Translational Systems Biology

Translational Systems Biology

Author: Yoram Vodovotz

Publisher: Elsevier

Published: 2014-10-08

Total Pages: 179

ISBN-13: 0123978904

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Are we satisfied with the rate of drug development? Are we happy with the drugs that come to market? Are we getting our money's worth in spending for basic biomedical research? In Translational Systems Biology, Drs. Yoram Vodovotz and Gary An address these questions by providing a foundational description the barriers facing biomedical research today and the immediate future, and how these barriers could be overcome through the adoption of a robust and scalable approach that will form the underpinning of biomedical research for the future. By using a combination of essays providing the intellectual basis of the Translational Dilemma and reports of examples in the study of inflammation, the content of Translational Systems Biology will remain relevant as technology and knowledge advances bring broad translational applicability to other diseases. Translational systems biology is an integrated, multi-scale, evidence-based approach that combines laboratory, clinical and computational methods with an explicit goal of developing effective means of control of biological processes for improving human health and rapid clinical application. This comprehensive approach to date has been utilized for in silico studies of sepsis, trauma, hemorrhage, and traumatic brain injury, acute liver failure, wound healing, and inflammation. - Provides an explicit, reasoned, and systematic approach to dealing with the challenges of translational science across disciplines - Establishes the case for including computational modeling at all stages of biomedical research and healthcare delivery, from early pre-clinical studies to long-term care, by clearly delineating efficiency and costs saving important to business investment - Guides readers on how to communicate across domains and disciplines, particularly between biologists and computational researchers, to effectively develop multi- and trans-disciplinary research teams


Complex Systems and Computational Biology Approaches to Acute Inflammation

Complex Systems and Computational Biology Approaches to Acute Inflammation

Author: Yoram Vodovotz

Publisher: Springer Nature

Published: 2020-11-04

Total Pages: 307

ISBN-13: 3030565106

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This second edition expands upon and updates the vital research covered in its predecessor, by presenting state-of-the-art multidisciplinary and systems-oriented approaches to complex diseases arising from and driven by the acute inflammatory response. The chapters in this volume provide an introduction to different types of computational modeling, and how these methods can be applied to specific inflammatory diseases, with a focus on providing readers a roadmap for integrating advanced mathematical and computational techniques with traditional experimental methods. In this second edition, we cover both well-established and emerging modeling methods, especially state-of-the-art machine learning approaches and the integration of data-driven and mechanistic modeling. This volume introduces the concept of Model-based Precision Medicine as an alternative approach to the current view of Precision Medicine, based on leveraging mechanistic computational modeling to decrease cost while increasing the information value of the data being obtained. By presenting the role of computational modeling as an integrated component of the research process, Complex Systems and Computational Biology Approaches to Acute Inflammation: A Framework for Model-based Precision Medicine offers a window into the recent past, the present, and the future of computationally-augmented biomedical research.


Immunomodulatory Biomaterials

Immunomodulatory Biomaterials

Author: Stephen F. Badylak

Publisher: Woodhead Publishing

Published: 2021-07-30

Total Pages: 296

ISBN-13: 0128214562

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Biomaterials have existed for millennia as mechanical replacement structures following disease or injury. Biomaterial design has changed markedly from structural support with an "inert immune profile as the primary objective to designs that elicit an integrative local tissue response and a pro-repair immune cell phenotype. Immunomodulatory Biomaterials: Regulating the Immune Response with Biomaterials to Affect Clinical Outcome offers a single, comprehensive reference on biomaterials for modulation of the host response, for materials scientists, tissue engineers and those working in regenerative medicine. This book details methods, materials and strategies designed to regulate the host immune response following surgical implantation and thus facilitate specific local cell infiltration and tissue deposition. There has been a dramatic transformation in our understanding of the role of the immune system, both innate and adaptive; these changes include recognition of the plasticity of immune cells, especially macrophages, cross-talk between the immune system and stem cells, and the necessity for in situ transition between inflammatory and regulatory immune cell phenotypes. The exploitation of these findings and the design and manufacture of new biomaterials is occurring at an astounding pace. There is currently no book directed at the interdisciplinary principles guiding the design, manufacture, testing, and clinical translation of biomaterials that proactively regulate the host tissue immune response. The challenge for academia, industry, and regulatory agencies to encourage innovation while assuring safety and maximizing efficacy has never been greater. Given the highly interdisciplinary requirements for the design, manufacture and use of immunomodulatory biomaterials, this book will prove a useful single resource across disciplines. - Holistically covers the design, manufacture, testing, and clinical translation of biomaterials that proactively regulate the host tissue immune response - Provides a single reference for understanding and utilizing the host response in biomaterials design - An international collaboration of leading researchers in the field offering a novel insight into this fast-growing area


Leveraging Biomedical and Healthcare Data

Leveraging Biomedical and Healthcare Data

Author: Firas Kobeissy

Publisher: Academic Press

Published: 2018-11-23

Total Pages: 228

ISBN-13: 012809561X

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Leveraging Biomedical and Healthcare Data: Semantics, Analytics and Knowledge provides an overview of the approaches used in semantic systems biology, introduces novel areas of its application, and describes step-wise protocols for transforming heterogeneous data into useful knowledge that can influence healthcare and biomedical research. Given the astronomical increase in the number of published reports, papers, and datasets over the last few decades, the ability to curate this data has become a new field of biomedical and healthcare research. This book discusses big data text-based mining to better understand the molecular architecture of diseases and to guide health care decision. It will be a valuable resource for bioinformaticians and members of several areas of the biomedical field who are interested in understanding more about how to process and apply great amounts of data to improve their research. Includes at each section resource pages containing a list of available curated raw and processed data that can be used by researchers in the field Provides demonstrative and relevant examples that serve as a general tutorial Presents a list of algorithm names and computational tools available for basic and clinical researchers


Transplant Rejection and Tolerance: Advancing the Field through Integration of Computational and Experimental Investigations

Transplant Rejection and Tolerance: Advancing the Field through Integration of Computational and Experimental Investigations

Author: Giorgio Raimondi

Publisher: Frontiers Media SA

Published: 2017-12-15

Total Pages: 132

ISBN-13: 2889452921

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Organ transplantation is a life-saving surgical procedure through which the functionality of a failing organ system can be restored. However, without the life-long administration of immunosuppressive drugs, the recipient’s immune system will launch a massive immune attack that will ultimately destroy the graft. Although successful at protecting the graft from an immune attack, long-term use of immunosuppressive drugs leads to serious complications (e.g., increased risk of infection, diabetes, hypertension, cardiovascular disease, and cancer). Moreover, recipients suffer from limited long-term graft survival rates due to the inability of current treatments to establish tolerance to the transplanted tissues. Thus, there is a great medical need to understand the complex network of immune system interactions that lead to transplant rejection so that new strategies of intervention can be determined that will redirect the system toward transplant acceptance while preserving immune competence against offending agents. In the past 20 years, the discovery and growing understanding of the positive and negative regulators of the activation of the immune system have fostered new interventional procedures targeting one or the other. While pre-clinical results proved the validity of these strategies, their clinical implementation has been troublesome. These results underscore the need for additional methods to determine the most effective interventions to prevent long-term transplant rejection. New tools of genomics, proteomics and metabolomics are being implemented in powerful analyses that promise the development of better, safer personalized treatments. In parallel, theoretical modeling has emerged as a tool that transcends investigations of individual mechanistic processes and instead unravels the relevant mechanisms of complex systems such as the immune response triggered by a transplant. In this way, theoretical models can be used to identify important behavior that arises from complex systems and thereby delineate emergent properties of biological systems that could not be identified studying single components. Employing this approach, interdisciplinary collaborations among immunologists, mathematicians, and system biologists will yield novel perspectives in the development of more effective strategies of intervention. The aim of this Research Topic is to demonstrate how new insight and methods from theoretical and experimental studies of the immune response can aid in identifying new research directions in transplant immunology. First, techniques from various theoretical and experimental studies with applications to the immune response will be reviewed to determine how they can be adapted to explore the complexity of transplant rejection. Second, recent advances in the acquisition and mining of large data sets related to transplant genomics, proteomics, and metabolomics will be discussed in the context of their predictive power and potential for optimizing and personalizing patient treatment. Last, new perspectives will be offered on the integration of computational immune modeling with transplant and omics data to establish more effective strategies of intervention that promote transplant tolerance.


Evolution of Translational Omics

Evolution of Translational Omics

Author: Institute of Medicine

Publisher: National Academies Press

Published: 2012-09-13

Total Pages: 354

ISBN-13: 0309224187

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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.


Biomaterials in Translational Medicine

Biomaterials in Translational Medicine

Author: Lei Yang

Publisher: Academic Press

Published: 2018-11-30

Total Pages: 364

ISBN-13: 012813478X

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Biomaterials in Translational Medicine delivers timely and detailed information on the latest advances in biomaterials and their role and impact in translational medicine. Key topics addressed include the properties and functions of these materials and how they might be applied for clinical diagnosis and treatment. Particular emphasis is placed on basic fundamentals, biomaterial formulations, design principles, fabrication techniques and transitioning bench-to-bed clinical applications. The book is an essential reference resource for researchers, clinicians, materials scientists, engineers and anyone involved in the future development of innovative biomaterials that drive advancement in translational medicine. - Systematically introduces the fundamental principles, rationales and methodologies of creating or improving biomaterials in the context of translational medicine - Includes the translational or commercialization status of these new biomaterials - Provides the reader with enough background knowledge for a fundamental grip of the difficulties and technicalities of using biomaterial translational medicine - Directs the reader on how to find other up-to-date sources (i.e. peer reviewed journals) in the field of translational medicine and biomaterials


Translational Bioinformatics and Its Application

Translational Bioinformatics and Its Application

Author: Dong-Qing Wei

Publisher: Springer

Published: 2017-03-31

Total Pages: 430

ISBN-13: 9402410457

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This book offers a detailed overview of translational bioinformatics together with real-case applications. Translational bioinformatics integrates the areas of basic bioinformatics, clinical informatics, statistical genetics and informatics in order to further our understanding of the molecular basis of diseases. By analyzing voluminous amounts of molecular and clinical data, it also provides clinical information, which can then be applied. Filling the gap between clinic research and informatics, the book is a valuable resource for human geneticists, clinicians, health educators and policy makers, as well as graduate students majoring in biology, biostatistics, and bioinformatics.