Statistical Analysis Of Microbiome Data With R

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Statistical Analysis Of Microbiome Data With R

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Author : Yinglin Xia
language : en
Publisher: Springer
Release Date : 2018-10-06

Statistical Analysis Of Microbiome Data With R written by Yinglin Xia and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2018-10-06 with Computers categories.

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.

Bioinformatic And Statistical Analysis Of Microbiome Data

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Author : Yinglin Xia
language : en
Publisher: Springer Nature
Release Date : 2023-06-16

Bioinformatic And Statistical Analysis Of Microbiome Data written by Yinglin Xia and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2023-06-16 with Science categories.

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.

Applied Microbiome Statistics

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Author : Yinglin Xia
language : en
Publisher: CRC Press
Release Date : 2024-07-22

Applied Microbiome Statistics written by Yinglin Xia and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2024-07-22 with Mathematics categories.

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.

Statistical Analysis Of Microbiome Data

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Author : Somnath Datta
language : en
Publisher: Springer Nature
Release Date : 2021-10-27

Statistical Analysis Of Microbiome Data written by Somnath Datta and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2021-10-27 with Medical categories.

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.

Statistical Data Analysis Of Microbiomes And Metabolomics

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Author : Yinglin Xia
language : en
Publisher: American Chemical Society
Release Date : 2022-02-03

Statistical Data Analysis Of Microbiomes And Metabolomics written by Yinglin Xia and has been published by American Chemical Society this book supported file pdf, txt, epub, kindle and other format this book has been release on 2022-02-03 with Science categories.

Compared with other research fields, both microbiome and metabolomics data are complicated and have some unique characteristics, respectively. Thus, choosing an appropriate statistical test or method is a very important step in the analysis of microbiome and metabolomics data. However, this is still a difficult task for those biomedical researchers without a statistical background and for those biostatisticians who do not have research experiences in these fields. Graduate students studying microbiome and metabolomics; statisticians, working on microbiome and metabolomics projects, either for their own research, or for their collaborative research for experimental design, grant application, and data analysis; and researchers who investigate biomedical and biochemical projects with the microbiome, metabolome, and multi-omics data analysis will benefit from reading this work.

An Integrated Analysis Of Microbiomes And Metabolomics

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Author : Yinglin Xia
language : en
Publisher: American Chemical Society
Release Date : 2022-03-25

An Integrated Analysis Of Microbiomes And Metabolomics written by Yinglin Xia and has been published by American Chemical Society this book supported file pdf, txt, epub, kindle and other format this book has been release on 2022-03-25 with Science categories.

Because the microbial community is dynamic, an individual’s microbiota at a given time is varied, and many factors, including age, host genetics, diet, and the local environment, significantly change the microbiota. Thus, microbiome researchers have naturally expanded their research to look for insights into the interaction of the microbiome with other “omics”. Metabolites (small molecules) are the intermediate or end products of metabolism. Metabolites have various functions. The microbial-derived metabolites play an important role in the function of the microbiome. Thus, the advancement in microbiome studies is becoming particularly critical for the integration of microbial DNA sequencing data with other omics data, especially microbiome-metabolomics integration.

Inflammation Infection And Microbiome In Cancers

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Author : Jun Sun
language : en
Publisher: Springer Nature
Release Date : 2021-04-20

Inflammation Infection And Microbiome In Cancers written by Jun Sun and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2021-04-20 with Medical categories.

This book offers a summary and discussion of the advances of inflammation and infection in various cancers. The authors cover the classically known virus infections in cancer, novel roles of other pathogens (e.g. bacteria and fungi), as well as biomarkers for diagnosis and therapy. Further, the chapters highlight the progress of immune therapy, stem cells and the role of the microbiome in the pathophysiology of cancers. Readers will gain insights into complex microbial communities, that inhabit most external human surfaces and play a key role in health and disease. Perturbations of host-microbe interactions often lead to altered host responses that can promote cancer development. Thus, this book highlights emerging roles of the microbiome in pathogenesis of cancers and outcome of therapy. The focus is on mechanistic concepts that underlie the complex relationships between host and microbes. Approaches that can inhibit infection, suppress chronic inflammation and reverse the dysbiosis are discussed, as a means for restoring the balance between host and microbes. This comprehensive work will be beneficial to researchers and students interested in infectious diseases, microbiome, and cancer as well as clinicians and general physiologists.

The Microbiome In Health And Disease

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Author :
language : en
Publisher: Academic Press
Release Date : 2020-05-29

The Microbiome In Health And Disease written by and has been published by Academic Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2020-05-29 with Science categories.

The Microbiome in Health and Disease, Volume 171 in the Progress in Molecular Biology and Translational Science series, provides the most topical, informative and exciting monographs available on a wide variety of research topics. The series includes in-depth knowledge on the molecular biological aspects of organismal physiology, with this release including chapters on Microbiome in health and disease, CNS development and microbiome in infants, A gut feeling in ALS, Microbiome (Virome) and virus infection, Bugs and Drugs: microbiome in medicine metabolism, Immunity, T cells, and microbiome, Salmonella (Bacterial) infection and cancer: of mice and men, and many other highly researched topics. - Provides a novel theme and multiple disciplinary topics of microbiome research in basic and translational studies - Presents an updated collection on bacteria, virus, fungi and their interactions in microbiome - Includes a timely discussion on the tools and methods used for modeling and analysis of microbiome data

Big Data And Data Science

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Author : Dhaanyalakshmi Ahuja
language : en
Publisher: Educohack Press
Release Date : 2025-01-03

Big Data And Data Science written by Dhaanyalakshmi Ahuja and has been published by Educohack Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2025-01-03 with Computers categories.

Big Data and Data Science: Analytics for the Future dives into the fundamentals of big data and data science. We explain the data science life cycle and its major components, such as statistics and visualization, using various programming languages like R. As technology evolves, the significance of data science and big data analytics continues to grow, making this field increasingly important. Our book is designed in a reader-friendly manner, targeting newcomers to data science. Concepts are presented clearly and can be easily implemented through the procedures and algorithms provided. As data collection multiplies exponentially, analytics remains an evolving field with vast career opportunities. We cater to two types of readers: those skeptical about the benefits of big data and predictive analytics, and enthusiasts keen to explore current applications of these technologies. Big data is a fantastic choice for launching a career in IT, and this book equips you with the knowledge needed to succeed. We cover a broad spectrum of topics, ensuring a strong foundation in data science and big data analytics.

Microbiome And The Eye

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Author : Anat Galor
language : en
Publisher: Elsevier
Release Date : 2023-06-20

Microbiome And The Eye written by Anat Galor and has been published by Elsevier this book supported file pdf, txt, epub, kindle and other format this book has been release on 2023-06-20 with Science categories.

Microbiome and the Eye: What's the connection? highlights how alterations in the gut and eye microbiomes can lead to systemic immune alterations with subsequent effects on the eye. The book is divided into two sections, one highlighting how alterations in the gut microbiome impact various components of health outside the gut, with a focus on the immune system and inflammatory mediators, and the second focusing on studies on a variety of ocular diseases, including ocular surface diseases/dry eye, keratitis, uveitis, glaucoma, and retinopathy to gut dysbiosis. With its translational approach, the book is suitable for both researchers and clinicians. The book will help readers understand the mechanisms in which gut and eye microbiome composition may influence health in multiple compartments, with a focus on eye diseases. - Helps researchers understand the clinical eye diseases that have been linked to gut microbiome abnormalities - Helps clinicians understand the mechanisms in which gut microbiome composition may influence health in multiple compartments - Provides a foundation for future studies that consider gut microbiome manipulations as a treatment for specific eye diseases