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Statistics for Bioinformatics

Statistics for Bioinformatics
Methods for Multiple Sequence Alignment

by Julie Thompson

  • Publisher : Elsevier
  • Release : 2016-11-24
  • Pages : 146
  • ISBN : 0081019610
  • Language : En, Es, Fr & De
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Statistics for Bioinformatics: Methods for Multiple Sequence Alignment provides an in-depth introduction to the most widely used methods and software in the bioinformatics field. With the ever increasing flood of sequence information from genome sequencing projects, multiple sequence alignment has become one of the cornerstones of bioinformatics. Multiple sequence alignments are crucial for genome annotation, as well as the subsequent structural, functional, and evolutionary studies of genes and gene products. Consequently, there has been renewed interest in the development of novel multiple sequence alignment algorithms and more efficient programs. Explains the dynamics that animate health systems Explores tracks to build sustainable and equal architecture of health systems Examines the advantages and disadvantages of the different approaches to care integration and the management of health information

Statistical Methods in Bioinformatics

Statistical Methods in Bioinformatics
An Introduction

by Warren J. Ewens,Gregory R. Grant

  • Publisher : Springer Science & Business Media
  • Release : 2006-03-30
  • Pages : 598
  • ISBN : 0387266488
  • Language : En, Es, Fr & De
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Advances in computers and biotechnology have had a profound impact on biomedical research, and as a result complex data sets can now be generated to address extremely complex biological questions. Correspondingly, advances in the statistical methods necessary to analyze such data are following closely behind the advances in data generation methods. The statistical methods required by bioinformatics present many new and difficult problems for the research community. This book provides an introduction to some of these new methods. The main biological topics treated include sequence analysis, BLAST, microarray analysis, gene finding, and the analysis of evolutionary processes. The main statistical techniques covered include hypothesis testing and estimation, Poisson processes, Markov models and Hidden Markov models, and multiple testing methods. The second edition features new chapters on microarray analysis and on statistical inference, including a discussion of ANOVA, and discussions of the statistical theory of motifs and methods based on the hypergeometric distribution. Much material has been clarified and reorganized. The book is written so as to appeal to biologists and computer scientists who wish to know more about the statistical methods of the field, as well as to trained statisticians who wish to become involved with bioinformatics. The earlier chapters introduce the concepts of probability and statistics at an elementary level, but with an emphasis on material relevant to later chapters and often not covered in standard introductory texts. Later chapters should be immediately accessible to the trained statistician. Sufficient mathematical background consists of introductory courses in calculus and linear algebra. The basic biological concepts that are used are explained, or can be understood from the context, and standard mathematical concepts are summarized in an Appendix. Problems are provided at the end of each chapter allowing the reader to develop aspects of the theory outlined in the main text. Warren J. Ewens holds the Christopher H. Brown Distinguished Professorship at the University of Pennsylvania. He is the author of two books, Population Genetics and Mathematical Population Genetics. He is a senior editor of Annals of Human Genetics and has served on the editorial boards of Theoretical Population Biology, GENETICS, Proceedings of the Royal Society B and SIAM Journal in Mathematical Biology. He is a fellow of the Royal Society and the Australian Academy of Science. Gregory R. Grant is a senior bioinformatics researcher in the University of Pennsylvania Computational Biology and Informatics Laboratory. He obtained his Ph.D. in number theory from the University of Maryland in 1995 and his Masters in Computer Science from the University of Pennsylvania in 1999. Comments on the first edition: "This book would be an ideal text for a postgraduate course...[and] is equally well suited to individual study.... I would recommend the book highly." (Biometrics) "Ewens and Grant have given us a very welcome introduction to what is behind those pretty [graphical user] interfaces." (Naturwissenschaften) "The authors do an excellent job of presenting the essence of the material without getting bogged down in mathematical details." (Journal American Statistical Association) "The authors have restructured classical material to a great extent and the new organization of the different topics is one of the outstanding services of the book." (Metrika)

Modern Statistics for Modern Biology

Modern Statistics for Modern Biology
A Book

by Susan Holmes,Wolfgang Huber

  • Publisher : Cambridge University Press
  • Release : 2018-11-30
  • Pages : 400
  • ISBN : 1108427022
  • Language : En, Es, Fr & De
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A far-reaching course in practical advanced statistics for biologists using R/Bioconductor, data exploration, and simulation.

Handbook of Statistical Bioinformatics

Handbook of Statistical Bioinformatics
A Book

by Henry Horng-Shing Lu,Bernhard Schölkopf,Hongyu Zhao

  • Publisher : Springer Science & Business Media
  • Release : 2011-05-17
  • Pages : 630
  • ISBN : 9783642163456
  • Language : En, Es, Fr & De
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Numerous fascinating breakthroughs in biotechnology have generated large volumes and diverse types of high throughput data that demand the development of efficient and appropriate tools in computational statistics integrated with biological knowledge and computational algorithms. This volume collects contributed chapters from leading researchers to survey the many active research topics and promote the visibility of this research area. This volume is intended to provide an introductory and reference book for students and researchers who are interested in the recent developments of computational statistics in computational biology.

Advances in Statistical Bioinformatics

Advances in Statistical Bioinformatics
Models and Integrative Inference for High-Throughput Data

by Kim-Anh Do,Steven Qin,Marina Vannucci

  • Publisher : Cambridge University Press
  • Release : 2013-06-10
  • Pages : 514
  • ISBN : 1107027527
  • Language : En, Es, Fr & De
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"Chapter 1 An introduction to next-generation biological platforms Virginia Mohlere, Wenting Wang, and Ganiraju Manyam The University of Texas. MD Anderson Cancer Center 1.1 Introduction When Sanger and Coulson first described a reliable, efficient method for DNA sequencing in 1975 (Sanger and Coulson, 1975), they made possible the full sequencing of both genes and entire genomes. Although the method was resource-intensive, many institutions invested in the necessary equipment, and Sanger sequencing remained the standard for the next 30 years. Refinement of the process increased read lengths from around 25 to 2 Mohlere, Wang, and Manyam almost 750 base pairs (Schadt et al., 2010, fig. 1). While this greatly increased efficiency and reliability, the Sanger method still required not only large equipment but significant human investment, as the process requires the work of several people. This prompted researchers and companies such as Applied Biosystems to seek improved sequencing techniques and instruments. Starting in the late 2000s, new instruments came on the market that, although they actually decreased read length, lessened run time and could be operated more easily with fewer human resources (Schadt et al., 2010). Despite discoveries that have illuminated new therapeutic targets, clarified the role of specific mutations in clinical response, and yielded new methods for diagnosis and predicting prognosis (Chin et al., 2011), the initial promise of genomic data has largely remained so far unfulfilled. The difficulties are numerous"--

Statistical Bioinformatics

Statistical Bioinformatics
For Biomedical and Life Science Researchers

by Jae K. Lee

  • Publisher : John Wiley & Sons
  • Release : 2011-09-20
  • Pages : 364
  • ISBN : 1118211529
  • Language : En, Es, Fr & De
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This book provides an essential understanding of statistical concepts necessary for the analysis of genomic and proteomic data using computational techniques. The author presents both basic and advanced topics, focusing on those that are relevant to the computational analysis of large data sets in biology. Chapters begin with a description of a statistical concept and a current example from biomedical research, followed by more detailed presentation, discussion of limitations, and problems. The book starts with an introduction to probability and statistics for genome-wide data, and moves into topics such as clustering, classification, multi-dimensional visualization, experimental design, statistical resampling, and statistical network analysis. Clearly explains the use of bioinformatics tools in life sciences research without requiring an advanced background in math/statistics Enables biomedical and life sciences researchers to successfully evaluate the validity of their results and make inferences Enables statistical and quantitative researchers to rapidly learn novel statistical concepts and techniques appropriate for large biological data analysis Carefully revisits frequently used statistical approaches and highlights their limitations in large biological data analysis Offers programming examples and datasets Includes chapter problem sets, a glossary, a list of statistical notations, and appendices with references to background mathematical and technical material Features supplementary materials, including datasets, links, and a statistical package available online Statistical Bioinformatics is an ideal textbook for students in medicine, life sciences, and bioengineering, aimed at researchers who utilize computational tools for the analysis of genomic, proteomic, and many other emerging high-throughput molecular data. It may also serve as a rapid introduction to the bioinformatics science for statistical and computational students and audiences who have not experienced such analysis tasks before.

Exam Prep for: Statistics for Bioinformatics

Exam Prep for: Statistics for Bioinformatics
A Book

by Anonim

  • Publisher : Unknown Publisher
  • Release : 2021
  • Pages : 329
  • ISBN : 9876543210XXX
  • Language : En, Es, Fr & De
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Statistical Methods in Bioinformatics

Statistical Methods in Bioinformatics
An Introduction

by Warren J. Ewens,Gregory R. Grant

  • Publisher : Springer Science & Business Media
  • Release : 2013-03-09
  • Pages : 476
  • ISBN : 1475732473
  • Language : En, Es, Fr & De
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There was a real need for a book that introduces statistics and probability as they apply to bioinformatics. This book presents an accessible introduction to elementary probability and statistics and describes the main statistical applications in the field.

Bayesian Modeling in Bioinformatics

Bayesian Modeling in Bioinformatics
A Book

by Dipak K. Dey,Samiran Ghosh,Bani K. Mallick

  • Publisher : CRC Press
  • Release : 2010-09-03
  • Pages : 466
  • ISBN : 1420070185
  • Language : En, Es, Fr & De
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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

Bayesian Methods in Structural Bioinformatics

Bayesian Methods in Structural Bioinformatics
A Book

by Thomas Hamelryck,Kanti Mardia,Jesper Ferkinghoff-Borg

  • Publisher : Springer
  • Release : 2012-03-23
  • Pages : 386
  • ISBN : 3642272258
  • Language : En, Es, Fr & De
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This book is an edited volume, the goal of which is to provide an overview of the current state-of-the-art in statistical methods applied to problems in structural bioinformatics (and in particular protein structure prediction, simulation, experimental structure determination and analysis). It focuses on statistical methods that have a clear interpretation in the framework of statistical physics, rather than ad hoc, black box methods based on neural networks or support vector machines. In addition, the emphasis is on methods that deal with biomolecular structure in atomic detail. The book is highly accessible, and only assumes background knowledge on protein structure, with a minimum of mathematical knowledge. Therefore, the book includes introductory chapters that contain a solid introduction to key topics such as Bayesian statistics and concepts in machine learning and statistical physics.

Statistical Bioinformatics with R

Statistical Bioinformatics with R
A Book

by Sunil K. Mathur

  • Publisher : Academic Press
  • Release : 2010
  • Pages : 319
  • ISBN : 9780123751041
  • Language : En, Es, Fr & De
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Designed for a one or two semester senior undergraduate or graduate bioinformatics course, Statistical Bioinformatics takes a broad view of the subject - not just gene expression and sequence analysis, but a careful balance of statistical theory in the context of bioinformatics applications. The inclusion of R code as well as the development of advanced methodology such as Bayesian and Markov models provides students with the important foundation needed to conduct bioinformatics. Ancillary list: * Online ISM- http://textbooks.elsevier.com/web/manuals.aspx?isbn=9780123751041 * Companion Website w/ R code and Ebook- http://textbooks.elsevier.com/web/manuals.aspx?isbn=9780123751041 * Powerpoint slides- http://textbooks.elsevier.com/web/Manuals.aspx?isbn=9780123751041 Integrates biological, statistical and computational concepts Inclusion of R & SAS code Provides coverage of complex statistical methods in context with applications in bioinformatics Exercises and examples aid teaching and learning presented at the right level Bayesian methods and the modern multiple testing principles in one convenient book

Bioinformatics and Computational Biology Solutions Using R and Bioconductor

Bioinformatics and Computational Biology Solutions Using R and Bioconductor
A Book

by Robert Gentleman,Vincent Carey,Wolfgang Huber,Rafael Irizarry,Sandrine Dudoit

  • Publisher : Springer Science & Business Media
  • Release : 2006-01-27
  • Pages : 474
  • ISBN : 0387293620
  • Language : En, Es, Fr & De
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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.

Statistical Modelling and Machine Learning Principles for Bioinformatics Techniques, Tools, and Applications

Statistical Modelling and Machine Learning Principles for Bioinformatics Techniques, Tools, and Applications
A Book

by K. G. Srinivasa,G. M. Siddesh,S. R. Manisekhar

  • Publisher : Springer
  • Release : 2021-01-31
  • Pages : 317
  • ISBN : 9789811524479
  • Language : En, Es, Fr & De
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This book discusses topics related to bioinformatics, statistics, and machine learning, presenting the latest research in various areas of bioinformatics. It also highlights the role of computing and machine learning in knowledge extraction from biological data, and how this knowledge can be applied in fields such as drug design, health supplements, gene therapy, proteomics and agriculture.

Introduction to Bioinformatics with R

Introduction to Bioinformatics with R
A Practical Guide for Biologists

by Edward Curry

  • Publisher : CRC Press
  • Release : 2020-11-02
  • Pages : 298
  • ISBN : 1351015303
  • Language : En, Es, Fr & De
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In biological research, the amount of data available to researchers has increased so much over recent years, it is becoming increasingly difficult to understand the current state of the art without some experience and understanding of data analytics and bioinformatics. An Introduction to Bioinformatics with R: A Practical Guide for Biologists leads the reader through the basics of computational analysis of data encountered in modern biological research. With no previous experience with statistics or programming required, readers will develop the ability to plan suitable analyses of biological datasets, and to use the R programming environment to perform these analyses. This is achieved through a series of case studies using R to answer research questions using molecular biology datasets. Broadly applicable statistical methods are explained, including linear and rank-based correlation, distance metrics and hierarchical clustering, hypothesis testing using linear regression, proportional hazards regression for survival data, and principal component analysis. These methods are then applied as appropriate throughout the case studies, illustrating how they can be used to answer research questions. Key Features: · Provides a practical course in computational data analysis suitable for students or researchers with no previous exposure to computer programming. · Describes in detail the theoretical basis for statistical analysis techniques used throughout the textbook, from basic principles · Presents walk-throughs of data analysis tasks using R and example datasets. All R commands are presented and explained in order to enable the reader to carry out these tasks themselves. · Uses outputs from a large range of molecular biology platforms including DNA methylation and genotyping microarrays; RNA-seq, genome sequencing, ChIP-seq and bisulphite sequencing; and high-throughput phenotypic screens. · Gives worked-out examples geared towards problems encountered in cancer research, which can also be applied across many areas of molecular biology and medical research. This book has been developed over years of training biological scientists and clinicians to analyse the large datasets available in their cancer research projects. It is appropriate for use as a textbook or as a practical book for biological scientists looking to gain bioinformatics skills.

R Programming for Bioinformatics

R Programming for Bioinformatics
A Book

by Robert Gentleman

  • Publisher : CRC Press
  • Release : 2008-07-14
  • Pages : 328
  • ISBN : 9781420063684
  • Language : En, Es, Fr & De
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Due to its data handling and modeling capabilities as well as its flexibility, R is becoming the most widely used software in bioinformatics. R Programming for Bioinformatics explores the programming skills needed to use this software tool for the solution of bioinformatics and computational biology problems. Drawing on the author’s first-hand experiences as an expert in R, the book begins with coverage on the general properties of the R language, several unique programming aspects of R, and object-oriented programming in R. It presents methods for data input and output as well as database interactions. The author also examines different facets of string handling and manipulations, discusses the interfacing of R with other languages, and describes how to write software packages. He concludes with a discussion on the debugging and profiling of R code. With numerous examples and exercises, this practical guide focuses on developing R programming skills in order to tackle problems encountered in bioinformatics and computational biology.

Algebraic Statistics for Computational Biology

Algebraic Statistics for Computational Biology
A Book

by L. Pachter,B. Sturmfels

  • Publisher : Cambridge University Press
  • Release : 2005-08-22
  • Pages : 420
  • ISBN : 9780521857000
  • Language : En, Es, Fr & De
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This book, first published in 2005, offers an introduction to the application of algebraic statistics to computational biology.

Statistical Modelling in Biostatistics and Bioinformatics

Statistical Modelling in Biostatistics and Bioinformatics
Selected Papers

by Gilbert MacKenzie,Defen Peng

  • Publisher : Springer Science & Business Media
  • Release : 2014-05-08
  • Pages : 244
  • ISBN : 3319045792
  • Language : En, Es, Fr & De
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This book presents selected papers on statistical model development related mainly to the fields of Biostatistics and Bioinformatics. The coverage of the material falls squarely into the following categories: (a) Survival analysis and multivariate survival analysis, (b) Time series and longitudinal data analysis, (c) Statistical model development and (d) Applied statistical modelling. Innovations in statistical modelling are presented throughout each of the four areas, with some intriguing new ideas on hierarchical generalized non-linear models and on frailty models with structural dispersion, just to mention two examples. The contributors include distinguished international statisticians such as Philip Hougaard, John Hinde, Il Do Ha, Roger Payne and Alessandra Durio, among others, as well as promising newcomers. Some of the contributions have come from researchers working in the BIO-SI research programme on Biostatistics and Bioinformatics, centred on the Universities of Limerick and Galway in Ireland and funded by the Science Foundation Ireland under its Mathematics Initiative.

Bioinformatics in Human Health and Heredity

Bioinformatics in Human Health and Heredity
A Book

by Ranajit Chakraborty,Calyampudi Radhakrishna Rao,Pranab Kumar Sen

  • Publisher : Newnes
  • Release : 2012
  • Pages : 560
  • ISBN : 0444518754
  • Language : En, Es, Fr & De
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The field of statistics not only affects all areas of scientific activity, but also many other matters such as public policy. It is branching rapidly into so many different subjects that a series of handbooks is the only way of comprehensively presenting the various aspects of statistical methodology, applications, and recent developments. The Handbook of Statistics, a series of self-contained reference books. Each volume is devoted to a particular topic in statistics with Volume 28 dealing with bioinformatics. Every chapter is written by prominent workers in the area to which the volume is devoted. The series is addressed to the entire community of statisticians and scientists in various disciplines who use statistical methodology in their work. At the same time, special emphasis is placed on applications-oriented techniques, with the applied statistician in mind as the primary audience. Comprehensively presents the various aspects of statistical methodology Discusses a wide variety of diverse applications and recent developments Contributors are internationally renowned experts in their respective areas

Statistical Analysis of Next Generation Sequencing Data

Statistical Analysis of Next Generation Sequencing Data
A Book

by Somnath Datta,Dan Nettleton

  • Publisher : Springer
  • Release : 2014-07-03
  • Pages : 432
  • ISBN : 3319072129
  • Language : En, Es, Fr & De
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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.

Computational Genome Analysis

Computational Genome Analysis
An Introduction

by Richard C. Deonier,Simon Tavaré,Michael Waterman

  • Publisher : Springer Science & Business Media
  • Release : 2007-08-13
  • Pages : 535
  • ISBN : 9780387987859
  • Language : En, Es, Fr & De
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This book presents the foundations of key problems in computational molecular biology and bioinformatics. It focuses on computational and statistical principles applied to genomes, and introduces the mathematics and statistics that are crucial for understanding these applications. The book features a free download of the R software statistics package and the text provides great crossover material that is interesting and accessible to students in biology, mathematics, statistics and computer science. More than 100 illustrations and diagrams reinforce concepts and present key results from the primary literature. Exercises are given at the end of chapters.