Böcker i Methods in Molecular Biology-serien

This volume brings together cutting-edge laboratory protocols to characterize the novel fluorescent proteins (FPs) and approaches based on fluorescent proteins that aim to answer some of the key cell biological questions. The book covers topics ranging from the database of fluorescent proteins to their characterization and adaptation to a wide range of biological systems. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step and readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Fluorescent Proteins: Methods and Protocols serves as an ideal guide for students and academicians enthusiastic about the recent progress in the practical application of fluorescent protein technology.

This volume covers the most up-to-date methods and techniques used to further the understanding of chromaffin cell biology and pharmacology. Chapters guide readers through the basic mechanisms that regulate the stimulus-secretion coupling, chromaffin, tumor-derived cell PC-12 , morphology, biochemistry, pharmacology, electrophysiology, and electrochemistry. Written in the 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 protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Chromaffin Cells: Methods and Protocols aims to be a useful practical guide to researches to help further their study in this field. 

This volume details histochemical techniques for the detection of specific molecules or metabolic processes, both at light and electron microscopy. Chapters are divided into seven sections covering Vital histochemistry, Carbohydrate histochemistry, Protein histochemistry, Lipid histochemistry, Nuclear histochemistry, Plant histochemistry and Histochemistry for Nanoscience. Written in the 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 protocols, and notes on troubleshooting and avoiding known pitfalls. The volume also contains three discursive chapters on Histochemistry in advanced cytometry, Lectins and Detection of molecules in plant cell walls by fluorescence microscopy. Authoritative and cutting-edge, Histochemistry of Single Molecules: Methods and Protocols, Second Edition aims to be a useful practical guide for researchers to help further their study in this field.

This detailed volume collects updates on the technical advances in hematopoietic stem cell research and incorporates new techniques focused on the molecular/genetic, cellular, and whole organism levels. Exploring methods that apply stress to hematopoiesis, the book also contains chapters focused on better understanding the role of hematopoietic niches and their cellular components, as well as in vivo models that test and quantitate stem cell function and are key to further development of therapeutic applications. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step and readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and up-to-date, Hematopoietic Stem Cells: Methods and Protocols serves as a valued addition to laboratories focused on understanding hematopoietic stem cell biology and the therapeutic advances that can be derived from it.

This third edition expands on the previous editions by providing updated protocols and current methods that cover recent breakthroughs in Drosophila research. Chapters guide readers through FlyBase, versatile gene expression systems, analysis of microRNA function, single-cell transcriptome data and metabolism, recent applications of CRISPR for precise genome editing, transcriptional activation and cell lineage tracing, protein inhibition and tagging, optogenetic and optochemical control of tissue mechanics, AFM measurements, sample preparation for electron microscopy, live imaging of different tissues and organs, and quantitative image analysis. Written in the format of the highly successful Methods in Molecular Biology series, chapters include an introduction to their topic, lists of the necessary materials and reagents, step-by-step and readily reproducible laboratory protocols, as well as tips on troubleshooting and avoiding known pitfalls Authoritative and cutting-edge, Drosophila: Methods and Protocols, Third Edition serves as a useful and practical guide to new researchers and experts using Drosophila as a model system.Chapter 7 is available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.

This volume looks at a collection of the latest techniques used to quantify the genome-by-environment-by-management (GxExM) interactions in a variety of model and plant crops. The chapters in this book are organized into five parts. Part One discusses high-throughput plant phenotyping (HTPP) protocols for plants growing under controlled conditions. Part Two present novel algorithms for extracting data from seed images, color analysis from fruits, and other digital readouts from 2D objects. Part Three covers molecular imaging protocols using PET and X-ray approaches, and Part Four presents a collection of HTPP techniques for crops growing under field conditions. The last part focuses on molecular analysis, metabolomics, network analysis, and statistical methods for the quantitative genetic analysis of HTP data. 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. Cutting-edge and practical, High-Throughput Plant Phenotyping: Review and Protocols is a valuable resource for both novice and expert researchers looking to learn more about this important field.Chapter 21 is available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.

This detailed volume introduces different methods to assess the structure and folding of bacterial amyloids and analyze their functions, either in vitro or in vivo. Despite their initial association with neurodegenerative diseases, there is now increasing evidence of alternative roles for amyloids, with beneficial aspects for cells. In particular, prokaryotes use amyloids as functional assemblies, where they are key players in the cell's physiology. Written for the highly successful Methods in Molecular Biology series, 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 up-to-date, Bacterial Amyloids: Methods and Protocols is an ideal guide for experts and novices alike to further explore these crucial protein assemblies.

This detailed volume collects commonly used and cutting-edge methods to analyze alternative splicing, a key step in gene regulation. After an introduction of the alternative splicing mechanism and its targeting for therapeutic strategies, the book continues with techniques for analyzing alternative splicing profiles in complex biological systems, visualizing and localizing alternative spliced transcripts with cellular and sub-cellular resolution, probing regulators of alternative splicing, as well as assessing the functional consequences of alternative splicing. Written for the highly successful Methods in Molecular Biology series, chapters include introduction to their respective topics, lists of the necessary materials and reagents, step-by-step, reproducible protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Alternative Splicing: Methods and Protocols serves as an ideal guide for both RNA aficionados that want to implement novel approaches in their labs and novices undertaking alternative splicing projects.

This volume covers the latest developments in different areas of plant pathology. The chapters in this volume are organized into seven parts. Part One provides traditional methods for isolation and identification of invasive pathogens and root disease. Part Two looks at new and rapid DNA extraction protocols from different samples, and Part Three focuses on molecular detection protocols for identifying and quantifying plant pathogens, including fungal and bacterial invasive species. Part Four describes the application of metabarcoding in plant pathology, and Part Five talks about plant pathogen interactions. Part Six concentrates on population genomics of plant pathogens, and Part Seven covers biocontrol on plant pathogens. 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.Cutting-edge and thorough, Plant Pathology: Methods and Protocols is a valuable resource for researchers in the plant pathology community, and discusses various approaches for the detection, identification, and control of plant diseases.

This detailed book compiles a series of laboratory protocols covering the most important aspects of R-loop biology. Beginning with a range of methods allowing for the detection of DNA-RNA hybrids, as well as their purification and visualization by electron microscopy, the volume continues with methods based on the use of RNase H-derived tools to detect DNA-RNA hybrids in vitro and in vivo. Several protocols permit studying non-canonical RNA nucleotides in the R-loop context, as well as a number of specific protocols devoted to the investigation of R-loop topology and their functional roles in the biology of mitochondria and telomeres. Finally, a large block of chapters is dedicated to different methods allowing genome-wide mapping of DNA-RNA hybrids in various organisms. Written for the highly successful Methods in Molecular Biology series, 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 practical, R-Loops: Methods and Protocols serves as an ideal resource for those working on R-loop homeostasis but also to scientists studying such areas of molecular and cell biology as genome integrity, DNA replication and repair, chromatin remodeling, transcription, RNA processing, modification and export, as well as for researchers elucidating the molecular mechanisms of cancer and genetic diseases.

This volume provides essential and fundamental protocols on manipulation chromosome. Chapters details methods on the preparation of mitotic chromosome, chromosome aberration, micronucleus (MN), comet assay, karyotyping, Fluorescent in situ hybridization (FISH), premature chromosome condensation (PCC), immunohistochemistry (IHC) staining, new generation sequencing technology and new chromosome concepts, such as epigenetic and its cause of cancer are presented. Written in the format of the highly successful Methods in Molecular Biology series, each chapter includes an introduction to the topic, lists necessary materials and reagents, includes tips on troubleshooting and known pitfalls, and step-by-step, readily reproducible protocols. Authoritative and cutting-edge, Chromosome Analysis: Methods and Protocols aims to be a useful and practical guide to new researchers and experts looking to expand their knowledge. 

This detailed book presents recent methodologies for the task of inspecting the genomic world of plants, extracting valuable information, and presenting it in a readable way. With a focus on bioinformatics tools, the volume explores phylogenetics and evolution, Omics analysis, as well as experimental procedures for trait characterization. Written for the highly successful Methods in Molecular Biology series, chapters include the kind of vital expert implementation advice that will lead to successful results. Authoritative and practical, Plant Comparative Genomics serves as an ideal resource for researchers looking to implement comparative tools in order to explore their genomic data for their daily scientific work.

This volume presents a collection of versatile methodologies to investigate prokaryotic gene regulation, with focus on the different levels of information processing and usefulness for various model organisms, whether archaeal, bacterial, or both. The chapters in this book are divided into four sections. Section One covers methods that enable the study of the structure of the bacterial/archaeal chromosome, the main template for all gene regulatory processes, and its epigenetic modification. Section Two looks at a selection of approaches that enable higher levels of understanding of transcription initiation, a key step in information processing. Section Three discusses the investigation of regulating transcription factors, which are often considered the main players in gene regulation in prokaryotic cells. The Fourth Section focuses on the next stage of information processing at which gene regulation occurs, namely the RNA-based level. 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.Cutting-edge and comprehensive, Prokaryotic Gene Regulation: Methods and Protocols is a valuable resource for researchers interested in learning more about this diverse field.

This volume covers comprehensive methods on ways to assess structural and ultrastructural changes in the mitochondria, cytoskeleton, and microglia using state-of-the-art microscopy techniques including super-resolution imaging, electron microscopy, and ultra-high field MRI. The chapters in this book cover topics such as analysis of neurodegeneration in the post-mortem characterization of preclinical animal models, in vivo modeling in cell death in different model systems and brain organoids, single cell clonal analysis using Mosaic Analysis with Double Markers in genetic mouse models, and genome and proteomic methods for analysis of mRNA dynamics and quantitation of targeted peptides. 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.Cutting-edge and thorough, Neuronal Cell Death: Methods and Protocols is a valuable resource for any scientist and researcher interested in learning more about this developing field.

This detailed volume explores newly-developed methods in PIWI-interacting RNAs (piRNAs) research, methods currently applied to other ncRNAs involved in nuclear regulation which can be used to study piRNAs, and piRNA methods applied in non-classical organisms. It also includes several bioinformatic and biophysical methods related to piRNA studies, consistent with the increasing importance of high-throughput sequencing and computational methods. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials, step-by-step, readily reproducible protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and up-to-date, piRNA: Methods and Protocols serves as an ideal guide for researchers seeking to elucidate the numerous mysteries of this area of multicellular biology.

This detailed volume explores protocols for the production of membrane proteins in a panel of heterologous organisms for structural studies. Beginning with techniques using E. coli as a host for the overproduction and purification of membrane proteins, the book continues with chapters covering mammalian membrane protein production in yeast, insect cells, mammalian cells, as well as using virus like particles and acellular systems. Additionally, new detergents and alternatives to detergents allowing membrane protein purification for structural analyses are described. The book closes with a chapter exploring the use of microscale thermophoresis (MST) to evaluate the binding activity of heterologously expressed proteins directly in crude membrane extracts. Written for the highly successful Methods in Molecular Biology series, 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 up-to-date, Heterologous Expression of Membrane Proteins: Methods and Protocols, Third Edition serves as an ideal guide for scientists aiming to produce and purify functional recombinant membrane proteins for structural studies.

This volume details a collection of laboratory protocols to study asthma in mice and humans. Chapters cover animal models of asthma, methods to measure asthma-related molecules, protocols to detect, isolate, culture and stimulate cells that contribute to asthma in mice and humans, methods to deplete these cells in vivo and study responses of intact airway tissues ex vivo. Written in the format of the highly successful Methods in Molecular Biology series, each chapter includes an introduction to the topic, lists necessary materials and reagents, includes tips on troubleshooting and known pitfalls, and step-by-step, readily reproducible protocols. Authoritative and cutting-edge, Asthma: Methods and Protocols aims to be a foundation for future studies and to be a source of inspiration for new investigations in the field.

This volume describes computational approaches to predict multitudes of PTM sites. Chapters describe in depth approaches on algorithms, state-of-the-art Deep Learning based approaches, hand-crafted features, physico-chemical based features, issues related to obtaining negative training, sequence-based features, and structure-based features. Written in the format of the highly successful Methods in Molecular Biology series, each chapter includes an introduction to the topic, lists necessary materials and reagents, includes tips on troubleshooting and known pitfalls, and step-by-step, readily reproducible protocols. Authoritative and cutting-edge, Authoritative and cutting-edge,  Computational Methods for Predicting Post-Translational Modification Sites aims to be a useful guide for researchers who are interested in the field of PTM site prediction. 

This volume details step-by-step instructions on biomedical literature mining protocols. Chapters guide readers through various topics such as, disease comorbidity, literature-based discovery, protocols to combine literature mining, machine learning for predicting biomedical discoveries, and uncovering unknown public knowledge by combining two pieces of information from different sets of PubMed articles. Additional chapters discuss the importance of data science to understand outbreaks such as COVID-19.   Written in the format of the highly successful Methods in Molecular Biology series, each chapter includes an introduction to the topic, lists necessary materials and reagents, includes tips on troubleshooting and known pitfalls, and step-by-step, readily reproducible protocols. Authoritative and cutting-edge, Biomedical Text Mining aims to be a useful practical guide to researches to help further their studies.          

This volume details generation of gene-edited cell lines and organisms as models for human diseases, pest control, and large animal welfare and production outcomes. Chapters guide readers through gene regulation, editing, screening of cell lines, genome editing, and an overview of the tools for efficient genome editing including; ZFNs, TALENs, and CRISPR. Written in the format of the highly successful Methods in Molecular Biology series, each chapter includes an introduction to the topic, lists necessary materials and reagents, includes tips on troubleshooting and known pitfalls, and step- by-step, readily reproducible protocols. Authoritative and cutting-edge, Applications of Genome Modulation and Editing aims to be a useful and practical guide for researchers to commence or advance their study in this field.

This volume covers a broad range of methods, technologies, and protocols on malaria. Chapters detail research on collecting parasites in the field, single molecule-level analyses of adhesive interactions, and focused studies aiming at disrupting the devastating disease. Written in the format of the highly successful Methods in Molecular Biology series, each chapter includes an introduction to the topic, lists necessary materials and reagents, includes tips on troubleshooting and known pitfalls, and step-by-step, readily reproducible protocols. Authoritative and cutting-edge, Malaria Immunology: Targeting the Surface of Infected Erythrocytes aims to be a useful and practical guide to researches to help further their study in this field. Chapter Analysis of var gene transcription pattern using DBLI -tags [Chapter 14] is available open access under a Creative Commons Attribution 4.0  International License via link.springer.com.

This book explores the most important processing steps of proteomics data analysis and presents practical guidelines, as well as software tools, that are both user-friendly and state-of-the-art in chemo- and biostatistics. Beginning with methods to control the false discovery rate (FDR), the volume continues with chapters devoted to software suites for constructing quantitation data tables, missing value related issues, differential analysis software, and more. Written for the highly successful Methods in Molecular Biology series, chapters include the kind of detail and implementation advice that leads to successful results. Authoritative and practical, Statistical Analysis of Proteomic Data: Methods and Tools serves as an ideal guide for proteomics researchers looking to extract the best of their data with state-of-the art tools while also deepening their understanding of data analysis.

This volume provides a wide spectrum of multidisciplinary approaches for studying RNA structure and dynamics, including detailed accounts of experimental and computational procedures. Chapters guide readers through cryo-electron microscopy, crystallography, isothermal titration calorimetry, small angle X-ray scattering, single-molecule Forster Energy transfer, X-ray free electron laser,  atomic force microscopy, computational simulation, and prediction.  Written in the format of the highly successful Methods in Molecular Biology series, each chapter includes an introduction to the topic, lists necessary materials and reagents, includes tips on troubleshooting and known pitfalls, and step-by-step, readily reproducible protocols.Authoritative and cutting-edge, RNA Structure and Dynamics aims to be a foundation for future studies and to be a source of inspiration for new investigations in the field.  

This volume explores the latest techniques used to study environmental microbial evolution, with a focus on methods capable of addressing deep evolution at long timescales. The chapters in this book are organized into three parts. Part One introduces molecular dating approaches and time calibration ideas that allow for the determination of evolutionary timescales of microbial lineages. Part Two describes several advanced phylogenomic tools such as models for genome tree construction, a taxon sampling method, outgroup-independent tree-rooting methods, and gene family evolution models. Part Three covers techniques used to study trait evolution. 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.Cutting-edge and comprehensive, Environmental Microbial Evolution: Methods and Protocols is a valuable tool for all researchers who are interested in learning more about this important and evolving field. 

This updated book reflects improvements in a variety of techniques used to study the aptamer field. Beginning with a section on selection procedures, the volume continues with methods to characterize aptamers' interaction and structural properties by biophysical approaches, as well as a variety of applications that have been adapted to the aptamer compound class. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step and readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and up-to-date, Nucleic Acid Aptamers: Selection, Characterization, and Application, Second Edition serves as an ideal guide for researchers aiming to further our understanding of aptamer biology and more.

This detailed volume provides a comprehensive overview of state-of-the-art metabolomics methods based on mass spectrometry (MS), and their application in food, nutrition, and biomedical research. The chapters assembled herein cover hot topics related to sample preparation, chromatographic and electrophoretic separation, MS-based analysis, as well as data processing and analysis. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step and readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Mass Spectrometry for Metabolomics serves as a timely guide for chemists, biochemists, biologists, nutritionists, clinicians, and other experts working in the growing and exciting field of metabolomics.

This second edition provides new and updated methods and protocols for studying tumor angiogenesis in vitro and in vivo. Chapters detail morphological aspects of tumor angiogenesis, aortic ring, ex vivo tissue culture model for anti-angiogenic drug testing, transgenic zebrafish, orthotopic models of ovarian cancer, and uncovering metabolic effects of anti-angiogenic therapy in tumors by induced metabolic bioluminescence imaging.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. Cutting-edge and comprehensive, Tumor Angiogenesis Assays: Methods and Protocols, Second Edition is a valuable resource for all researchers interested in learning more about this important and developing field.

This second edition volume expands on the previous edition with updated techniques and discussions on topics such as gene suppression, editing, and reprogramming; cardiac gene therapy vectors and promoters; cardiac gene delivery methods; pulmonary hypertension; and patient screening and measuring the efficacy of cardiac gene therapy. 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. Cutting-edge and comprehensive, Cardiac Gene Therapy: Methods and Protocols, Second Edition is a valuable tool for researchers in cardiology who are conducting gene therapy research. This book will lead to further advancements and successful clinical translations in the field. Chapter "e;Direct Reprogramming of Adult Human Cardiac Fibroblasts into Induced Cardiomyocytes Using miRcombo"e; is available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.

This volume provides a comprehensive compilation of protocols in T cell repertoire analysis, from the leading experts in the field, representing both well-established methods and cutting-edge advances. Chapters broadly cover the emerging new T cell subsets, sequencing technologies for capturing TCR repertoire, and computational tools for analyzing an ever-growing TCR repertoire, with a particular focus on how to link the sequence with TCR antigen specificity. Written in the 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 protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, T-Cell Repertoire Characterization aims to be a useful practical guide to researches to help further their study in this field. 

This book combines discursive chapters that present the latest progress in molecular biology, drug discovery, organ-tissue engineering, and related fields, with a number of descriptive chapters on methods, protocols, and case studies. Structured into four parts, this volume walks the reader through the latest in cellular biology, with discussions on novel medicinal plant metabolites, nanotechnology in precision medicine, nucleic acid-based therapeutics and vaccines, genetic engineering, computational aid, bioinformatics, synthetic organs for transplantation, and organ-tissue engineering. Written for the highly successful Methods in Molecular Biology series, chapters include the kind of detail and expert implementation advice that ensures quality results in the lab. Authoritative and informative, Gene, Drug, and Tissue Engineering serves as an ideal guide for undergraduate students, postgraduate researchers, and senior researchers working in biomedicine and its underlying technologies, stimulating both computational and experimental development and fostering the exchange of new ideas.