System Biology Methods and Tools for Integrating Omics Data - Volume II PDF Download

Author: Liang Cheng
Publisher: Frontiers Media SA
ISBN: 2889769151
Category : Science
Languages : en
Pages : 158

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Author: Institute of Medicine
Publisher: National Academies Press
ISBN: 0309224187
Category : Science
Languages : en
Pages : 354

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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.

Author: Antonia Vlahou
Publisher: John Wiley & Sons
ISBN: 1119181143
Category : Science
Languages : en
Pages : 386

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Book Description
Introduces readers to the state of the art of omics platforms and all aspects of omics approaches for clinical applications This book presents different high throughput omics platforms used to analyze tissue, plasma, and urine. The reader is introduced to state of the art analytical approaches (sample preparation and instrumentation) related to proteomics, peptidomics, transcriptomics, and metabolomics. In addition, the book highlights innovative approaches using bioinformatics, urine miRNAs, and MALDI tissue imaging in the context of clinical applications. Particular emphasis is put on integration of data generated from these different platforms in order to uncover the molecular landscape of diseases. The relevance of each approach to the clinical setting is explained and future applications for patient monitoring or treatment are discussed. Integration of omics Approaches and Systems Biology for Clinical Applications presents an overview of state of the art omics techniques. These methods are employed in order to obtain the comprehensive molecular profile of biological specimens. In addition, computational tools are used for organizing and integrating these multi-source data towards developing molecular models that reflect the pathophysiology of diseases. Investigation of chronic kidney disease (CKD) and bladder cancer are used as test cases. These represent multi-factorial, highly heterogeneous diseases, and are among the most significant health issues in developed countries with a rapidly aging population. The book presents novel insights on CKD and bladder cancer obtained by omics data integration as an example of the application of systems biology in the clinical setting. Describes a range of state of the art omics analytical platforms Covers all aspects of the systems biology approach—from sample preparation to data integration and bioinformatics analysis Contains specific examples of omics methods applied in the investigation of human diseases (Chronic Kidney Disease, Bladder Cancer) Integration of omics Approaches and Systems Biology for Clinical Applications will appeal to a wide spectrum of scientists including biologists, biotechnologists, biochemists, biophysicists, and bioinformaticians working on the different molecular platforms. It is also an excellent text for students interested in these fields.

Author: George Tseng
Publisher: Cambridge University Press
ISBN: 1107069114
Category : Mathematics
Languages : en
Pages : 497

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Tutorial chapters by leaders in the field introduce state-of-the-art methods to handle information integration problems of omics data.

Author: Kim-Anh Lê Cao
Publisher: CRC Press
ISBN: 1000472191
Category : Computers
Languages : en
Pages : 316

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Book Description
Large biological data, which are often noisy and high-dimensional, have become increasingly prevalent in biology and medicine. There is a real need for good training in statistics, from data exploration through to analysis and interpretation. This book provides an overview of statistical and dimension reduction methods for high-throughput biological data, with a specific focus on data integration. It starts with some biological background, key concepts underlying the multivariate methods, and then covers an array of methods implemented using the mixOmics package in R. Features: Provides a broad and accessible overview of methods for multi-omics data integration Covers a wide range of multivariate methods, each designed to answer specific biological questions Includes comprehensive visualisation techniques to aid in data interpretation Includes many worked examples and case studies using real data Includes reproducible R code for each multivariate method, using the mixOmics package The book is suitable for researchers from a wide range of scientific disciplines wishing to apply these methods to obtain new and deeper insights into biological mechanisms and biomedical problems. The suite of tools introduced in this book will enable students and scientists to work at the interface between, and provide critical collaborative expertise to, biologists, bioinformaticians, statisticians and clinicians.

Author: Liang Cheng
Publisher: Frontiers Media SA
ISBN: 2889663337
Category : Science
Languages : en
Pages : 233

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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.

Author: Peter G. Doyle
Publisher: American Mathematical Soc.
ISBN: 1614440220
Category : Electric network topology
Languages : en
Pages : 174

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Probability theory, like much of mathematics, is indebted to physics as a source of problems and intuition for solving these problems. Unfortunately, the level of abstraction of current mathematics often makes it difficult for anyone but an expert to appreciate this fact. Random Walks and electric networks looks at the interplay of physics and mathematics in terms of an example—the relation between elementary electric network theory and random walks —where the mathematics involved is at the college level.

Author: Thorsten Joachims
Publisher: Springer Science & Business Media
ISBN: 079237679X
Category : Computers
Languages : en
Pages : 228

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Based on ideas from Support Vector Machines (SVMs), Learning To Classify Text Using Support Vector Machines presents a new approach to generating text classifiers from examples. The approach combines high performance and efficiency with theoretical understanding and improved robustness. In particular, it is highly effective without greedy heuristic components. The SVM approach is computationally efficient in training and classification, and it comes with a learning theory that can guide real-world applications. Learning To Classify Text Using Support Vector Machines gives a complete and detailed description of the SVM approach to learning text classifiers, including training algorithms, transductive text classification, efficient performance estimation, and a statistical learning model of text classification. In addition, it includes an overview of the field of text classification, making it self-contained even for newcomers to the field. This book gives a concise introduction to SVMs for pattern recognition, and it includes a detailed description of how to formulate text-classification tasks for machine learning.

Author: Bernd Mayer
Publisher: Springer Science+Business Media
ISBN: 9781617790270
Category : Bioinformatics
Languages : en
Pages : 584

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Presenting an area of research that intersects with and integrates diverse disciplines, Bioinformatics for Omics Data: Methods and Protocols collects contributions from expert researchers in order to provide practical guidelines to this complex study.

Author: Haja N. Kadarmideen
Publisher: Springer
ISBN: 3319433350
Category : Science
Languages : en
Pages : 161

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Book Description
This two-volume work provides an overview on various state of the art experimental and statistical methods, modeling approaches and software tools that are available to generate, integrate and analyze multi-omics datasets in order to detect biomarkers, genetic markers and potential causal genes for improved animal production and health. The book will contain online resources where additional data and programs can be accessed. Some chapters also come with computer programming codes and example datasets to provide readers hands-on (computer) exercises. This first volume presents the basic principles and concepts of systems biology with theoretical foundations including genetic, co-expression and metabolic networks. It will introduce to multi omics components of systems biology from genomics, through transcriptomics, proteomics to metabolomics. In addition it will highlight statistical methods and (bioinformatic) tools available to model and analyse these data sets along with phenotypes in animal production and health. This book is suitable for both students and teachers in animal sciences and veterinary medicine as well as to researchers in this discipline.