accomplishment in this dynamic text is providing the understanding and tools to do EDA. —David A Huckaby, MAA Reviews Exploratory Data Analysis (EDA) is an important part of the data analysis process. The methods presented in this text are ones that should be in the toolkit of every data scientist. As computational sophistication has increased and data sets have grown in size and complexity, EDA has become an even more important process for visualizing and summarizing data before making assumptions to generate hypotheses and models. Exploratory Data Analysis with MATLAB, Third Edition presents EDA methods from a computational perspective and uses numerous examples and applications to show how the methods are used in practice. The authors use MATLAB code, pseudo-code, and algorithm descriptions to illustrate the concepts. The MATLAB code for examples, data sets, and the EDA Toolbox are available for download on the book’s website. New to the Third Edition Random projections and estimating local intrinsic dimensionality Deep learning autoencoders and stochastic neighbor embedding Minimum spanning tree and additional cluster validity indices Kernel density estimation Plots for visualizing data distributions, such as beanplots and violin plots A chapter on visualizing categorical data

Data Science Foundations

Author: Fionn Murtagh
Publisher: CRC Press
ISBN: 1315350491
Size: 54.28 MB
Format: PDF
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"Data Science Foundations?is most welcome and, indeed, a piece of literature that the field is very much in need of...quite different from most data analytics texts which largely ignore foundational concepts and simply present a cookbook of methods...a very useful text and I would certainly use it in my teaching." - Mark Girolami, Warwick University Data Science encompasses the traditional disciplines of mathematics, statistics, data analysis, machine learning, and pattern recognition. This book is designed to provide a new framework for Data Science, based on a solid foundation in mathematics and computational science. It is written in an accessible style, for readers who are engaged with the subject but not necessarily experts in all aspects. It includes a wide range of case studies from diverse fields, and seeks to inspire and motivate the reader with respect to data, associated information, and derived knowledge.

Statistical Analysis Of Gene Expression Microarray Data

Author: Terry Speed
Publisher: CRC Press
ISBN: 9780203011232
Size: 49.32 MB
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Although less than a decade old, the field of microarray data analysis is now thriving and growing at a remarkable pace. Biologists, geneticists, and computer scientists as well as statisticians all need an accessible, systematic treatment of the techniques used for analyzing the vast amounts of data generated by large-scale gene expression studies. And there is arguably no group better qualified to do so than the authors of this book. Statistical Analysis of Gene Expression Microarray Data promises to become the definitive basic reference in the field. Under the editorship of Terry Speed, some of the world's most pre-eminent authorities have joined forces to present the tools, features, and problems associated with the analysis of genetic microarray data. These include:: Model-based analysis of oligonucleotide arrays, including expression index computation, outlier detection, and standard error applications Design and analysis of comparative experiments involving microarrays, with focus on \ two-color cDNA or long oligonucleotide arrays on glass slides Classification issues, including the statistical foundations of classification and an overview of different classifiers Clustering, partitioning, and hierarchical methods of analysis, including techniques related to principal components and singular value decomposition Although the technologies used in large-scale, high throughput assays will continue to evolve, statistical analysis will remain a cornerstone of their success and future development. Statistical Analysis of Gene Expression Microarray Data will help you meet the challenges of large, complex datasets and contribute to new methodological and computational advances.

Statistics And Data Analysis For Microarrays Using R And Bioconductor Second Edition

Author: Sorin Drăghici
Publisher: CRC Press
ISBN: 1439809763
Size: 72.32 MB
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Richly illustrated in color, Statistics and Data Analysis for Microarrays Using R and Bioconductor, Second Edition provides a clear and rigorous description of powerful analysis techniques and algorithms for mining and interpreting biological information. Omitting tedious details, heavy formalisms, and cryptic notations, the text takes a hands-on, example-based approach that teaches students the basics of R and microarray technology as well as how to choose and apply the proper data analysis tool to specific problems. New to the Second Edition Completely updated and double the size of its predecessor, this timely second edition replaces the commercial software with the open source R and Bioconductor environments. Fourteen new chapters cover such topics as the basic mechanisms of the cell, reliability and reproducibility issues in DNA microarrays, basic statistics and linear models in R, experiment design, multiple comparisons, quality control, data pre-processing and normalization, Gene Ontology analysis, pathway analysis, and machine learning techniques. Methods are illustrated with toy examples and real data and the R code for all routines is available on an accompanying CD-ROM. With all the necessary prerequisites included, this best-selling book guides students from very basic notions to advanced analysis techniques in R and Bioconductor. The first half of the text presents an overview of microarrays and the statistical elements that form the building blocks of any data analysis. The second half introduces the techniques most commonly used in the analysis of microarray data.

Contrast Data Mining

Author: Guozhu Dong
Publisher: CRC Press
ISBN: 1439854335
Size: 74.19 MB
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A Fruitful Field for Researching Data Mining Methodology and for Solving Real-Life Problems Contrast Data Mining: Concepts, Algorithms, and Applications collects recent results from this specialized area of data mining that have previously been scattered in the literature, making them more accessible to researchers and developers in data mining and other fields. The book not only presents concepts and techniques for contrast data mining, but also explores the use of contrast mining to solve challenging problems in various scientific, medical, and business domains. Learn from Real Case Studies of Contrast Mining Applications In this volume, researchers from around the world specializing in architecture engineering, bioinformatics, computer science, medicine, and systems engineering focus on the mining and use of contrast patterns. They demonstrate many useful and powerful capabilities of a variety of contrast mining techniques and algorithms, including tree-based structures, zero-suppressed binary decision diagrams, data cube representations, and clustering algorithms. They also examine how contrast mining is used in leukemia characterization, discriminative gene transfer and microarray analysis, computational toxicology, spatial and image data classification, voting analysis, heart disease prediction, crime analysis, understanding customer behavior, genetic algorithms, and network security.

Rough Fuzzy Image Analysis

Author: Sankar K. Pal
Publisher: CRC Press
ISBN: 9781439803301
Size: 65.93 MB
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Fuzzy sets, near sets, and rough sets are useful and important stepping stones in a variety of approaches to image analysis. These three types of sets and their various hybridizations provide powerful frameworks for image analysis. Emphasizing the utility of fuzzy, near, and rough sets in image analysis, Rough Fuzzy Image Analysis: Foundations and Methodologies introduces the fundamentals and applications in the state of the art of rough fuzzy image analysis. In the first chapter, the distinguished editors explain how fuzzy, near, and rough sets provide the basis for the stages of pictorial pattern recognition: image transformation, feature extraction, and classification. The text then discusses hybrid approaches that combine fuzzy sets and rough sets in image analysis, illustrates how to perform image analysis using only rough sets, and describes tolerance spaces and a perceptual systems approach to image analysis. It also presents a free, downloadable implementation of near sets using the Near Set Evaluation and Recognition (NEAR) system, which visualizes concepts from near set theory. In addition, the book covers an array of applications, particularly in medical imaging involving breast cancer diagnosis, laryngeal pathology diagnosis, and brain MR segmentation. Edited by two leading researchers and with contributions from some of the best in the field, this volume fully reflects the diversity and richness of rough fuzzy image analysis. It deftly examines the underlying set theories as well as the diverse methods and applications.

Kompendium Systembiologie

Author: Andreas Kremling
Publisher: Springer-Verlag
ISBN: 3834886076
Size: 16.16 MB
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Das Buch beschreibt die Grundlagen der mathematischen Modellierung zellulärer Systeme. Nach einer Klassifikation von Modellen wird schwerpunktmäßig auf deterministische Modelle eingegangen und für alle relevanten zellulären Prozesse entsprechende Gleichungen angegeben. Anschließend werden eine Reihe von Verfahren zur Modellanalyse vorgestellt. Etwas kürzer werden Verfahren zum Reverse Engineering und zur Analyse von Netzwerkgraphen abgehandelt. Am Ende werden noch Verfahren der Parameteridentifikation besprochen.

A Programmer S Companion To Algorithm Analysis

Author: Ernst L. Leiss
Publisher: CRC Press
ISBN: 9781584886730
Size: 45.15 MB
Format: PDF
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Until now, no other book examined the gap between the theory of algorithms and the production of software programs. Focusing on practical issues, A Programmer's Companion to Algorithm Analysis carefully details the transition from the design and analysis of an algorithm to the resulting software program. Consisting of two main complementary parts, the book emphasizes the concrete aspects of translating an algorithm into software that should perform based on what the algorithm analysis indicated. In the first part, the author describes the idealized universe that algorithm designers inhabit while the second part outlines how this ideal can be adapted to the real world of programming. The book explores analysis techniques, including crossover points, the influence of the memory hierarchy, implications of programming language aspects, such as recursion, and problems arising from excessively high computational complexities of solution methods. It concludes with four appendices that discuss basic algorithms; memory hierarchy, virtual memory management, optimizing compilers, and garbage collection; NP-completeness and higher complexity classes; and undecidability in practical terms. Applying the theory of algorithms to the production of software, A Programmer's Companion to Algorithm Analysis fulfills the needs of software programmers and developers as well as students by showing that with the correct algorithm, you can achieve a functional software program.