Literature Based Bayesian Analysis Of Gene Expression Data

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Bayesian Analysis of Gene Expression Data

Author : Bani K. Mallick
Publisher : John Wiley & Sons
ISBN 13 : 9780470742815
Total Pages : 252 pages
Book Rating : 4.7/5 (428 download)

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Book Synopsis Bayesian Analysis of Gene Expression Data by : Bani K. Mallick

Download or read book Bayesian Analysis of Gene Expression Data written by Bani K. Mallick and published by John Wiley & Sons. This book was released on 2009-07-20 with total page 252 pages. Available in PDF, EPUB and Kindle. Book excerpt: The field of high-throughput genetic experimentation is evolving rapidly, with the advent of new technologies and new venues for data mining. Bayesian methods play a role central to the future of data and knowledge integration in the field of Bioinformatics. This book is devoted exclusively to Bayesian methods of analysis for applications to high-throughput gene expression data, exploring the relevant methods that are changing Bioinformatics. Case studies, illustrating Bayesian analyses of public gene expression data, provide the backdrop for students to develop analytical skills, while the more experienced readers will find the review of advanced methods challenging and attainable. This book: Introduces the fundamentals in Bayesian methods of analysis for applications to high-throughput gene expression data. Provides an extensive review of Bayesian analysis and advanced topics for Bioinformatics, including examples that extensively detail the necessary applications. Accompanied by website featuring datasets, exercises and solutions. Bayesian Analysis of Gene Expression Data offers a unique introduction to both Bayesian analysis and gene expression, aimed at graduate students in Statistics, Biomedical Engineers, Computer Scientists, Biostatisticians, Statistical Geneticists, Computational Biologists, applied Mathematicians and Medical consultants working in genomics. Bioinformatics researchers from many fields will find much value in this book.

Bayesian Inference for Gene Expression and Proteomics

Author : Kim-Anh Do
Publisher : Cambridge University Press
ISBN 13 : 052186092X
Total Pages : 437 pages
Book Rating : 4.5/5 (218 download)

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Book Synopsis Bayesian Inference for Gene Expression and Proteomics by : Kim-Anh Do

Download or read book Bayesian Inference for Gene Expression and Proteomics written by Kim-Anh Do and published by Cambridge University Press. This book was released on 2006-07-24 with total page 437 pages. Available in PDF, EPUB and Kindle. Book excerpt: Expert overviews of Bayesian methodology, tools and software for multi-platform high-throughput experimentation.

Statistical Analysis of Gene Expression Microarray Data

Author : Terry Speed
Publisher : CRC Press
ISBN 13 : 0203011236
Total Pages : 237 pages
Book Rating : 4.2/5 (3 download)

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Book Synopsis Statistical Analysis of Gene Expression Microarray Data by : Terry Speed

Download or read book Statistical Analysis of Gene Expression Microarray Data written by Terry Speed and published by CRC Press. This book was released on 2003-03-26 with total page 237 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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

Bayesian Data Analysis, Third Edition

Author : Andrew Gelman
Publisher : CRC Press
ISBN 13 : 1439840954
Total Pages : 677 pages
Book Rating : 4.4/5 (398 download)

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Book Synopsis Bayesian Data Analysis, Third Edition by : Andrew Gelman

Download or read book Bayesian Data Analysis, Third Edition written by Andrew Gelman and published by CRC Press. This book was released on 2013-11-01 with total page 677 pages. Available in PDF, EPUB and Kindle. Book excerpt: Now in its third edition, this classic book is widely considered the leading text on Bayesian methods, lauded for its accessible, practical approach to analyzing data and solving research problems. Bayesian Data Analysis, Third Edition continues to take an applied approach to analysis using up-to-date Bayesian methods. The authors—all leaders in the statistics community—introduce basic concepts from a data-analytic perspective before presenting advanced methods. Throughout the text, numerous worked examples drawn from real applications and research emphasize the use of Bayesian inference in practice. New to the Third Edition Four new chapters on nonparametric modeling Coverage of weakly informative priors and boundary-avoiding priors Updated discussion of cross-validation and predictive information criteria Improved convergence monitoring and effective sample size calculations for iterative simulation Presentations of Hamiltonian Monte Carlo, variational Bayes, and expectation propagation New and revised software code The book can be used in three different ways. For undergraduate students, it introduces Bayesian inference starting from first principles. For graduate students, the text presents effective current approaches to Bayesian modeling and computation in statistics and related fields. For researchers, it provides an assortment of Bayesian methods in applied statistics. Additional materials, including data sets used in the examples, solutions to selected exercises, and software instructions, are available on the book’s web page.

Bayesian Modeling in Bioinformatics

Author : Dipak K. Dey
Publisher : CRC Press
ISBN 13 : 1420070185
Total Pages : 466 pages
Book Rating : 4.4/5 (2 download)

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Book Synopsis Bayesian Modeling in Bioinformatics by : Dipak K. Dey

Download or read book Bayesian Modeling in Bioinformatics written by Dipak K. Dey and published by CRC Press. This book was released on 2010-09-03 with total page 466 pages. Available in PDF, EPUB and Kindle. Book excerpt: Bayesian Modeling in Bioinformatics discusses the development and application of Bayesian statistical methods for the analysis of high-throughput bioinformatics data arising from problems in molecular and structural biology and disease-related medical research, such as cancer. It presents a broad overview of statistical inference, clustering, and c

Handbook of Statistical Genomics

Author : David J. Balding
Publisher : John Wiley & Sons
ISBN 13 : 1119429250
Total Pages : 1740 pages
Book Rating : 4.1/5 (194 download)

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Book Synopsis Handbook of Statistical Genomics by : David J. Balding

Download or read book Handbook of Statistical Genomics written by David J. Balding and published by John Wiley & Sons. This book was released on 2019-07-09 with total page 1740 pages. Available in PDF, EPUB and Kindle. Book excerpt: A timely update of a highly popular handbook on statistical genomics This new, two-volume edition of a classic text provides a thorough introduction to statistical genomics, a vital resource for advanced graduate students, early-career researchers and new entrants to the field. It introduces new and updated information on developments that have occurred since the 3rd edition. Widely regarded as the reference work in the field, it features new chapters focusing on statistical aspects of data generated by new sequencing technologies, including sequence-based functional assays. It expands on previous coverage of the many processes between genotype and phenotype, including gene expression and epigenetics, as well as metabolomics. It also examines population genetics and evolutionary models and inference, with new chapters on the multi-species coalescent, admixture and ancient DNA, as well as genetic association studies including causal analyses and variant interpretation. The Handbook of Statistical Genomics focuses on explaining the main ideas, analysis methods and algorithms, citing key recent and historic literature for further details and references. It also includes a glossary of terms, acronyms and abbreviations, and features extensive cross-referencing between chapters, tying the different areas together. With heavy use of up-to-date examples and references to web-based resources, this continues to be a must-have reference in a vital area of research. Provides much-needed, timely coverage of new developments in this expanding area of study Numerous, brand new chapters, for example covering bacterial genomics, microbiome and metagenomics Detailed coverage of application areas, with chapters on plant breeding, conservation and forensic genetics Extensive coverage of human genetic epidemiology, including ethical aspects Edited by one of the leading experts in the field along with rising stars as his co-editors Chapter authors are world-renowned experts in the field, and newly emerging leaders. The Handbook of Statistical Genomics is an excellent introductory text for advanced graduate students and early-career researchers involved in statistical genetics.

Genomics Data Analysis

Author : David R. Bickel
Publisher : CRC Press
ISBN 13 : 1000706915
Total Pages : 141 pages
Book Rating : 4.0/5 (7 download)

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Book Synopsis Genomics Data Analysis by : David R. Bickel

Download or read book Genomics Data Analysis written by David R. Bickel and published by CRC Press. This book was released on 2019-09-24 with total page 141 pages. Available in PDF, EPUB and Kindle. Book excerpt: Statisticians have met the need to test hundreds or thousands of genomics hypotheses simultaneously with novel empirical Bayes methods that combine advantages of traditional Bayesian and frequentist statistics. Techniques for estimating the local false discovery rate assign probabilities of differential gene expression, genetic association, etc. without requiring subjective prior distributions. This book brings these methods to scientists while keeping the mathematics at an elementary level. Readers will learn the fundamental concepts behind local false discovery rates, preparing them to analyze their own genomics data and to critically evaluate published genomics research. Key Features: * dice games and exercises, including one using interactive software, for teaching the concepts in the classroom * examples focusing on gene expression and on genetic association data and briefly covering metabolomics data and proteomics data * gradual introduction to the mathematical equations needed * how to choose between different methods of multiple hypothesis testing * how to convert the output of genomics hypothesis testing software to estimates of local false discovery rates * guidance through the minefield of current criticisms of p values * material on non-Bayesian prior p values and posterior p values not previously published

The Analysis of Gene Expression Data

Author : Giovanni Parmigiani
Publisher : Springer Science & Business Media
ISBN 13 : 0387216790
Total Pages : 511 pages
Book Rating : 4.3/5 (872 download)

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Book Synopsis The Analysis of Gene Expression Data by : Giovanni Parmigiani

Download or read book The Analysis of Gene Expression Data written by Giovanni Parmigiani and published by Springer Science & Business Media. This book was released on 2006-04-11 with total page 511 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents practical approaches for the analysis of data from gene expression micro-arrays. It describes the conceptual and methodological underpinning for a statistical tool and its implementation in software. The book includes coverage of various packages that are part of the Bioconductor project and several related R tools. The materials presented cover a range of software tools designed for varied audiences.

DNA Microarrays and Gene Expression

Author : Pierre Baldi
Publisher :
ISBN 13 : 9780511071676
Total Pages : 213 pages
Book Rating : 4.0/5 (716 download)

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Book Synopsis DNA Microarrays and Gene Expression by : Pierre Baldi

Download or read book DNA Microarrays and Gene Expression written by Pierre Baldi and published by . This book was released on 2002 with total page 213 pages. Available in PDF, EPUB and Kindle. Book excerpt: DNA microarrays are revolutionizing biology and medicine. They can provide a snapshot of the level of gene expression in a cell and are therefore a powerful tool with which to study biological phenomena at the molecular level. This inter-disciplinary introduction will be essential reading for researchers of all disciplines.

Nonlinear Mixture Models: A Bayesian Approach

Author : Tatiana V Tatarinova
Publisher : World Scientific
ISBN 13 : 1783266279
Total Pages : 296 pages
Book Rating : 4.7/5 (832 download)

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Book Synopsis Nonlinear Mixture Models: A Bayesian Approach by : Tatiana V Tatarinova

Download or read book Nonlinear Mixture Models: A Bayesian Approach written by Tatiana V Tatarinova and published by World Scientific. This book was released on 2014-12-30 with total page 296 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book, written by two mathematicians from the University of Southern California, provides a broad introduction to the important subject of nonlinear mixture models from a Bayesian perspective. It contains background material, a brief description of Markov chain theory, as well as novel algorithms and their applications. It is self-contained and unified in presentation, which makes it ideal for use as an advanced textbook by graduate students and as a reference for independent researchers. The explanations in the book are detailed enough to capture the interest of the curious reader, and complete enough to provide the necessary background material needed to go further into the subject and explore the research literature.In this book the authors present Bayesian methods of analysis for nonlinear, hierarchical mixture models, with a finite, but possibly unknown, number of components. These methods are then applied to various problems including population pharmacokinetics and gene expression analysis. In population pharmacokinetics, the nonlinear mixture model, based on previous clinical data, becomes the prior distribution for individual therapy. For gene expression data, one application included in the book is to determine which genes should be associated with the same component of the mixture (also known as a clustering problem). The book also contains examples of computer programs written in BUGS. This is the first book of its kind to cover many of the topics in this field.

Handbook of Research on Computational Methodologies in Gene Regulatory Networks

Author : Das, Sanjoy
Publisher : IGI Global
ISBN 13 : 1605666866
Total Pages : 740 pages
Book Rating : 4.6/5 (56 download)

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Book Synopsis Handbook of Research on Computational Methodologies in Gene Regulatory Networks by : Das, Sanjoy

Download or read book Handbook of Research on Computational Methodologies in Gene Regulatory Networks written by Das, Sanjoy and published by IGI Global. This book was released on 2009-10-31 with total page 740 pages. Available in PDF, EPUB and Kindle. Book excerpt: "This book focuses on methods widely used in modeling gene networks including structure discovery, learning, and optimization"--Provided by publisher.

A First Course in Bayesian Statistical Methods

Author : Peter D. Hoff
Publisher : Springer Science & Business Media
ISBN 13 : 0387924078
Total Pages : 270 pages
Book Rating : 4.3/5 (879 download)

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Book Synopsis A First Course in Bayesian Statistical Methods by : Peter D. Hoff

Download or read book A First Course in Bayesian Statistical Methods written by Peter D. Hoff and published by Springer Science & Business Media. This book was released on 2009-06-02 with total page 270 pages. Available in PDF, EPUB and Kindle. Book excerpt: A self-contained introduction to probability, exchangeability and Bayes’ rule provides a theoretical understanding of the applied material. Numerous examples with R-code that can be run "as-is" allow the reader to perform the data analyses themselves. The development of Monte Carlo and Markov chain Monte Carlo methods in the context of data analysis examples provides motivation for these computational methods.

Bayesian Nonparametrics

Author : Nils Lid Hjort
Publisher : Cambridge University Press
ISBN 13 : 1139484605
Total Pages : 309 pages
Book Rating : 4.1/5 (394 download)

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Book Synopsis Bayesian Nonparametrics by : Nils Lid Hjort

Download or read book Bayesian Nonparametrics written by Nils Lid Hjort and published by Cambridge University Press. This book was released on 2010-04-12 with total page 309 pages. Available in PDF, EPUB and Kindle. Book excerpt: Bayesian nonparametrics works - theoretically, computationally. The theory provides highly flexible models whose complexity grows appropriately with the amount of data. Computational issues, though challenging, are no longer intractable. All that is needed is an entry point: this intelligent book is the perfect guide to what can seem a forbidding landscape. Tutorial chapters by Ghosal, Lijoi and Prünster, Teh and Jordan, and Dunson advance from theory, to basic models and hierarchical modeling, to applications and implementation, particularly in computer science and biostatistics. These are complemented by companion chapters by the editors and Griffin and Quintana, providing additional models, examining computational issues, identifying future growth areas, and giving links to related topics. This coherent text gives ready access both to underlying principles and to state-of-the-art practice. Specific examples are drawn from information retrieval, NLP, machine vision, computational biology, biostatistics, and bioinformatics.

Current Trends in Bayesian Methodology with Applications

Author : Satyanshu K. Upadhyay
Publisher : CRC Press
ISBN 13 : 1482235129
Total Pages : 674 pages
Book Rating : 4.4/5 (822 download)

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Book Synopsis Current Trends in Bayesian Methodology with Applications by : Satyanshu K. Upadhyay

Download or read book Current Trends in Bayesian Methodology with Applications written by Satyanshu K. Upadhyay and published by CRC Press. This book was released on 2015-05-21 with total page 674 pages. Available in PDF, EPUB and Kindle. Book excerpt: Collecting Bayesian material scattered throughout the literature, Current Trends in Bayesian Methodology with Applications examines the latest methodological and applied aspects of Bayesian statistics. The book covers biostatistics, econometrics, reliability and risk analysis, spatial statistics, image analysis, shape analysis, Bayesian computation, clustering, uncertainty assessment, high-energy astrophysics, neural networking, fuzzy information, objective Bayesian methodologies, empirical Bayes methods, small area estimation, and many more topics. Each chapter is self-contained and focuses on a Bayesian methodology. It gives an overview of the area, presents theoretical insights, and emphasizes applications through motivating examples. This book reflects the diversity of Bayesian analysis, from novel Bayesian methodology, such as nonignorable response and factor analysis, to state-of-the-art applications in economics, astrophysics, biomedicine, oceanography, and other areas. It guides readers in using Bayesian techniques for a range of statistical analyses.

Gene Network Inference

Author : Alberto Fuente
Publisher : Springer Science & Business Media
ISBN 13 : 3642451616
Total Pages : 135 pages
Book Rating : 4.6/5 (424 download)

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Book Synopsis Gene Network Inference by : Alberto Fuente

Download or read book Gene Network Inference written by Alberto Fuente and published by Springer Science & Business Media. This book was released on 2014-01-03 with total page 135 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents recent methods for Systems Genetics (SG) data analysis, applying them to a suite of simulated SG benchmark datasets. Each of the chapter authors received the same datasets to evaluate the performance of their method to better understand which algorithms are most useful for obtaining reliable models from SG datasets. The knowledge gained from this benchmarking study will ultimately allow these algorithms to be used with confidence for SG studies e.g. of complex human diseases or food crop improvement. The book is primarily intended for researchers with a background in the life sciences, not for computer scientists or statisticians.

Optimal Bayesian Classification

Author : Lori A. Dalton
Publisher :
ISBN 13 : 9781510630697
Total Pages : pages
Book Rating : 4.6/5 (36 download)

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Book Synopsis Optimal Bayesian Classification by : Lori A. Dalton

Download or read book Optimal Bayesian Classification written by Lori A. Dalton and published by . This book was released on 2019 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt: "The most basic problem of engineering is the design of optimal operators. Design takes different forms depending on the random process constituting the scientific model and the operator class of interest. This book treats classification, where the underlying random process is a feature-label distribution, and an optimal operator is a Bayes classifier, which is a classifier minimizing the classification error. With sufficient knowledge we can construct the feature-label distribution and thereby find a Bayes classifier. Rarely, do we possess such knowledge. On the other hand, if we had unlimited data, we could accurately estimate the feature-label distribution and obtain a Bayes classifier. Rarely do we possess sufficient data. The aim of this book is to best use whatever knowledge and data are available to design a classifier. The book takes a Bayesian approach to modeling the feature-label distribution and designs an optimal classifier relative to a posterior distribution governing an uncertainty class of feature-label distributions. In this way it takes full advantage of knowledge regarding the underlying system and the available data. Its origins lie in the need to estimate classifier error when there is insufficient data to hold out test data, in which case an optimal error estimate can be obtained relative to the uncertainty class. A natural next step is to forgo classical ad hoc classifier design and simply find an optimal classifier relative to the posterior distribution over the uncertainty class-this being an optimal Bayesian classifier"--

Bayesian Networks

Author : Marco Scutari
Publisher : CRC Press
ISBN 13 : 1000410382
Total Pages : 275 pages
Book Rating : 4.0/5 (4 download)

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Book Synopsis Bayesian Networks by : Marco Scutari

Download or read book Bayesian Networks written by Marco Scutari and published by CRC Press. This book was released on 2021-07-28 with total page 275 pages. Available in PDF, EPUB and Kindle. Book excerpt: Explains the material step-by-step starting from meaningful examples Steps detailed with R code in the spirit of reproducible research Real world data analyses from a Science paper reproduced and explained in detail Examples span a variety of fields across social and life sciences Overview of available software in and outside R