Computational Approaches for Understanding Dynamical Systems: Protein Folding and Assembly, Volume 170 in the Progress in Molecular Biology and Translational Science series, provides the most topical, informative and exciting monographs available on a wide variety of research topics. The series includes in-depth knowledge on the molecular biological aspects of organismal physiology, with this release including chapters on Pairwise-Additive and Polarizable Atomistic Force Fields for Molecular Dynamics Simulations of Proteins, Scale-consistent approach to the derivation of coarse-grained force fields for simulating structure, dynamics, and thermodynamics of biopolymers, Enhanced sampling and free energy methods, and much more.

This volume provides a summary of the standard laboratory protocols and methodology commonly used in basic and translational studies in the field of rheumatoid arthritis (RA) treatment. Chapters detail including basic RA models, evaluation of disease activity and immunological status, systemic drug delivery, and new research tools. 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, Rheumatoid Arthritis: Methods and Protocols aims to be a basic manual for clinical researchers who are just getting started in the field of intervention study.

Neutron Crystallography in Structural Biology, Volume 634, the latest volume in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters authored by leaders in the field. Chapters in this updated release include Fundamentals of neutron crystallography in structural biology, Large crystal growth for neutron protein crystallography, Prospects for membrane protein crystals in NMX, IMAGINE: The neutron protein crystallography beamline at the high flux isotope reactor, The macromolecular neutron diffractometer at the spallation neutron source, Current status and near future plan of neutron protein crystallography at J-PARC, Neutron macromolecular crystallography at the European spallation source, and much more.

Metabolic programs of individuals are key determinants for disease susceptibility and immune response. This book, edited by experts in the field, summarizes epigenetic signaling pathways that regulate metabolic programs associated with cancer and cancer-related secondary diseases. The first part of the book highlights key metabolic pathways that are implicated in cancer and provides a comprehensive overview on the carbohydrate, protein, lipid, amino- and nucleic acid metabolic pathways that are deregulated in cancer. Special attention is paid to the altered tumor micro-environment that is influenced by the metabolic milieu. Furthermore, the fundamental relationship between the cellular metabolic environment and cell death-mediated autophagy is discussed. The second part of the book covers our understanding of the fundamental epigenetic regulations that are implicated in controlling the metabolic programs in cancer cells. Many aspects of epigenetic regulation of non-coding RNAs as well as DNA/RNA methylation, which influencing metabolic homeostasis in cancer, are discussed in detail. Special emphasis is placed on the epigenetic regulation of the amino acid, glucose/carbohydrate metabolism and epigenetic regulation during hypoxia and its connection to cancer. Last but not least, the third part of the book covers small molecule modulators of histone modifying enzymes, which can be used as therapeutic tools. The readers learn about the cross-talk between epigenetics and immunometabolims, as well as the epigenetic regulation of oncometabolites to combat cancer. Given its scope, the book will appeal to a broad readership interested in epigenetic, cancer and metabolic research.

Mammalian cells have evolved a complex multicomponent machinery that enables them to sense and respond to a wide variety of potentially toxic agents present in their environment. These stress responses are often associated with an increased cellular capacity to tolerate normally lethal levels of an insult. The realization that the mammalian stress response may be intimately linked with many human diseases, including rheumatoid arthritis, ischemia, fever, infection, and cancer, has led to an explosion of interest in this research area. Stress Response: Methods and Protocols brings together a diverse array of practical methodologies that may be employed to address various aspects of the response of mammalian cells to environmental stress. The p- tocols are carefully described by authors who have both devised and succe- fully employed them, and they represent a mixture not only of well-established techniques, but also new technologies at the leading edge of research. The areas covered include the detection and assay of stress-induced damage, the acti- tion of signal transduction pathways, stress-inducible gene expression, and stress protein function. Although no volume of this size can be comprehensive and the topics covered reflect a personal choice, it is hoped that it will prove of subst- tial interest and use to a wide range of research workers in the field.

Inflammatory Disorders - Part B, Volume 120 explores inflammation in the immune system and how the body's own cells or tissues may cause abnormal inflammation, thus resulting in chronic pain, redness, swelling, stiffness, and damage to normal tissues. Chapters in this updated volume include Proteins in monogenic autoinflammatory disorders, Virulence factors and their roles in periodontal disease pathogenesis, Role of Heat shock proteins in Inflammatory disorder Rheumatoid Arthritis, Novel targeted therapies for Crohn's disease: Recent progress and future perspectives, Dietary plant flavonoids in prevention of obesity and diabetes, Small RNAs in allergic diseases, Inflammation and inflammasome during ageing and age-related diseases, and more.

Chemical and Synthetic Biology Approaches to Understand Cellular Functions - Part C, Volume 633, the latest release in the Methods in Enzymology series, continues the legacy of this premier serial. This release includes sections on Next generation probes for molecular imaging in cells, Competitive binding assay for biotin and biotin derivatives, based on avidin and biotin-4-fluorescein, Converting avidin to bind ligands other than biotin, especially steroids, Chemoenzymatic Labeling Strategy, Engineered Siderophores, Small molecules to inhibit bacterial population behavior, NMR tube bioreactor, Small molecule controlled RAS activation system, Small molecule regulated Cas9, the Design and application of synthetic receptors, and much more.

Oligomerization in Health and Disease: From Enzymes to G Protein-Coupled Receptors, Volume 169 in the Progress in Molecular Biology and Translational Science series, provides in-depth reviews on topics of exceptional scienti?c importance. Topics of note in this new release include Computational prediction and re-design of aberrant oligomerization, Oligomerization of G protein-coupled receptors: an historical overview, Prediction and targeting of GPCR oligomer interfaces, GPCR Oligomerization dynamics: Functional consequences, GPCR heteromerization in neuropsychiatric disorders, Structural basis of regulation and oligomerization of human cystathionine ss-synthase, and Oligomerization of Porphobilinogen Synthase.

Tumor Immunology and Immunotherapy - Cellular Methods Part B, Volume 632, the latest release in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters authored by leaders in the field. Topics covered include Quantitation of calreticulin exposure associated with immunogenic cell death, Side-by-side comparisons of flow cytometry and immunohistochemistry for detection of calreticulin exposure in the course of immunogenic cell death, Quantitative determination of phagocytosis by bone marrow-derived dendritic cells via imaging flow cytometry, Cytofluorometric assessment of dendritic cell-mediated uptake of cancer cell apoptotic bodies, Methods to assess DC-dependent priming of T cell responses by dying cells, and more.

Protein Misfolding, Volume 118, covers the wide spectrum of diseases and disorders that are attributed to protein misfolding, including degenerative and neurodegenerative, cardiovascular, renal, glaucoma, cancer, cystic fibrosis, Gaucher's disease, and many others. Specific chapters cover Mass spectrometric approaches for profiling protein folding and stability, Biomembranes, a key player in protein misfolding, how Genetic and environmental factors interact to disrupt proteostasis and trigger protein misfolding diseases, Formation of oligomers and large amorphous aggregates by intrinsically disordered proteins, Protein misfolding in ER stress with applications to cardiovascular and renal disease, and much more.

Nanoarchitectures Built with Carbon Nanotubes and Magnetic Nanoparticles, Volume 630, the latest volume in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters authored by leaders in the field. New chapters in this volume include updates from well-known, established leaders.

This book explains the theoretical principles of numerous techniques of genomic studies developed recently in laboratories. The book is designed for any reader who is curious to know the bases of different techniques of manipulation of nucleic acids.

Introduction. Mono(ADP-ribosyl)Transferases and Related Enzymes: Emerging Gene Families; F. Koch-Nolte, F. Haag. Mono-ADP-ribosylation in Prokaryotes. Crystal Structure of Diphtheria Toxin Bound to Nicotinamide Adenine Dinucleotide; C.E. Bell, D. Eisenberg. Molecular Approaches to Eukaryotic Mono(ADP-ribosyl)Transferases. Sequence and Structural Links Between Distant ADp-ribosyltransferase Families; F. Bazan, F. Koch-Nolte. Moni(ADP-ribosyl)Transferases in the Immune System. Regulation of Cytotoxic T Cell Functions by a GPI-anchored Ecto-ADP-ribosyltransferase; J. Wang, et al. Mono-ADP-ribosylation in Other Animal Tissues. An ADP-Ribosyltransferase from Bovine Erythrocytes Apparently Specific for Cysteine Residues; S. van Heyningen, B. Saxty. Physiology of GPI-Anchored Proteins. Cell Surface Dynamics of GPI-anchored Proteins; F.R. Maxfield, S. Mayor. Relationship of ADP-Ribosyltransferases to NAD+ Glycohydrolases and ADP-ribosyl Cyclases. ADp-Ribose in Glycation and Glycoxidation Reactions; E.L. Jacobson, et al. Special Lecture Commemorating the Retirement of Professor Heinz-Gunter Thiele. Appendix. 28 Additional Lectures. 24 Poster Reports. Index.

Research into the basic mechanisms of photosynthesis has a long and distinguished history and has consistently been at the forefront of science. The success of this research, particularly in recent years, suggests that photosynthesis may turn out to be the first complex biological system to have its structure, function, and regulation described in rigorous chemical terms at the atomic level. It is likely that such knowledge will help us to tackle perhaps the most vital problem facing mankind, namely our need for a continuous and nonpolluting source of energy. The benefit may come by providing a "blueprint"for new technologies able to carry out efficient conversion of solar energy based on the principles of biological systems, and/or creating highly efficient "energy crops" sufficiently hardy to grow in a wide range of environments. The former is likely to involve new developments in material sciences while the latter will call on the rapidly advancing techniques of genetic engineering.
The contents of this volume review some of the most important developments which are a part of the drive towards the overall goal of obtaining the complete description of the photosynthetic processes at the molecular level. The topics covered have been carefully selected and represent the wide spectrum of the subject.

Immunobiology of Dendritic Cells Part B, Volume 349 in the International Review of Cell and Molecular Biology series highlights new advances in the field, with this new volume presenting interesting chapters written by an international board of authors.

Molecular Biology of Neurodegenerative Diseases: Visions for the Future, Volume 168 in the Progress in Molecular Biology and Translational Science series, provides the most topical, informative and exciting monographs available on a wide variety of research topics. The series includes in-depth knowledge on the molecular biological aspects of organismal physiology, with this release including chapters on Alzheimer's disease, Prion-like propagation of alpha-synuclein, What - if anything - can we learn about neurodegenerative diseases from yeast?, Mitochondrial rejuvenation and replacement as a novel strategy for treatment of age-related neurodegenerative diseases, Propagation and removal of cerebral amyloid angiopathy, and much more.

Enzyme Activity in Single Cells, Volume 628, the latest release in the Methods of Enzymology series, discusses groundbreaking cellular physiology research that is taking place in the biological sciences. Chapters in this new release cover Spatial and temporal resolution of caspase waves in single Xenopus eggs during apoptosis, Spatial and temporal organization of metabolic complexes in cells, Measuring cellular efflux and biomolecular delivery: synthetic approaches to imaging and engineering cells, Slide-based, single-cell enzyme assays, Single-cell assays using integrated continuous-flow microfluidics, High-throughput screening of single-cell lysates, Microfluidic capture of single cells for drug resistance assays, and much more.

Medicinal Plant Responses to Stressful Conditions discusses the effects of multiple biotic and abiotic stressors on medicinal plants. It features information on biochemical, molecular, and physiological strategies used to mitigate or alleviate detrimental effects of biotic and abiotic stressors. The book contains chapters featuring medicinal plants of importance covering subjects including genomics, functional genomics, metabolomics, phenomics, proteomics, and transcriptomics under biotic and abiotic stress of medicinal plants and their molecular responses. It suggests exogenous application of different types of stimulants to enhance medicinal plant production in such conditions. Features: * Details all aspects of biotic and abiotic stressors in various important medicinal plant species. * Chapters cover evidence-based approaches in the diagnosis and management of medicinal plants under stressful conditions. * Includes information on ways to mitigate effects from high salinity, drought, temperature extremes, waterlogging, wind, high light intensity, UV radiation, heavy metals, or mineral deficiencies. A volume in the Exploring Medicinal Plants series, this book is an essential resource for plant scientists, botanists, environmental scientists, and anyone with an interest in herbal medicine

Advances in Microbial Physiology, Volume 75, the latest release in this ongoing series, continues the long tradition of topical, important, cutting-edge reviews in microbiology. The book contains updates in the field, with comprehensive chapters covering, Sulfoxides in bacterial systems, RNA degradosomes and control by signals including c-di-GMP, Protein nanowires: biological function and synthetic constructs for 'Green' electronics, Bacterial nitrous oxide respiration: electron transport chains and copper transfer reactions, Multiple degrees of separation in the central pathways of the catabolism of aromatic compounds in Dikarya fungi, and more.

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Epigenetic Mechanisms of the Cambrian Explosion provides readers with a basic biological knowledge and epigenetic explanation of the biological puzzle of the Cambrian explosion, the unprecedented rapid diversification of animals that began 542 million years ago. During an evolutionarily instant of ~10 million years, which represents only 0.3% of the time of existence of life on Earth, or less than 2% of the time of existence of metazoans, all of the 30 extant body plans, major animal groups (phyla) and several extinct groups appeared. The work helps address this phenomena and tries to answer remaining questions for evolutionary biology, epigenetics, and scientific researchers. The book recognizes and presents objective representations of alternative theories for epigenetic evolution in this period, with the author drawing on his epigenetic theory of evolution to explain the causal basis of the Cambrian explosion. Both empirical evidence and theoretical arguments are presented in support of this thought-provoking epigenetic theory.

Lysosomes and Membrane Function, Volume 84 in the Current Topics in Membranes series, highlights new advances in the field, with this volume presenting interesting chapters on a variety of topics, including Parasite invasion and PMR, Actin dynamics and myosin contractility during plasma membrane repair: Does one ring really heal them all?, The role of intercellular signaling in cell membrane repair, Role of lipids in plasma membrane repair, Lysosomes and plasma membrane repair, Alveolar epithelial cell membrane integrity: a venerable target in the lung, Conservative evolution of natural versus artificial PEG-induced mechanisms of PMR in eukaryotes, and more.

This volume offers an up-to-date overview of essential concepts and modern approaches to computational modelling, including the use of experimental techniques related to or directly inspired by them. The book introduces, at increasing levels of complexity and with the non-specialist in mind, state-of-the-art topics ranging from single-cell and molecular descriptions to circuits and networks. Four major themes are covered, including subcellular modelling of ion channels and signalling pathways at the molecular level, single-cell modelling at different levels of spatial complexity, network modelling from local microcircuits to large-scale simulations of entire brain areas and practical examples. Each chapter presents a systematic overview of a specific topic and provides the reader with the fundamental tools needed to understand the computational modelling of neural dynamics. This book is aimed at experimenters and graduate students with little or no prior knowledge of modelling who are interested in learning about computational models from the single molecule to the inter-areal communication of brain structures. The book will appeal to computational neuroscientists, engineers, physicists and mathematicians interested in contributing to the field of neuroscience. Chapters 6, 10 and 11 are available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.

Cellular Signal Processing offers a unifying view of cell signaling based on the concept that protein interactions act as sophisticated data processing networks that govern intracellular and extracellular communication. It is intended for use in signal transduction courses for undergraduate and graduate students working in biology, biochemistry, bioinformatics, and pharmacology, as well as medical students. The text is organized by three key topics central to signal transduction: the protein network, its energy supply, and its evolution. It covers all important aspects of cell signaling, ranging from prokaryotic signal transduction to neuronal signaling, and also highlights the clinical aspects of cell signaling in health and disease. This new edition includes expanded coverage of prokaryotes, as well as content on new developments in systems biology, epigenetics, redox signaling, and small, non-coding RNA signaling.

"Dancing protein clouds: Intrinsically disordered proteins in the norm and pathology" represents a set of selected studies on a variety of research topics related to intrinsically disordered proteins. Topics in this update include structural and functional characterization of several important intrinsically disordered proteins, such as 14-3-3 proteins and their partners, as well as proteins from muscle sarcomere; representation of intrinsic disorder-related concept of protein structure-function continuum; discussion of the role of intrinsic disorder in phenotypic switching; consideration of the role of intrinsically disordered proteins in the pathogenesis of neurodegenerative diseases and cancer; discussion of the roles of intrinsic disorder in functional amyloids; demonstration of the usefulness of the analysis of translational diffusion of unfolded and intrinsically disordered proteins; consideration of various computational tools for evaluation of functions of intrinsically disordered regions; and discussion of the role of shear stress in the amyloid formation of intrinsically disordered regions in the brain.