Books in the Methods in Molecular Biology series

This volume introduces software used for gene prediction with focus on eukaryotic genomes. The chapters in this book describe software and web server usage as applied in common use-cases, and explain ways to simplify re-annotation of long available genome assemblies. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary computational requirements, step-by-step, readily reproducible computational protocols, and tips on troubleshooting and avoiding known pitfalls.Cutting-edge and thorough, Gene Prediction: Methods and Protocols is a valuable resource for researchers and research groups working on the assembly and annotation of single species or small groups of species. Chapter 3 is available open access under a CC BY 4.0 license via link.springer.com.

This detailed book provides a comprehensive state-of-the-art presentation of all aspects of miRNA target identification, from the prediction of miRNA binding sites on their target molecules to their experimental validation and downstream functional analysis.

This volume explores the latest techniques used to study Leishmania and other trypanosomatidae. Chapters in this book cover a wide range of topics such as cultivation of axenic amastigote forms; phylogeny and comparative genomics; and in vitro and in vivo infection models that look at hosts ranging from cell lines to mammalian and arthropode hosts. 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.Unique and cutting-edge, Leishmania: Methods and Protocols is a valuable guide for both established and novice researchers in the Leishmania field. This book will also be useful to researchers working with other protozoa of the Order Trypanosomatide.

Chapters divided into seven parts focus on applications in clinical chemistry and small molecule analysis, applications in drug analysis, examples of CE applied to metabolomics, application in pediatrics, CE analysis on oncology, and CE analysis in virology.

This detailed book provides a wide range of techniques, from those that have been used extensively since the very first investigations into neural crest cells to those that are currently cutting-edge, in order to explore the development of neural crest cells in human, mice, rat, chick, quail, medaka, and shark.

This detailed book provides a state-of-the-art compilation of protocols relevant for the experimental study of cholestasis, each written by internationally recognized research teams that have built up long-standing expertise regarding one or more aspects of experimental cholestasis research.

This volume covers a large area, from the description of methodologies for data analysis to the real application. Chapters focus on methodologies for preprocessing of microarray data, a survey of miRNA Data analysis, Cloud-based approaches, application of data mining techniques for data analysis, biclustering to query different datasets, web-based tool to analyze the evolution of miRNA clusters, application of biclustering to mine patterns of co-regulated genes ontologies, microarray and proteomic Data, Gene Regulatory Network Inference, Gene Regulatory Network methods, analysis of Mouse data for metabolomics studies, analysis of microRNA data in Multiple Myeloma, microarray data analysis in Gliobastomas, and microRNA data in Cardiogenesis.Written for the 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, Microarray Data Analysis: Methods and Applications, Second Edition aims to ensure successful results in the further study of this vital field.

This second edition volume brings together the experiences of leading scientists in the discipline of cancer gene profiling. Because cancer genes can be profiled in many different ways, Cancer Gene Profiling: Methods and Protocols, Second Edition explores different techniques and approaches needed to understand the key stages of cancer development, as using only one technique would be insufficient. This book provides readers with an overview of the state-of-the-art methods that will enable them to perform these experiments, and demonstrates the kind of analysis that is possible in our current biomedical research. 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.Thorough and cutting-edge, Cancer Gene Profiling: Methods and Protocols, Second Edition is a great resource for any student or practitioner with an interest in cancer gene profiling, and can be used in any well-equipped research laboratory.

This volume describes methods and protocols for a number of drugs and toxins in a stepwise manner. Chapters in the book cover a wide array of topics such as: quantitation of Flecainide, Mexiletine, Propafenone, and Amiodarone in Serum or Plasma; quantitation of total Buprenorphine and Norbuprenorphine in Meconium; quantitation or Carisoprodol and Meprobamate in Urine; and quantitation of Tricyclic Antidepressants in Serum. Each chapter contains a brief introduction to the topic, clinical utility of the analyte(s), and useful notes to help laboratorians easily reproduce the protocols discussed. 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 thorough, Clinical Applications of Mass Spectrometry in Drug Analysis: Methods and Protocols, is a great resource for laboratorians who are already using mass spectrometry or thinking of introducing this technology to their laboratories.

This volume guides readers through the field of systems medicine by defining the terminology, and describing how established computational methods form bioinformatics and systems biology can be taken forward to an integrative systems medicine approach.

This volume provides detailed descriptions of prevailing and novel techniques used by experts in the study of PTEN function in disease and biology.

This volume combines protocols that encompass the true variety of investigation done on superantigens in the fields of microbiology, immunology, molecular biology, biochemistry, and cellular biology, with a strong focus on disease models utilized to determine the role of superantigens in human disease.

This second edition expands upon the previous volume with additional emphasis on recent innovation in basic renal research and has a more holistic approach on associated disorders such as complications associated with peritoneal dialysis, ischemic acute kidney injury, the sympathetic nervous system, and vascular calcification.

This volume provides relevant synthetic strategies, incorporation, and applications of non-natural nucleic acids. Chapters detail monomer synthesis, oligomer synthesis/construction, and applications allowing researchers to explore and determine which methodology or methodologies are relevant to their needs.

This volume details methods and protocols to further the study of stem cells within the computational stem cell biology (CSCB) field.

This volume discusses the latest developments in cellular, molecular, biochemical, and imaging assays to study the biology and functions of T-cells. The chapters in this book cover topics such as LFA-1/ICAM-1 interactions in T-cell motility; using 3D-SIM to dissect signaling cross-talks in motile T-cells; GapmeR-mediated gene silencing in motile T-cells; activity of cellular kinases in migrating T-cells; and computational analysis of protein-protein interactions in motile T-cells. 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, T-Cell Motility: Methods and Protocols is an essential resource for graduate students, postdoctoral fellows, and principal investigators working in the fields of immunology, T-cell biology, biochemistry, molecular biology, and imaging.

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, tips on troubleshooting and avoiding known pitfalls.

This book provides key methods, approaches, and strategies to dissect the plant defense response.

This detailed volume examines bioinformatic and molecular biological methods useful to identify and to explore the functions of CpG islands, key navigation points to understand gene regulation in fundamental processes such as development and cell differentiation as well as in diseases like cancer.

DNA Replication

This book presents a selection of current capillary electrophoresis methods used to separate representative types of molecules and particles and in combination with different detection techniques.

This volume includes detailed techniques to examine mRNAs, small non-coding RNAs, protein-associated small RNAs, sulfur-containing RNAs, viral and satellite RNAs, RNA isoforms, and alternatively spliced RNA variants from various organisms, as well as key discussions of computational data processing for genome-wide datasets.

Stem cell mobilization represents a transient increase in the levels of circulating stem and progenitor cells.