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Statistical Analysis of Microbiome Data, Datta Somnath, Guha Subharup


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Автор: Datta Somnath, Guha Subharup
Название:  Statistical Analysis of Microbiome Data
ISBN: 9783030733506
Издательство: Springer
Классификация:





ISBN-10: 3030733505
Обложка/Формат: Hardcover
Страницы: 242
Вес: 0.68 кг.
Дата издания: 30.10.2021
Серия: Frontiers in probability and the statistical sciences
Язык: English
Издание: 1st ed. 2021
Иллюстрации: 2 tables, color; 49 illustrations, color; 15 illustrations, black and white; xiv, 346 p. 64 illus., 49 illus. in color.; 2 tables, color; 49 illustrat
Размер: 23.39 x 15.60 x 2.06 cm
Читательская аудитория: Professional & vocational
Ссылка на Издательство: Link
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Поставляется из: Германии
Описание: 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.


Statistical Analysis of Microbiome Data with R

Автор: Xia Yinglin, Sun Jun, Chen Ding-Geng
Название: Statistical Analysis of Microbiome Data with R
ISBN: 9811315337 ISBN-13(EAN): 9789811315336
Издательство: Springer
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Цена: 18294.00 р.
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Описание: Chapter 1: Introduction to R, RStudio and ggplot2 1.1 Introduction to R 1.2 Introduction to RStudio 1.3 Introduction to ggplot2 1.4 Introduction to R Packages for Microbiome Data
Chapter 2: What are Microbiome Data?2.1 Phylogenetics--The Basics 2.2 What Microbiome Data Look Like? 2.2.1 Basic Data Structure and Format of Microbiome Data 2.2.2 OUT Table2.2 3 Response Variables and Covariates2.3 Some Specific Features of Microbiome Data
Chapter 3: Bioinformatic and Statistical Analyses of Microbiome Data 3.1 Overview of Bioinformatic Analysis 3.1.1 Taxonomic Diversity: from the 16S-based Approach 3.1.2 Taxonomic Profiling of Shotgun Metagenomes3.1.3 Introduction to Bioinformatic toolso QIIME o Mothuro 16S rRNA Gene Sequence Data Analysis using QIIME and Mothuro Other Biostatistics Tools3.2 Statistical Analysis of Microbiome Community Composition 3.2.1 Alpha Diversity Analysis and Statistical Measurements 3.2.2 Beta Diversity Analysis and Statistical Measurements3.3 Multivariate Statistical Techniques 3.3.1Data Visualization: Principal Component and Principal Coordinates Analyses 3.3.2 Classification and Clustering with Visualization 3.4 Hypothesis Testing and Statistical Modeling 3.4.1 Statistical Testing of Microbiome Community 3.4.2 Multivariate Statistical Methods and Modeling of Microbiome Community and Environmental Covariates3.4.3 Mediational and Longitudinal Microbiome Data Analysis3.4.4 Host Interactions and Interventions3.4.5 Mediation Analysis and Longitudinal Analysis 3.5 Multiple Comparisons and Testing Correlation 3.6 Correlation Analysis of Microbiome Community and Environmental Covariates
Chapter 4: Power and Sample Size Calculation in Hypothesis Testing Microbiome Data4.1 Statistical Hypothesis Testing and Power Analysis 4.1.1 Hypothesis Testing 4.1.2 Power Analysis and Sample Size Calculation4.2 Comparing Diversity or a Taxon of Interest between Two Groups 4.2.1 Hypotheses and Basic Power and Sample Size Formulas4.2.2 Diversity Data for Vitamin D and Vitamin D Receptor Study4.2.3 Theory of Power for a Test for Comparing Proportions4.2.4 Power of Fisher's Exact Test for Comparing Proportions4.2.5 R Function power.t.test4.3 Comparing Diversity across More than Two Groups 4.3.1 Hypotheses and Theory of Power for One-Way ANOVA4.3.2 Examples4.3.2 R Function pwr.avova.test4.4 Comparing the Frequency of all Taxa across Groups4.4.1 Hypotheses Testing and Power and Sample Size Calculations for Comparing all Taxa4.4.2 Dirichlet-multinomial model in Power and Sample Size Analyses4.4.3 Power and Size Calculations using HMP Package4.5 Power and Sample Size Estimation using Pairwise Distances and PERMANOVA 4.5.1 PERMANOVA and Estimation of PERMANOVA Power 4.5.2 Examples using micropower Package4.6 Power Calculations using ANOSIM Package
Chapter 5: Microbiome Data Management5.1 Data Importing and Merging datasets or components 5.1.1 Importing the Output from QIIME 5.1.2 Importing the Output from mothur&

Metagenomic Systems Biology: Integrative Analysis of the Microbiome

Автор: Singh Shailza
Название: Metagenomic Systems Biology: Integrative Analysis of the Microbiome
ISBN: 981158561X ISBN-13(EAN): 9789811585616
Издательство: Springer
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Цена: 19514.00 р.
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Описание: The book serves as an amalgamation of knowledge and principles used in the area of systems and synthetic biology, and targets inter-disciplinary research groups.

Microbiome Analysis

Автор: Beiko
Название: Microbiome Analysis
ISBN: 1493987267 ISBN-13(EAN): 9781493987269
Издательство: Springer
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Цена: 15855.00 р.
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Описание: This volume aims to capture the entire microbiome analysis pipeline, sample collection, quality assurance, and computational analysis of the resulting data. Chapters detail several example applications of microbiome research, and the protocols described in this book are complemented with short perspectives about the history, current state, and future directions of protocols in microbiomics. 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.Authoritative and cutting-edge, Microbiome Analysis: Methods and Protocols aims to ensure successful results in the further study of this vital field.

The Brazilian Microbiome

Автор: Victor Pylro; Luiz Roesch
Название: The Brazilian Microbiome
ISBN: 3319867555 ISBN-13(EAN): 9783319867557
Издательство: Springer
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Цена: 12196.00 р.
Наличие на складе: Нет в наличии.

Описание: Brazilian Microbiome: Current status and perspectives unites a set of distinguished investigators conducting microbiome research and builds a comprehensive reference book with up-to-date information regarding the Brazilian microbiome studies and trends.

Understanding Host-Microbiome Interactions - An Omics Approach

Автор: Ravindra Pal Singh; Ramesh Kothari; Prakash G. Kor
Название: Understanding Host-Microbiome Interactions - An Omics Approach
ISBN: 9811353042 ISBN-13(EAN): 9789811353048
Издательство: Springer
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Цена: 24392.00 р.
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Описание: This book offers up-to-date information on different microbiomes, their community composition and interactive functions with the host, bringing together information from diverse research reports to provide an overview of the rapid developments in meta-omics technologies. It is a valuable resource for scientists, researchers, postgraduate and graduate students interested in understanding the impact and importance of next generation sequencing technologies on different hosts and their microbiomes.

Functional Importance of the Plant Microbiome

Автор: Sharon Lafferty Doty
Название: Functional Importance of the Plant Microbiome
ISBN: 3319658964 ISBN-13(EAN): 9783319658964
Издательство: Springer
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Цена: 15855.00 р.
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Описание:

This book addresses all the major mechanisms by which endophytes are thought to impact plant growth and health. A unique aspect of this publication is that it is multidisciplinary, covering plant microbiology, plant physiology, fungal and bacterial endophytes, plant biochemistry, and genomics.

Just as research on the mammalian microbiome has demonstrated its importance for overall health of the host, the plant microbiota is essential for plant health in natural environments. Endophytes, the microorganisms living fully within plants, can provide a multitude of benefits to the host including N-fixation, P solubilization, increased photosynthetic efficiency and water use efficiency, stress tolerance, pathogen resistance, and overall increased growth and health. A variety of culturable endophytes have been isolated and shown to be mutualistic symbionts with a broad range of plant species. These studies point to the functional importance of the microbiota of plants and suggest the potential for tailoring plant microbiota for improved vigor and yields with reduced inputs. This review covers the major benefits of microbial endophytes to plants and discusses the implications of using symbiosis as an alternative to chemical inputs for agriculture, forestry, and bioenergy.

Microbiome Community Ecology

Автор: Muhammad Saleem
Название: Microbiome Community Ecology
ISBN: 3319116649 ISBN-13(EAN): 9783319116648
Издательство: Springer
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Цена: 6707.00 р.
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Описание: Chapter 1.

Microbiome ecosystem ecology: unseen majority in an anthropogenic ecosystem

Authors: M. Saleem

Abstract

1. Microbiome ecosystem ecology

References

Chapter 2.

Theories, mechanisms and patterns of microbiome species coexistence in an era of climate change

Authors: M. Saleem, ZH Pervaiz, MB Traw

Abstract

2.1. Niche theory and microbial diversity

2.1.1. Temperature-metabolic theory of ecology

(i). Thermal niche specialization

(ii). Temperature as a driver of ecological divergence, evolution, speciation and thermal niche evolution trade-offs

2.1.2. Implication of habitat heterogeneity in determining ecological niche

(i). Resource heterogeneity

Factors determining resource heterogeneity

Optimal foraging theory of ecology

r/K selection theory of ecology

(ii). Role of habitat physical structure and variations in determining ecological niche

(iii). Role of habitat pH in determining ecological niche

(iv). Role of biotic factors in determining ecological niche

2.2. Island biogeography theory and microbial diversity

2.2.1. Ecology theory of species area relationship

2.2.2 Ecological theory of distance decay relationships (DDR)

(i). Elevational patterns of microbial diversity

(ii). Latitudinal pattern of microbial diversity

2.3. Species-time relationships (STRs)

2.4. Neutral theory and microbial diversity

References

Chapter 3.

Eco-evolutionary processes regulating microbiome community assembly in a changing global ecosystem

Authors: M. Saleem

Abstract

3. Processes underlying microbiome community assembly

3.1. Selection

3.1.1. Constant selection pressure

3.1.2. Frequency- or density-dependent selection

(i). Negative frequency- or density-dependent selection

(ii). Positive frequency- or density-dependent selection

(iii). Spatially- or temporally-variable selection

3.2. Drift

3.2.1. Ecological drift

3.2.2. Evolutionary or genetic drift

3.2.3. Neutral drift

3.3. Dispersal

3.3.1. Environmental factors determining dispersal

(i). Dispersal in air/atmospheric ecosystem and air mediated microbial dispersal

(ii). Water currents and movement

(iii). Nutrients-mediated microbial dispersal

(iv). Miscellaneous factors determining microbial dispersal

3.3.2. Factors liming the dispersal of microbes

3.4. Diversification, speciation and mutation

5. Dormancy

References

Chapter 4.

Loss of microbiome ecological niches and diversity by global change and trophic downgrading

Authors: M. Saleem

Abstract

4. Habitat alteration, trophic downgrading and microbiome biodiversity loss

4.1. Atmosphere ecosystem

4.2. Phyllosphere ecosystem

4.3 Rhizosphere ecosystem

4.4. Human and animal ecosystem

4.5 Aquatic ecosystems

4.6 Extreme ecosystems

4.6. Miscellaneous

References

Chapter 5.

Microbiome mediated multitrophic interactions in an age of microbial extinction

Authors: M. Saleem

Abstract

5.1. Trophic interactions

5.1.1 Trophic interactions with protists predators

5.1.2. Trophic interactions with predatory bacteria

5.1.3. Trophic interactions with viruses

5.1.4. Multi-trophic interactions

5.2 Non-trophic interactions

References

Chapter 6.

Global microbiome for agroecology, industry and human well-being: opportunities and challenges in climate change

Authors: M. Saleem

Fundamentals of Microbiome Science: How Microbes Shape Animal Biology

Автор: Douglas Angela E.
Название: Fundamentals of Microbiome Science: How Microbes Shape Animal Biology
ISBN: 0691217718 ISBN-13(EAN): 9780691217710
Издательство: Wiley
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Цена: 4435.00 р.
Наличие на складе: Есть у поставщика Поставка под заказ.

Описание:

An essential introduction to microbiome science, a new cutting-edge discipline that is transforming the life sciences

This book provides an accessible and authoritative guide to the fundamental principles of microbiome science, an exciting and fast-emerging new discipline that is reshaping many aspects of the life sciences. Resident microbes in healthy animals--including humans-can dictate many traits of the animal host. This animal microbiome is a second immune system conferring protection against pathogens; it can structure host metabolism in animals as diverse as reef corals and hibernating mammals; and it may influence animal behavior, from social recognition to emotional states. These microbial partners can also drive ecologically important traits, from thermal tolerance to diet, and have contributed to animal diversification over long evolutionary timescales.

Drawing on concepts and data across a broad range of disciplines and systems, Angela Douglas provides a conceptual framework for understanding these animal-microbe interactions while shedding critical light on the scientific challenges that lie ahead. Douglas explains why microbiome science demands creative and interdisciplinary thinking-the capacity to combine microbiology with animal physiology, ecological theory with immunology, and evolutionary perspectives with metabolic science.

An essential introduction to a cutting-edge field that is revolutionizing the life sciences, this book explains why microbiome science presents a more complete picture of the biology of humans and other animals, and how it can deliver novel therapies for many medical conditions and new strategies for pest control.

Oral Mucosal Immunity and Microbiome

Автор: Georgios N. Belibasakis; George Hajishengallis; Na
Название: Oral Mucosal Immunity and Microbiome
ISBN: 3030285235 ISBN-13(EAN): 9783030285234
Издательство: Springer
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Цена: 24392.00 р.
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Описание: The first International Conference on Oral Mucosal Immunity and Microbiome (OMIM) aimed to highlight cutting-edge basic and translational research from an oral immunological and microbiological perspective. Oral diseases with a microbial etiology are the most prevalent chronic diseases of humans. Whilst not life-threatening, they can significantly compromise quality of life, are associated with increased risk for certain systemic diseases, and pose heavy financial burdens to national health systems. Hence, periodontal and peri-implant diseases, dental caries, root canal infections and mucosal infections are significant global public health problems.

In this book global experts summarize and discuss the latest progress made in oral mucosal immunity and the oral microbiome. Target audience is basic and/or translational researchers with expertise in host immunity and microbiome research, and interest in oral health and disease. This volume provides a much needed quantum leap in the field, by joining forces to address gaps at the oral mucosal immunity-microbiome cross-talk.
Investigating human diseases with the microbiome

Автор: Jia, Huijue (director, Shenzhen Key Laboratory Of Human Commensal Microorganisms And Health Research, Bgi-shenzhen; Mentor For Graduate Students, Bgi
Название: Investigating human diseases with the microbiome
ISBN: 0323913695 ISBN-13(EAN): 9780323913690
Издательство: Elsevier Science
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Цена: 21391.00 р.
Наличие на складе: Нет в наличии.

Описание: Thoroughly written, extensively updated, and optimized for today`s evolving Canadian healthcare environment,Psychiatric & Mental Health Nursing for Canadian Practice,5th Edition, equips students with the fundamental knowledge and skills to effectively care for diverse populations in psychiatric and mental health nursing practice. This proven, approachable text instills a generalist-level mastery of psychiatric and mental health promotion, assessment, and interventions in adults, families, children, adolescents, and older adults, delivering Canadian students the preparation they need to excel on the NCLEX(R) exam and make a confident transition to clinical practice.

Gut Microbiome-Related Diseases and Therapies

Автор: Gazouli Maria, Theodoropoulos George
Название: Gut Microbiome-Related Diseases and Therapies
ISBN: 3030596443 ISBN-13(EAN): 9783030596446
Издательство: Springer
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Цена: 19514.00 р.
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Описание: This book reviews recent knowledge of the role of gut microbiome in health and disease. It covers extensive topics for several diseases, including metabolic-related diseases, allergies, gastrointestinal diseases, psychiatric diseases, and cancer, while also discussing therapeutic approaches by microbiota modification.

Microbiome in Inflammatory Lung Diseases

Автор: Gupta
Название: Microbiome in Inflammatory Lung Diseases
ISBN: 9811689563 ISBN-13(EAN): 9789811689567
Издательство: Springer
Рейтинг:
Цена: 24392.00 р.
Наличие на складе: Нет в наличии.

Описание: This book reviews the role of the lung microbiome in the development and progression of lung diseases. It deals with the role of microbiota dysbiosis in influencing host defense and immunity leading to resistance, colonization, and disease exacerbation. The book delineates the complex interaction between pathogen and lung residual microbiota during disease conditions. It further highlights the potential role of lung microbiota as the key modulator of lung carcinogenesis and immune response against cancer cells. Lastly, it reviews technological developments for unraveling the lung microbiome that profoundly impacts clinical diagnostics. This book is an essential resource for the scientists working in pulmonary diseases, pharmaceutical & clinical sciences, and pulmonary clinicians.


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