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Author : James Hudson Bullard
Publisher :
ISBN 13 :
Total Pages : 400 pages
Book Rating : 4.:/5 (35 download)
Download or read book Statistical Methods and Software for High-throughput Gene Expression Experiments written by James Hudson Bullard and published by . This book was released on 2009 with total page 400 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Author : Terry Speed
Publisher : CRC Press
ISBN 13 : 0203011236
Total Pages : 237 pages
Book Rating : 4.2/5 (3 download)
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
Author : Altuna Akalin
Publisher : CRC Press
ISBN 13 : 1498781861
Total Pages : 463 pages
Book Rating : 4.4/5 (987 download)
Download or read book Computational Genomics with R written by Altuna Akalin and published by CRC Press. This book was released on 2020-12-16 with total page 463 pages. Available in PDF, EPUB and Kindle. Book excerpt: Computational Genomics with R provides a starting point for beginners in genomic data analysis and also guides more advanced practitioners to sophisticated data analysis techniques in genomics. The book covers topics from R programming, to machine learning and statistics, to the latest genomic data analysis techniques. The text provides accessible information and explanations, always with the genomics context in the background. This also contains practical and well-documented examples in R so readers can analyze their data by simply reusing the code presented. As the field of computational genomics is interdisciplinary, it requires different starting points for people with different backgrounds. For example, a biologist might skip sections on basic genome biology and start with R programming, whereas a computer scientist might want to start with genome biology. After reading: You will have the basics of R and be able to dive right into specialized uses of R for computational genomics such as using Bioconductor packages. You will be familiar with statistics, supervised and unsupervised learning techniques that are important in data modeling, and exploratory analysis of high-dimensional data. You will understand genomic intervals and operations on them that are used for tasks such as aligned read counting and genomic feature annotation. You will know the basics of processing and quality checking high-throughput sequencing data. You will be able to do sequence analysis, such as calculating GC content for parts of a genome or finding transcription factor binding sites. You will know about visualization techniques used in genomics, such as heatmaps, meta-gene plots, and genomic track visualization. You will be familiar with analysis of different high-throughput sequencing data sets, such as RNA-seq, ChIP-seq, and BS-seq. You will know basic techniques for integrating and interpreting multi-omics datasets. Altuna Akalin is a group leader and head of the Bioinformatics and Omics Data Science Platform at the Berlin Institute of Medical Systems Biology, Max Delbrück Center, Berlin. He has been developing computational methods for analyzing and integrating large-scale genomics data sets since 2002. He has published an extensive body of work in this area. The framework for this book grew out of the yearly computational genomics courses he has been organizing and teaching since 2015.
Author : Shein-Chung Chow
Publisher : CRC Press
ISBN 13 : 1351727117
Total Pages : 825 pages
Book Rating : 4.3/5 (517 download)
Download or read book Sample Size Calculations in Clinical Research written by Shein-Chung Chow and published by CRC Press. This book was released on 2017-08-15 with total page 825 pages. Available in PDF, EPUB and Kindle. Book excerpt: Praise for the Second Edition: "... this is a useful, comprehensive compendium of almost every possible sample size formula. The strong organization and carefully defined formulae will aid any researcher designing a study." -Biometrics "This impressive book contains formulae for computing sample size in a wide range of settings. One-sample studies and two-sample comparisons for quantitative, binary, and time-to-event outcomes are covered comprehensively, with separate sample size formulae for testing equality, non-inferiority, and equivalence. Many less familiar topics are also covered ..." – Journal of the Royal Statistical Society Sample Size Calculations in Clinical Research, Third Edition presents statistical procedures for performing sample size calculations during various phases of clinical research and development. A comprehensive and unified presentation of statistical concepts and practical applications, this book includes a well-balanced summary of current and emerging clinical issues, regulatory requirements, and recently developed statistical methodologies for sample size calculation. Features: Compares the relative merits and disadvantages of statistical methods for sample size calculations Explains how the formulae and procedures for sample size calculations can be used in a variety of clinical research and development stages Presents real-world examples from several therapeutic areas, including cardiovascular medicine, the central nervous system, anti-infective medicine, oncology, and women’s health Provides sample size calculations for dose response studies, microarray studies, and Bayesian approaches This new edition is updated throughout, includes many new sections, and five new chapters on emerging topics: two stage seamless adaptive designs, cluster randomized trial design, zero-inflated Poisson distribution, clinical trials with extremely low incidence rates, and clinical trial simulation.
Author : Francois Ferre
Publisher : Springer Science & Business Media
ISBN 13 : 1461241642
Total Pages : 379 pages
Book Rating : 4.4/5 (612 download)
Download or read book Gene Quantification written by Francois Ferre and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 379 pages. Available in PDF, EPUB and Kindle. Book excerpt: Geneticists and molecular biologists have been interested in quantifying genes and their products for many years and for various reasons (Bishop, 1974). Early molecular methods were based on molecular hybridization, and were devised shortly after Marmur and Doty (1961) first showed that denaturation of the double helix could be reversed - that the process of molecular reassociation was exquisitely sequence dependent. Gillespie and Spiegelman (1965) developed a way of using the method to titrate the number of copies of a probe within a target sequence in which the target sequence was fixed to a membrane support prior to hybridization with the probe - typically a RNA. Thus, this was a precursor to many of the methods still in use, and indeed under development, today. Early examples of the application of these methods included the measurement of the copy numbers in gene families such as the ribosomal genes and the immunoglo bulin family. Amplification of genes in tumors and in response to drug treatment was discovered by this method. In the same period, methods were invented for estimating gene num bers based on the kinetics of the reassociation process - the so-called Cot analysis. This method, which exploits the dependence of the rate of reassociation on the concentration of the two strands, revealed the presence of repeated sequences in the DNA of higher eukaryotes (Britten and Kohne, 1968). An adaptation to RNA, Rot analysis (Melli and Bishop, 1969), was used to measure the abundance of RNAs in a mixed population.
Author : John Aitchison
Publisher :
ISBN 13 : 9781930665781
Total Pages : 416 pages
Book Rating : 4.6/5 (657 download)
Download or read book The Statistical Analysis of Compositional Data written by John Aitchison and published by . This book was released on 2003 with total page 416 pages. Available in PDF, EPUB and Kindle. Book excerpt: Originally published in 1986, this text contains a new Foreword, extensive postscript detailing developments in the field since its first publication, and a selection of more recent literature references. The work provides a clear and systematic account of statistical methods designed to meet the special needs of the compositional data analyst. (Mathematics)
Author : Robert T. Gerlai
Publisher : Academic Press
ISBN 13 : 0128041161
Total Pages : 710 pages
Book Rating : 4.1/5 (28 download)
Download or read book Molecular-Genetic and Statistical Techniques for Behavioral and Neural Research written by Robert T. Gerlai and published by Academic Press. This book was released on 2018-04-24 with total page 710 pages. Available in PDF, EPUB and Kindle. Book excerpt: Molecular-Genetic and Statistical Techniques for Behavioral and Neural Research presents the most exciting molecular and recombinant DNA techniques used in the analysis of brain function and behavior, a critical piece of the puzzle for clinicians, scientists, course instructors and advanced undergraduate and graduate students. Chapters examine neuroinformatics, genetic and neurobehavioral databases and data mining, also providing an analysis of natural genetic variation and principles and applications of forward (mutagenesis) and reverse genetics (gene targeting). In addition, the book discusses gene expression and its role in brain function and behavior, along with ethical issues in the use of animals in genetics testing. Written and edited by leading international experts, this book provides a clear presentation of the frontiers of basic research as well as translationally relevant techniques that are used by neurobehavioral geneticists. - Focuses on new techniques, including electrocorticography, functional mapping, stereo EEG, motor evoked potentials, optical coherence tomography, magnetoencephalography, laser evoked potentials, transmagnetic stimulation, and motor evoked potentials - Presents the most exciting molecular and recombinant DNA techniques used in the analysis of brain function and behavior - Written and edited by leading international experts
Author : Robert Gentleman
Publisher : Springer Science & Business Media
ISBN 13 : 0387293620
Total Pages : 478 pages
Book Rating : 4.3/5 (872 download)
Download or read book Bioinformatics and Computational Biology Solutions Using R and Bioconductor written by Robert Gentleman and published by Springer Science & Business Media. This book was released on 2005-12-29 with total page 478 pages. Available in PDF, EPUB and Kindle. Book excerpt: Full four-color book. Some of the editors created the Bioconductor project and Robert Gentleman is one of the two originators of R. All methods are illustrated with publicly available data, and a major section of the book is devoted to fully worked case studies. Code underlying all of the computations that are shown is made available on a companion website, and readers can reproduce every number, figure, and table on their own computers.
Author : Florian Hahne
Publisher : Springer Science & Business Media
ISBN 13 : 0387772405
Total Pages : 287 pages
Book Rating : 4.3/5 (877 download)
Download or read book Bioconductor Case Studies written by Florian Hahne and published by Springer Science & Business Media. This book was released on 2010-06-09 with total page 287 pages. Available in PDF, EPUB and Kindle. Book excerpt: Bioconductor software has become a standard tool for the analysis and comprehension of data from high-throughput genomics experiments. Its application spans a broad field of technologies used in contemporary molecular biology. In this volume, the authors present a collection of cases to apply Bioconductor tools in the analysis of microarray gene expression data. Topics covered include: (1) import and preprocessing of data from various sources; (2) statistical modeling of differential gene expression; (3) biological metadata; (4) application of graphs and graph rendering; (5) machine learning for clustering and classification problems; (6) gene set enrichment analysis. Each chapter of this book describes an analysis of real data using hands-on example driven approaches. Short exercises help in the learning process and invite more advanced considerations of key topics. The book is a dynamic document. All the code shown can be executed on a local computer, and readers are able to reproduce every computation, figure, and table.
Author : Lee Harland
Publisher : Elsevier
ISBN 13 : 1908818247
Total Pages : 583 pages
Book Rating : 4.9/5 (88 download)
Download or read book Open Source Software in Life Science Research written by Lee Harland and published by Elsevier. This book was released on 2012-10-31 with total page 583 pages. Available in PDF, EPUB and Kindle. Book excerpt: The free/open source approach has grown from a minor activity to become a significant producer of robust, task-orientated software for a wide variety of situations and applications. To life science informatics groups, these systems present an appealing proposition - high quality software at a very attractive price. Open source software in life science research considers how industry and applied research groups have embraced these resources, discussing practical implementations that address real-world business problems.The book is divided into four parts. Part one looks at laboratory data management and chemical informatics, covering software such as Bioclipse, OpenTox, ImageJ and KNIME. In part two, the focus turns to genomics and bioinformatics tools, with chapters examining GenomicsTools and EBI Atlas software, as well as the practicalities of setting up an 'omics' platform and managing large volumes of data. Chapters in part three examine information and knowledge management, covering a range of topics including software for web-based collaboration, open source search and visualisation technologies for scientific business applications, and specific software such as DesignTracker and Utopia Documents. Part four looks at semantic technologies such as Semantic MediaWiki, TripleMap and Chem2Bio2RDF, before part five examines clinical analytics, and validation and regulatory compliance of free/open source software. Finally, the book concludes by looking at future perspectives and the economics and free/open source software in industry. - Discusses a broad range of applications from a variety of sectors - Provides a unique perspective on work normally performed behind closed doors - Highlights the criteria used to compare and assess different approaches to solving problems
Author : Rafael A. Irizarry
Publisher : CRC Press
ISBN 13 : 1498775861
Total Pages : 537 pages
Book Rating : 4.4/5 (987 download)
Download or read book Data Analysis for the Life Sciences with R written by Rafael A. Irizarry and published by CRC Press. This book was released on 2016-10-04 with total page 537 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.
Author : Naiara Rodríguez-Ezpeleta
Publisher : Springer Science & Business Media
ISBN 13 : 1461407826
Total Pages : 258 pages
Book Rating : 4.4/5 (614 download)
Download or read book Bioinformatics for High Throughput Sequencing written by Naiara Rodríguez-Ezpeleta and published by Springer Science & Business Media. This book was released on 2011-10-26 with total page 258 pages. Available in PDF, EPUB and Kindle. Book excerpt: Next generation sequencing is revolutionizing molecular biology. Owing to this new technology it is now possible to carry out a panoply of experiments at an unprecedented low cost and high speed. These go from sequencing whole genomes, transcriptomes and small non-coding RNAs to description of methylated regions, identification protein – DNA interaction sites and detection of structural variation. The generation of gigabases of sequence information for each of this huge bandwidth of applications in just a few days makes the development of bioinformatics applications for next generation sequencing data analysis as urgent as challenging.
Author : Xinkun Wang
Publisher : CRC Press
ISBN 13 : 1482217899
Total Pages : 252 pages
Book Rating : 4.4/5 (822 download)
Download or read book Next-Generation Sequencing Data Analysis written by Xinkun Wang and published by CRC Press. This book was released on 2016-04-06 with total page 252 pages. Available in PDF, EPUB and Kindle. Book excerpt: A Practical Guide to the Highly Dynamic Area of Massively Parallel SequencingThe development of genome and transcriptome sequencing technologies has led to a paradigm shift in life science research and disease diagnosis and prevention. Scientists are now able to see how human diseases and phenotypic changes are connected to DNA mutation, polymorphi
Author : Sorin Draghici
Publisher : CRC Press
ISBN 13 : 1439809763
Total Pages : 1036 pages
Book Rating : 4.4/5 (398 download)
Download or read book Statistics and Data Analysis for Microarrays Using R and Bioconductor written by Sorin Draghici and published by CRC Press. This book was released on 2016-04-19 with total page 1036 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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,
Author : Jennifer Frazier Bryan
Publisher :
ISBN 13 :
Total Pages : 180 pages
Book Rating : 4.:/5 (34 download)
Download or read book Statistical Methods for Gene Expression Analysis from CDNA Microarrays written by Jennifer Frazier Bryan and published by . This book was released on 2001 with total page 180 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Author : Somnath Datta
Publisher : Springer
ISBN 13 : 3319072129
Total Pages : 438 pages
Book Rating : 4.3/5 (19 download)
Download or read book Statistical Analysis of Next Generation Sequencing Data written by Somnath Datta and published by Springer. This book was released on 2014-07-03 with total page 438 pages. Available in PDF, EPUB and Kindle. Book excerpt: Next Generation Sequencing (NGS) is the latest high throughput technology to revolutionize genomic research. NGS generates massive genomic datasets that play a key role in the big data phenomenon that surrounds us today. To extract signals from high-dimensional NGS data and make valid statistical inferences and predictions, novel data analytic and statistical techniques are needed. This book contains 20 chapters written by prominent statisticians working with NGS data. The topics range from basic preprocessing and analysis with NGS data to more complex genomic applications such as copy number variation and isoform expression detection. Research statisticians who want to learn about this growing and exciting area will find this book useful. In addition, many chapters from this book could be included in graduate-level classes in statistical bioinformatics for training future biostatisticians who will be expected to deal with genomic data in basic biomedical research, genomic clinical trials and personalized medicine. About the editors: Somnath Datta is Professor and Vice Chair of Bioinformatics and Biostatistics at the University of Louisville. He is Fellow of the American Statistical Association, Fellow of the Institute of Mathematical Statistics and Elected Member of the International Statistical Institute. He has contributed to numerous research areas in Statistics, Biostatistics and Bioinformatics. Dan Nettleton is Professor and Laurence H. Baker Endowed Chair of Biological Statistics in the Department of Statistics at Iowa State University. He is Fellow of the American Statistical Association and has published research on a variety of topics in statistics, biology and bioinformatics.
Author : Darius M. Dziuda
Publisher : John Wiley & Sons
ISBN 13 : 0470593407
Total Pages : 348 pages
Book Rating : 4.4/5 (75 download)
Download or read book Data Mining for Genomics and Proteomics written by Darius M. Dziuda and published by John Wiley & Sons. This book was released on 2010-07-16 with total page 348 pages. Available in PDF, EPUB and Kindle. Book excerpt: Data Mining for Genomics and Proteomics uses pragmatic examples and a complete case study to demonstrate step-by-step how biomedical studies can be used to maximize the chance of extracting new and useful biomedical knowledge from data. It is an excellent resource for students and professionals involved with gene or protein expression data in a variety of settings.
