Download or read book Multi Omics Analysis of the Human Microbiome written by Indra Mani and published by Springer Nature. This book was released on with total page 357 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Statistical Tools for the Multi omics Analysis of Microbiome Data written by Angela Zhang and published by . This book was released on 2022 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: The human microbiome consists of trillions of bacteria, archaea, and viruses that exist on virtually every organ in the body. The microbiome plays a fundamental role in human health and has been implicated in several different diseases and conditions such as cardiovascular disease and certain cancers. Understanding the functional role of the microbiome can lead to increased understanding of these complex diseases and result in the development of more effective treatments. Although advances in technology have allowed for the inexpensive processing and analysis of high-throughput data, several statistical challenges exist in the analysis of microbiome data. In my dissertation, I will present three projects that address the statistical challenges of high-dimensionality, multi-omics data integration, batch effects/other covariate adjustment, and the visualization of microbiome data. In Project 1, We address the issues of high-dimensionality and data integration by proposing a new procedure for testing the cumulative metabolic effect of the microbiome using a weighted variance component test framework. In this setup, we focus on metabolic pathways and recognize that metabolism can be represented by metagenomics (metabolic potential) and metabolomics (metabolic output). In Project 2, we address the issue of batch effects and high-dimensionality by outlining a two-step adjustment of the principal coordinates (PCs) of the microbial taxa data. In the first step, we project the mean effect of the unwanted covariates out of the PCs. In the second step, we adjust out the second moment of the same covariates from the PCs by assuming a linear relationship between the covariates and the variance of the PCs. Finally, in Project 3, we propose an effect modification testing procedure for evaluating interactions between microbial taxa and environmental factors on an outcome of interest. We address concerns of data integration and high-dimensionality by using a variance component test framework with LASSO-selected variables to assess the effect modification of the microbiome on environmental variables.
Download or read book Statistical and Computational Methods for Microbiome Multi Omics Data written by Himel Mallick and published by Frontiers Media SA. This book was released on 2020-11-19 with total page 170 pages. Available in PDF, EPUB and Kindle. Book excerpt: This eBook is a collection of articles from a Frontiers Research Topic. Frontiers Research Topics are very popular trademarks of the Frontiers Journals Series: they are collections of at least ten articles, all centered on a particular subject. With their unique mix of varied contributions from Original Research to Review Articles, Frontiers Research Topics unify the most influential researchers, the latest key findings and historical advances in a hot research area! Find out more on how to host your own Frontiers Research Topic or contribute to one as an author by contacting the Frontiers Editorial Office: frontiersin.org/about/contact.
Download or read book The Human Microbiome Diet and Health written by Food Forum and published by National Academies Press. This book was released on 2013-02-27 with total page 197 pages. Available in PDF, EPUB and Kindle. Book excerpt: The Food Forum convened a public workshop on February 22-23, 2012, to explore current and emerging knowledge of the human microbiome, its role in human health, its interaction with the diet, and the translation of new research findings into tools and products that improve the nutritional quality of the food supply. The Human Microbiome, Diet, and Health: Workshop Summary summarizes the presentations and discussions that took place during the workshop. Over the two day workshop, several themes covered included: The microbiome is integral to human physiology, health, and disease. The microbiome is arguably the most intimate connection that humans have with their external environment, mostly through diet. Given the emerging nature of research on the microbiome, some important methodology issues might still have to be resolved with respect to undersampling and a lack of causal and mechanistic studies. Dietary interventions intended to have an impact on host biology via their impact on the microbiome are being developed, and the market for these products is seeing tremendous success. However, the current regulatory framework poses challenges to industry interest and investment.
Download or read book Methodologies of Multi Omics Data Integration and Data Mining written by Kang Ning and published by Springer Nature. This book was released on 2023-01-15 with total page 173 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book features multi-omics big-data integration and data-mining techniques. In the omics age, paramount of multi-omics data from various sources is the new challenge we are facing, but it also provides clues for several biomedical or clinical applications. This book focuses on data integration and data mining methods for multi-omics research, which explains in detail and with supportive examples the “What”, “Why” and “How” of the topic. The contents are organized into eight chapters, out of which one is for the introduction, followed by four chapters dedicated for omics integration techniques focusing on several omics data resources and data-mining methods, and three chapters dedicated for applications of multi-omics analyses with application being demonstrated by several data mining methods. This book is an attempt to bridge the gap between the biomedical multi-omics big data and the data-mining techniques for the best practice of contemporary bioinformatics and the in-depth insights for the biomedical questions. It would be of interests for the researchers and practitioners who want to conduct the multi-omics studies in cancer, inflammation disease, and microbiome researches.
Download or read book Evolution of Translational Omics written by Institute of Medicine and published by National Academies Press. This book was released on 2012-09-13 with total page 354 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.
Download or read book The Microbiota in Gastrointestinal Pathophysiology written by Martin H. Floch and published by Academic Press. This book was released on 2016-11-16 with total page 444 pages. Available in PDF, EPUB and Kindle. Book excerpt: The Microbiota in Gastrointestinal Pathophysiology: Implications for Human Health, Prebiotics, Probiotics and Dysbiosis is a one-stop reference on the state-of-the-art research on gut microbial ecology in relation to human disease. This important resource starts with an overview of the normal microbiota of the gastrointestinal tract, including the esophagus, stomach, Ileum, and colon. The book then identifies what a healthy vs. unhealthy microbial community looks like, including methods of identification. Also included is insight into which features and contributions the microbiota make that are essential and useful to host physiology, as is information on how to promote appropriate mutualisms and prevent undesirable dysbioses. Through the power of synthesizing what is known by experienced researchers in the field, current gaps are closed, raising understanding of the role of the microbiome and allowing for further research. - Explains how to modify the gut microbiota and how the current strategies used to do this produce their effects - Explores the gut microbiota as a therapeutic target - Provides the synthesis of existing data from both mainstream and non-mainstream sources through experienced researchers in the field - Serves as a 'one-stop' shop for a topic that's currently spread across a number of various journals
Download or read book Multi omics Profiling of Unique Niches to Reveal the Microbial and Metabolite Composition written by Roshan Kumar and published by Frontiers Media SA. This book was released on 2022-09-29 with total page 179 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book The Chemistry of Microbiomes written by National Academies of Sciences, Engineering, and Medicine and published by National Academies Press. This book was released on 2017-07-19 with total page 133 pages. Available in PDF, EPUB and Kindle. Book excerpt: The 21st century has witnessed a complete revolution in the understanding and description of bacteria in eco- systems and microbial assemblages, and how they are regulated by complex interactions among microbes, hosts, and environments. The human organism is no longer considered a monolithic assembly of tissues, but is instead a true ecosystem composed of human cells, bacteria, fungi, algae, and viruses. As such, humans are not unlike other complex ecosystems containing microbial assemblages observed in the marine and earth environments. They all share a basic functional principle: Chemical communication is the universal language that allows such groups to properly function together. These chemical networks regulate interactions like metabolic exchange, antibiosis and symbiosis, and communication. The National Academies of Sciences, Engineering, and Medicine's Chemical Sciences Roundtable organized a series of four seminars in the autumn of 2016 to explore the current advances, opportunities, and challenges toward unveiling this "chemical dark matter" and its role in the regulation and function of different ecosystems. The first three focused on specific ecosystemsâ€"earth, marine, and humanâ€"and the last on all microbiome systems. This publication summarizes the presentations and discussions from the seminars.
Download or read book Multi omics Study on Gut Microbiota Related to Faecal Microbiota Transplantation written by Zhangran Chen and published by Frontiers Media SA. This book was released on 2022-07-18 with total page 131 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Integrative Analysis of Multi Omics Data Reveals Links Between Human Diseases and the Gu Microbiota written by Peishun Li and published by . This book was released on 2022 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Human Microbiome written by Sabu Thomas and published by Springer Nature. This book was released on 2022-02-02 with total page 269 pages. Available in PDF, EPUB and Kindle. Book excerpt: The human microbiome refers to the complete microorganisms inhabiting the human body sites including skin, ear, nose, oral cavity, the genital, gastrointestinal and respiratory tracts, and body fluids such as breast milk, saliva, and urine. It is a significant and essential organ recognized for the body and has an established involvement in the host wellbeing, in terms of nutritional requirements and immunomodulation. This book talks about how alteration and imbalance in the same can have clinical implications associated with a multitude of gastrointestinal, lifestyle-associated, and neurodegenerative disorders. How the proliferation of specific groups of bacteria and their metabolic activities, as a result of intestinal dysbiosis leads to the 'leaky gut' condition thereby influences brain activity via the bidirectional gut-brain axis. It also coves the importance of microbial seeding and how it can be influenced by the mode of delivery, nutrition, and medication. This book also provides various therapeutic interventions such as the establishment of stool banks and Faecal microbiota transplantation (FMT) that have recently proved promising in the treatment of ASD, Inflammatory Bowel Disease, and Ulcerative Colitis. This book provides a deeper understanding of the development of the human gut microbiome and the factors driving its dysbiosis. This book is a valuable read for health professionals, medical students, nutritionists, and scientific research communities who are eager to update themselves with recent trends in microbiome research. It will also aid gastroenterologists and nutritionists to make well-informed choices regarding therapeutic regimes.
Download or read book Human Microbiome written by Mohsin Khurshid and published by Springer Nature. This book was released on with total page 721 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Functional Metagenomics Tools and Applications written by Trevor C. Charles and published by Springer. This book was released on 2017-10-09 with total page 256 pages. Available in PDF, EPUB and Kindle. Book excerpt: In this book, the latest tools available for functional metagenomics research are described.This research enables scientists to directly access the genomes from diverse microbial genomes at one time and study these “metagenomes”. Using the modern tools of genome sequencing and cloning, researchers have now been able to harness this astounding metagenomic diversity to understand and exploit the diverse functions of microorganisms. Leading scientists from around the world demonstrate how these approaches have been applied in many different settings, including aquatic and terrestrial habitats, microbiomes, and many more environments. This is a highly informative and carefully presented book, providing microbiologists with a summary of the latest functional metagenomics literature on all specific habitats.
Download or read book Biological Insights of Multi Omics Technologies in Human Diseases written by Aarif Ali and published by Elsevier. This book was released on 2024-05-23 with total page 420 pages. Available in PDF, EPUB and Kindle. Book excerpt: "Biological Insights of Multi-Omics Technologies in Human Diseases ́ provides detailed information about the basics of multi-omic technologies including ethics, historical perspective, science, drug discovery, and development and metabolism. With a strong focus on the practical application of omics approaches in cancer, cardiovascular, neurology, respiratory, viral, gastroenterology, autoimmune diseases, PCOS and tuberculosis, this book also includes special topics related to COVID-19 and Machine learning approaches. In 13 chapters this book provides comprehensive coverage of the challenges and opportunities facing the therapeutic implications of multi-omics from academic, regulatory, pharmaceutical, socio-ethical, and economic perspectives. The chapters are designed in a well-defined chronology such that readers will intuitively understand the central idea. This book is an ideal resource for health professionals, scientists and researchers, nutritionists, health practitioners, students, and all those who wish to broaden their knowledge in the allied field. • Explains the in-depth role of multi-omics on drug discovery/metabolism, diseases, and highlights progress in both the research and clinical areas of computation, as well as relevant implementation experience and challenges. • Describes the practice of multi-omic technologies in the treatment of several diseases.• Includes practical application and machine learning approaches of multi-omics.
Download or read book From Data to Science written by Bastian Seelbinder and published by . This book was released on 2022* with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Humans represent a complex ecosystem colonized not only by our cells but trillions of other microbes such as bacteria, archaea, fungi, and viruses. This microbiome gains increasing interest due to its involvement in human health and disease. While we live in symbiosis with most of these travellers, dysbiosis can lead to the growth of pathogens. Pathobionts are commensal microbes and harmless in healthy individuals until specific circumstances occur. There is increasing interest in studying this pathobiome due to the rise in infections with high mortality rates and stagnant treatment options. Due to the complexity of possible interactions between the host and microbes, studies on microbial interactions are conducted at varying scales. In this thesis, we start to study interactions in small, well-controlled model systems in vitro and then at the community level in vivo. The key technology used to identify, quantify, and characterize microbes and study host- microbe interactions throughout my studies is whole-genome and transcriptome sequencing. While an extensive body of work has focused on understanding the virulence factors of common pathogens, such as Aspergillus and Candida species, very little work has been done on understanding the interplay of those pathogens with the host's symbionts or other pathogens at the start of my Ph.D. In my Ph.D. project, I used next- generation sequencing, advanced statistical approaches, and machine learning to significantly expanded our knowledge of the life of pathogens from an ecological point of view.
Download or read book Microbiome Analysis written by Robert G. Beiko and published by . This book was released on 2018 with total page 324 pages. Available in PDF, EPUB and Kindle. Book excerpt:
