Download or read book Systems Immunology Landscaping Immune Regulatory Networks written by Aridaman Pandit and published by Frontiers Media SA. This book was released on 2022-03-31 with total page 180 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book Deciphering the Hematopoietic Gene Regulatory Architecture written by Ricardo Noel Ramirez and published by . This book was released on 2016 with total page 163 pages. Available in PDF, EPUB and Kindle. Book excerpt: The immune system is a complex and interactive network of diverse cell types, with a myriad of functional properties that are fundamental to maintaining an immunological-responsive balance within an organism. Thus, coordinated organization of cellular differentiation is established early and throughout the development of an organism, resulting in the generation of the interacting innate and adaptive immune systems. The temporal component is critical for capturing transient regulatory events during cellular differentiation. Thus, high-resolution analyses are necessary to derive immune regulatory dynamics. To address this, I focused my graduate studies on the genome-wide analysis of cellular differentiation with a primary focus on: (i) myeloid transcriptional and cis-regulatory modules; (ii) dynamic myeloid gene regulatory networks; and (iii) analysis of the expression and accessible chromatin landscape in single-cells. Utilizing high-resolution time-series analyses, I have identified temporal modules of cell-type specific cis-regulatory and transcriptional regulation during myeloid and pre-B cell differentiation. Such genome-wide modules were then utilized to infer novel regulatory interactions and generation of dynamic gene regulatory networks during myeloid differentiation. Secondly, both an independent and integrative analysis of single-cell chromatin maps and expression patterns of pre-B cell differentiation, revealing complex relationships between the chromatin landscape and TF regulators in differentiating single-cells. Take together; these results depict the temporal dynamics mediated across the cis-regulatory landscape and transcriptional regulators that ultimately shape differentiating mammalian cells across the innate and adaptive immune systems.

Download or read book Landscapes of Collectivity in the Life Sciences written by Snait B. Gissis and published by MIT Press. This book was released on 2018-01-12 with total page 432 pages. Available in PDF, EPUB and Kindle. Book excerpt: Broad perspective on collectivity in the life sciences, from microorganisms to human consensus, and the theoretical and empirical opportunities and challenges. Many researchers and scholars in the life sciences have become increasingly critical of the traditional methodological focus on the individual. This volume counters such methodological individualism by exploring recent and influential work in the life sciences that utilizes notions of collectivity, sociality, rich interactions, and emergent phenomena as essential explanatory tools to handle numerous persistent scientific questions in the life sciences. The contributors consider case studies of collectivity that range from microorganisms to human consensus, discussing theoretical and empirical challenges and the innovative methods and solutions scientists have devised. The contributors offer historical, philosophical, and biological perspectives on collectivity, and describe collective phenomena seen in insects, the immune system, communication, and human collectivity, with examples ranging from cooperative transport in the longhorn crazy ant to the evolution of autobiographical memory. They examine ways of explaining collectivity, including case studies and modeling approaches, and explore collectivity's explanatory power. They present a comprehensive look at a specific case of collectivity: the Holobiont notion (the idea of a multi-species collective, a host and diverse microorganisms) and the hologenome theory (which posits that the holobiont and its hologenome are a unit of adaption). The volume concludes with reflections on the work of the late physicist Eshel Ben-Jacob, pioneer in the study of collective phenomena in living systems. Contributors Oren Bader, John Beatty, Dinah R. Davison, Daniel Dor, Ofer Feinerman, Raghavendra Gadagkar, Scott F. Gilbert, Snait B. Gissis, Deborah M. Gordon, James Griesemer, Zachariah I. Grochau-Wright, Erik R. Hanschen, Eva Jablonka, Mohit Kumar Jolly, Anat Kolumbus, Ehud Lamm, Herbert Levine, Arnon Levy, Xue-Fei Li, Elisabeth A. Lloyd, Yael Lubin, Eva Maria Luef, Ehud Meron, Richard E. Michod, Samir Okasha, Simone Pika, Joan Roughgarden, Eugene Rosenberg, Ayelet Shavit, Yael Silver, Alfred I. Tauber, Ilana Zilber-Rosenberg

Download or read book Molecular Evolution on Rugged Landscapes written by Alan S. Perelson and published by CRC Press. This book was released on 2018-03-08 with total page 243 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book lays out a number of the general issues concerning the structure of rugged fitness landscapes and examines both the history and the current status of experimental work on somatic mutation and the maturation of the immune response.

Download or read book Translational Immunology written by Seng-Lai Tan and published by Academic Press. This book was released on 2015-11-18 with total page 386 pages. Available in PDF, EPUB and Kindle. Book excerpt: Translational Immunology: Mechanisms and Pharmacologic Approaches highlights and summarizes the most important advances in human immunology, clinical translations, new tools to analyze therapeutic targets, and new pharmacological approaches for autoimmunity, inflammatory disorders, and cancer. The book is an essential resource for those seeking to understand the potential translational applications of burgeoning studies in human immunology, helping readers make sense of the existing and emerging scientific advances. The book grounds fundamental science in the translational realm, providing insights from world renowned researchers at the top of their game in their respective fields, in both industry and academic settings. Readers will gain an understanding of the rationale and mechanisms underlying current and emerging pharmacologic approaches for interventional immunology, the gaps therein, and new ideas for better and safer therapeutic approaches, and physicians will glean information about pharmacological limitations in altering disease progression and complications. This reference on the translational realization of the burgeoning findings in immunology provides a go-to reference for experienced professional clinicians, researchers, industry scientists, and those seeking more information on the field. Delivers comprehensive coverage of seminal human immunology discoveries and the resulting impact on therapeutic strategies Presents potential novel targets and approaches for clinical applications in organ specific and systemic autoimmunity, transplant rejection, cancer, and vaccine development Discusses lessons learned from successful and failed clinical trials with specific interventions, including pharmacological issues and limitations, and complications due to immunosuppression Provides information on new strategies and outstanding issues that should be addressed in future research

Download or read book Cellular and Molecular Communication Networks within the Cutaneous Immune System written by Tina Sumpter and published by Frontiers Media SA. This book was released on 2023-09-01 with total page 148 pages. Available in PDF, EPUB and Kindle. Book excerpt: As the outermost barrier of the body, the skin protects against bacterial, viral, and environmental assaults. To reach this end, epidermal and dermal resident cells have evolved intricate communication networks, involving innate and adaptive immune cells, epithelial cells, and neurons. In disease states, skin resident cells are aided by recruited immune cells, such as neutrophils, basophils, and eosinophils. Initially, these cell types were studied in isolation, but recent focus has shifted towards understanding how physical interactions between cells and communication initiated by soluble mediators facilitate coordinated immune responses in the cutaneous microenvironment to maintain homeostasis, preserve barrier function, and, effectively clear bacterial, viral or fungal assailants. In this Research Topic, the goal is to highlight recent advances in cutaneous biology and immunology to provide insight into the cellular networks underlying the generation and regulation of cutaneous immune responses. Recent advances in this area have described novel pathways regulating skin-resident memory T cells, keratinocytes-immune cell interactions, and the relationships between sensory neurons and immune cells in the skin. Cumulatively, these studies provide a framework for understanding the complex interactions that are necessary for maintaining host protection, and homeostasis and reveal novel targetable pathways for patients with skin disease.

Download or read book Mathematical Modeling of the Immune System in Homeostasis Infection and Disease written by Gennady Bocharov and published by Frontiers Media SA. This book was released on 2020-02-24 with total page 278 pages. Available in PDF, EPUB and Kindle. Book excerpt: The immune system provides the host organism with defense mechanisms against invading pathogens and tumor development and it plays an active role in tissue and organ regeneration. Deviations from the normal physiological functioning of the immune system can lead to the development of diseases with various pathologies including autoimmune diseases and cancer. Modern research in immunology is characterized by an unprecedented level of detail that has progressed towards viewing the immune system as numerous components that function together as a whole network. Currently, we are facing significant difficulties in analyzing the data being generated from high-throughput technologies for understanding immune system dynamics and functions, a problem known as the ‘curse of dimensionality’. As the mainstream research in mathematical immunology is based on low-resolution models, a fundamental question is how complex the mathematical models should be? To respond to this challenging issue, we advocate a hypothesis-driven approach to formulate and apply available mathematical modelling technologies for understanding the complexity of the immune system. Moreover, pure empirical analyses of immune system behavior and the system’s response to external perturbations can only produce a static description of the individual components of the immune system and the interactions between them. Shifting our view of the immune system from a static schematic perception to a dynamic multi-level system is a daunting task. It requires the development of appropriate mathematical methodologies for the holistic and quantitative analysis of multi-level molecular and cellular networks. Their coordinated behavior is dynamically controlled via distributed feedback and feedforward mechanisms which altogether orchestrate immune system functions. The molecular regulatory loops inherent to the immune system that mediate cellular behaviors, e.g. exhaustion, suppression, activation and tuning, can be analyzed using mathematical categories such as multi-stability, switches, ultra-sensitivity, distributed system, graph dynamics, or hierarchical control. GB is supported by the Russian Science Foundation (grant 18-11-00171). AM is also supported by grants from the Spanish Ministry of Economy, Industry and Competitiveness and FEDER grant no. SAF2016-75505-R, the “María de Maeztu” Programme for Units of Excellence in R&D (MDM-2014-0370) and the Russian Science Foundation (grant 18-11-00171).

Download or read book Computational Systems Biology written by Joseph Xu Zhou and published by Elsevier Inc. Chapters. This book was released on 2013-11-26 with total page 59 pages. Available in PDF, EPUB and Kindle. Book excerpt: In this chapter, we introduced the basic concepts of cell attractors and showed that Waddington’s metaphoric epigenetic landscape has a formal basis in the attractor landscape. This conceptual framework helps to understand core properties of cell differentiation and ultimately, multicellularity. Specifically, we developed the concept of relative stability of network states on the epigenetic landscape, thus providing the elevation in the landscape picture a formal, quantifiable basis. We proposed methods to quantify the relative stability of attractor states in discrete gene networks models. We show in two examples that even with incomplete information about network structures, the use of Boolean networks can capture the essential outlines of cell fate dynamics and more importantly, permit the estimation of relative stability and the attractor transition barriers. These measures hold great promise for the rational design of the perturbation protocols for cell reprogramming in regenerative medicine. As the knowledge of the structure of GRNs for the development of various tissues will undoubtedly increase in the next decade, the utilization of such network information for therapeutic reprogramming may benefit from the concepts developed here.

Download or read book Autophagy Cancer Other Pathologies Inflammation Immunity Infection and Aging written by M. A. Hayat and published by Academic Press. This book was released on 2015-12-17 with total page 420 pages. Available in PDF, EPUB and Kindle. Book excerpt: Volume 8 Autophagy and Human Diseases, concentrates on the role of Autophagy in human diseases, including tumorigenesis. The diseases discussed include melanoma, liver cancer, pancreatic cancer, and neurodegenerative disorders. Loss of autophagy in the central nervous system causes neurodegeneration (Alzheimers disease, Huntington’s disease, Parkin’s disease, and Amyotrophic Lateral Sclerosis). Melanoma is one of the most serious diseases in humans. Autophagy plays a key role in the anticancer response to Chemotherapy. However, autophagy can increase or decrease the effectiveness of chemotherapy. The reasons for these contradictory effects are explained. Autophagy also plays a role in idiopathic inflammatory diseases, infection, and immunity. An explanation is given how autophagy is closely linked to control of innate and adaptive immune responses in host defense in part by regulating cytokine production. The role of autophagy in cutaneous malignant melanoma is discussed in detail and expression of Beclin 1 and LC3 autophagic genes in melanoma is included to explain the molecular mechanisms underlying this very serious disease, which tends to metastasize to the brain. The effect of the treatment of this disease using Terfenadine through the induction of autophagy and apoptosis is also included. Autophagy and apoptosis are two main mechanisms involved in programmed cell death. Presents the most advanced information regarding the role of the autophagic system in life and death and whether autophagy acts fundamentally as a cell survivor, or cell death pathway, or both Introduces new, more effective therapeutic strategies, in the development of targeted drugs and programmed cell death, providing information that will aid on preventing detrimental inflammation States recent advancements in the molecular mechanisms underlying a large number of genetic and epigenetic diseases and abnormalities

Download or read book Systems Immunology written by Jayajit Das and published by CRC Press. This book was released on 2018-09-03 with total page 355 pages. Available in PDF, EPUB and Kindle. Book excerpt: "Taken together, the body of information contained in this book provides readers with a bird’s-eye view of different aspects of exciting work at the convergence of disciplines that will ultimately lead to a future where we understand how immunity is regulated, and how we can harness this knowledge toward practical ends that reduce human suffering. I commend the editors for putting this volume together." –Arup K. Chakraborty, Robert T. Haslam Professor of Chemical Engineering, and Professor of Physics, Chemistry, and Biological Engineering, Massachusetts Institute of Technology, Cambridge, USA New experimental techniques in immunology have produced large and complex data sets that require quantitative modeling for analysis. This book provides a complete overview of computational immunology, from basic concepts to mathematical modeling at the single molecule, cellular, organism, and population levels. It showcases modern mechanistic models and their use in making predictions, designing experiments, and elucidating underlying biochemical processes. It begins with an introduction to data analysis, approximations, and assumptions used in model building. Core chapters address models and methods for studying immune responses, with fundamental concepts clearly defined. Readers from immunology, quantitative biology, and applied physics will benefit from the following: Fundamental principles of computational immunology and modern quantitative methods for studying immune response at the single molecule, cellular, organism, and population levels. An overview of basic concepts in modeling and data analysis. Coverage of topics where mechanistic modeling has contributed substantially to current understanding. Discussion of genetic diversity of the immune system, cell signaling in the immune system, immune response at the cell population scale, and ecology of host-pathogen interactions.

Download or read book Handbook of Systems Biology written by Marian Walhout and published by Academic Press. This book was released on 2012-12-31 with total page 553 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides an entry point into Systems Biology for researchers in genetics, molecular biology, cell biology, microbiology and biomedical science to understand the key concepts to expanding their work. Chapters organized around broader themes of Organelles and Organisms, Systems Properties of Biological Processes, Cellular Networks, and Systems Biology and Disease discuss the development of concepts, the current applications, and the future prospects. Emphasis is placed on concepts and insights into the multi-disciplinary nature of the field as well as the importance of systems biology in human biological research. Technology, being an extremely important aspect of scientific progress overall, and in the creation of new fields in particular, is discussed in 'boxes' within each chapter to relate to appropriate topics. 2013 Honorable Mention for Single Volume Reference in Science from the Association of American Publishers' PROSE Awards Emphasizes the interdisciplinary nature of systems biology with contributions from leaders in a variety of disciplines Includes the latest research developments in human and animal models to assist with translational research Presents biological and computational aspects of the science side-by-side to facilitate collaboration between computational and biological researchers

Download or read book Immunometabolic Mechanisms Underlying the Severity of COVID 19 written by Galileo Escobedo and published by Frontiers Media SA. This book was released on 2022-08-18 with total page 308 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book Immunotherapy and multimodality therapy for lung cancer written by Qun Xue and published by Frontiers Media SA. This book was released on 2024-02-07 with total page 321 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book STATs and IRFs in Innate Immunity From Transcriptional Regulators to Therapeutic Targets written by Chien-Kuo Lee and published by Frontiers Media SA. This book was released on 2019-10-21 with total page 221 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book Modeling Methods for Medical Systems Biology written by María Elena Álvarez-Buylla Roces and published by Springer. This book was released on 2018-08-03 with total page 258 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book contributes to better understand how lifestyle modulations can effectively halt the emergence and progression of human diseases. The book will allow the reader to gain a better understanding of the mechanisms by which the environment interferes with the bio-molecular regulatory processes underlying the emergence and progression of complex diseases, such as cancer. Focusing on key and early cellular bio-molecular events giving rise to the emergence of degenerative chronic disease, it builds on previous experience on the development of multi-cellular organisms, to propose a mathematical and computer based framework that allows the reader to analyze the complex interplay between bio-molecular processes and the (micro)-environment from an integrative, mechanistic, quantitative and dynamical perspective. Taking the wealth of empirical evidence that exists it will show how to build and analyze models of core regulatory networks involved in the emergence and progression of chronic degenerative diseases, using a bottom-up approach.

Download or read book Understanding the Immuno Oncological Mechanism of Cancer Using Systems Immunology Approaches written by Rifat Hamoudi and published by Frontiers Media SA. This book was released on 2024-01-02 with total page 563 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book Computational Systems Biology written by Andres Kriete and published by Academic Press. This book was released on 2013-11-26 with total page 549 pages. Available in PDF, EPUB and Kindle. Book excerpt: This comprehensively revised second edition of Computational Systems Biology discusses the experimental and theoretical foundations of the function of biological systems at the molecular, cellular or organismal level over temporal and spatial scales, as systems biology advances to provide clinical solutions to complex medical problems. In particular the work focuses on the engineering of biological systems and network modeling. Logical information flow aids understanding of basic building blocks of life through disease phenotypes Evolved principles gives insight into underlying organizational principles of biological organizations, and systems processes, governing functions such as adaptation or response patterns Coverage of technical tools and systems helps researchers to understand and resolve specific systems biology problems using advanced computation Multi-scale modeling on disparate scales aids researchers understanding of dependencies and constraints of spatio-temporal relationships fundamental to biological organization and function.