Statistical Analysis of Microbiome Data with R PDF Download
Are you looking for read ebook online? Search for your book and save it on your Kindle device, PC, phones or tablets. Download Statistical Analysis of Microbiome Data with R PDF full book. Access full book title Statistical Analysis of Microbiome Data with R by Yinglin Xia. Download full books in PDF and EPUB format.
Author: Yinglin Xia
Publisher: Springer
ISBN: 9811315345
Category : Computers
Languages : en
Pages : 518
Get Book Here
Book Description
This unique book addresses the statistical modelling and analysis of microbiome data using cutting-edge R software. It includes real-world data from the authors’ research and from the public domain, and discusses the implementation of R for data analysis step by step. The data and R computer programs are publicly available, allowing readers to replicate the model development and data analysis presented in each chapter, so that these new methods can be readily applied in their own research. The book also discusses recent developments in statistical modelling and data analysis in microbiome research, as well as the latest advances in next-generation sequencing and big data in methodological development and applications. This timely book will greatly benefit all readers involved in microbiome, ecology and microarray data analyses, as well as other fields of research.
Author: Yinglin Xia
Publisher: Springer
ISBN: 9811315345
Category : Computers
Languages : en
Pages : 518
Get Book Here
Book Description
This unique book addresses the statistical modelling and analysis of microbiome data using cutting-edge R software. It includes real-world data from the authors’ research and from the public domain, and discusses the implementation of R for data analysis step by step. The data and R computer programs are publicly available, allowing readers to replicate the model development and data analysis presented in each chapter, so that these new methods can be readily applied in their own research. The book also discusses recent developments in statistical modelling and data analysis in microbiome research, as well as the latest advances in next-generation sequencing and big data in methodological development and applications. This timely book will greatly benefit all readers involved in microbiome, ecology and microarray data analyses, as well as other fields of research.
Author: Yinglin Xia
Publisher: Springer Nature
ISBN: 3031213912
Category : Science
Languages : en
Pages : 717
Get Book Here
Book Description
This unique book addresses the bioinformatic and statistical modelling and also the analysis of microbiome data using cutting-edge QIIME 2 and R software. It covers core analysis topics in both bioinformatics and statistics, which provides a complete workflow for microbiome data analysis: from raw sequencing reads to community analysis and statistical hypothesis testing. It includes real-world data from the authors’ research and from the public domain, and discusses the implementation of QIIME 2 and R for data analysis step-by-step. The data as well as QIIME 2 and R computer programs are publicly available, allowing readers to replicate the model development and data analysis presented in each chapter so that these new methods can be readily applied in their own research. Bioinformatic and Statistical Analysis of Microbiome Data is an ideal book for advanced graduate students and researchers in the clinical, biomedical, agricultural, and environmental fields, as well as those studying bioinformatics, statistics, and big data analysis.
Author: Somnath Datta
Publisher: Springer Nature
ISBN: 3030733513
Category : Medical
Languages : en
Pages : 349
Get Book Here
Book Description
Microbiome research has focused on microorganisms that live within the human body and their effects on health. During the last few years, the quantification of microbiome composition in different environments has been facilitated by the advent of high throughput sequencing technologies. The statistical challenges include computational difficulties due to the high volume of data; normalization and quantification of metabolic abundances, relative taxa and bacterial genes; high-dimensionality; multivariate analysis; the inherently compositional nature of the data; and the proper utilization of complementary phylogenetic information. This has resulted in an explosion of statistical approaches aimed at tackling the unique opportunities and challenges presented by microbiome data. This book provides a comprehensive overview of the state of the art in statistical and informatics technologies for microbiome research. In addition to reviewing demonstrably successful cutting-edge methods, particular emphasis is placed on examples in R that rely on available statistical packages for microbiome data. With its wide-ranging approach, the book benefits not only trained statisticians in academia and industry involved in microbiome research, but also other scientists working in microbiomics and in related fields.
Author: Robert G. Beiko
Publisher:
ISBN: 9781493987283
Category : Microbiology
Languages : en
Pages : 324
Get Book Here
Book Description
Author: Yinglin Xia
Publisher: CRC Press
ISBN: 1040045669
Category : Mathematics
Languages : en
Pages : 457
Get Book Here
Book Description
This unique book officially defines microbiome statistics as a specific new field of statistics and addresses the statistical analysis of correlation, association, interaction, and composition in microbiome research. It also defines the study of the microbiome as a hypothesis-driven experimental science and describes two microbiome research themes and six unique characteristics of microbiome data, as well as investigating challenges for statistical analysis of microbiome data using the standard statistical methods. This book is useful for researchers of biostatistics, ecology, and data analysts. Presents a thorough overview of statistical methods in microbiome statistics of parametric and nonparametric correlation, association, interaction, and composition adopted from classical statistics and ecology and specifically designed for microbiome research. Performs step-by-step statistical analysis of correlation, association, interaction, and composition in microbiome data. Discusses the issues of statistical analysis of microbiome data: high dimensionality, compositionality, sparsity, overdispersion, zero-inflation, and heterogeneity. Investigates statistical methods on multiple comparisons and multiple hypothesis testing and applications to microbiome data. Introduces a series of exploratory tools to visualize composition and correlation of microbial taxa by barplot, heatmap, and correlation plot. Employs the Kruskal–Wallis rank-sum test to perform model selection for further multi-omics data integration. Offers R code and the datasets from the authors’ real microbiome research and publicly available data for the analysis used. Remarks on the advantages and disadvantages of each of the methods used.
Author: Brooke Fridley
Publisher: Springer Nature
ISBN: 1071629867
Category : Science
Languages : en
Pages : 377
Get Book Here
Book Description
This volume provides a collection of protocols from researchers in the statistical genomics field. Chapters focus on integrating genomics with other “omics” data, such as transcriptomics, epigenomics, proteomics, metabolomics, and metagenomics. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting-edge and thorough, Statistical Genomics hopes that by covering these diverse and timely topics researchers are provided insights into future directions and priorities of pan-omics and the precision medicine era.
Author: Rama Kant Dubey
Publisher: Springer
ISBN: 3030155161
Category : Nature
Languages : en
Pages : 118
Get Book Here
Book Description
This book explores the significance of soil microbial diversity to understand its utility in soil functions, ecosystem services, environmental sustainability, and achieving the sustainable development goals. With a focus on agriculture and environment, the book highlights the importance of the microbial world by providing state-of-the-art technologies for examining the structural and functional attributes of soil microbial diversity for applications in healthcare, industrial biotechnology, and bioremediation studies. In seven chapters, the book will act as a primer for students, environmental biotechnologists, microbial ecologists, plant scientists, and agricultural microbiologists. Chapter 1 introduces readers to the soil microbiome, and chapter 2 discusses the below ground microbial world. Chapter 3 addresses various methods for exploring microbial diversity, chapter 4 discusses the genomics methods, chapter 5 provides the metaproteomics and metatranscriptomics approaches and chapter 6 details the bioinformatics tools for soil microbial community analysis, and chapter 7 concludes the text with future perspectives on further soil microbial uses and applications.
Author:
Publisher: Elsevier
ISBN: 0443222916
Category : Science
Languages : en
Pages : 630
Get Book Here
Book Description
Advances in Host Genetics and Microbiome in Colorectal Cancer-Related Phenotypes, Volume 112 in the Advances in Genetics series, highlights new advances in the field with this new volume presenting interesting chapters on topics such as What we need in colorectal cancer research, and why?, Host Genetics and Microbiota procedures in colorectal cancer research, Host Genetics-associated mechanisms in colorectal cancer, Microbiota-associated mechanisms in colorectal cancer, Inflammation regulation in colorectal cancer, Microbiota and detrimental protein metabolites in colorectal cancer, Microbiota and other detrimental metabolites in colorectal cancer, Microbiota and beneficial metabolites in colorectal cancer, and much more. - Provides the authority and expertise of leading contributors from an international board of authors - Presents the latest release in the Advances in Genetics series - Includes the latest information on new advancements in the study of genetics
Author: Joginder Singh Panwar
Publisher: Elsevier
ISBN: 0443236925
Category : Science
Languages : en
Pages : 739
Get Book Here
Book Description
Rhizomicrobiome: Current Status and Future Prospects for Agriculture and Environment explores the important potential of biocontrol agents in the reduction of overexploitation of synthetic pesticides, enhancing crop production, and maintaining the natural texture and health of agricultural soils. As concerns about sustainable production challenge current practices, this book presents opportunities for utilizing biological systems as part of the solution. Rhizomicrobiome is a significant part of plant biological system which impacts the plant growth and survival in different physiological conditions. Its composition includes different microbial networks whose presence is mainly impacted by the root exudates. Archaea, bacteria, protozoa, fungi, oomycetes, nematodes, microarthropods etc. are the significant parts of the rhizomicrobiome. Rhizomicrobiome could be that novel ecosystem housing the bioinoculants that can help create sustainable, productive growth environments. Written by a team of global experts Rhizomicrobiome explores the full range of rhizomicrobiome topics including sustainable agriculture, food security, and environmental management and will be a valuable resource for researchers, academics and advanced students. - Introduces the latest advancement in the sustainable agricultural practices, microbial biocontrol, and environmental management - Presents the prospects of, wide applications of, traditional uses of, and modern practices of harnessing the potential of rhizomicrobiome - Includes informative illustrations of recent trends of phyto and soil microbiome
Author: Institute of Medicine
Publisher: National Academies Press
ISBN: 0309224187
Category : Science
Languages : en
Pages : 354
Get Book Here
Book Description
Technologies collectively called omics enable simultaneous measurement of an enormous number of biomolecules; for example, genomics investigates thousands of DNA sequences, and proteomics examines large numbers of proteins. Scientists are using these technologies to develop innovative tests to detect disease and to predict a patient's likelihood of responding to specific drugs. Following a recent case involving premature use of omics-based tests in cancer clinical trials at Duke University, the NCI requested that the IOM establish a committee to recommend ways to strengthen omics-based test development and evaluation. This report identifies best practices to enhance development, evaluation, and translation of omics-based tests while simultaneously reinforcing steps to ensure that these tests are appropriately assessed for scientific validity before they are used to guide patient treatment in clinical trials.
