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Spatial Genome Organization : Methods and Protocols
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ISBN: 1071624970 1071624962 Year: 2022 Publisher: New York, NY : Springer US : Imprint: Humana,

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This detailed volume explores a variety of cutting-edge techniques used to interrogate spatial genome organization. Beginning with a section covering the vital chromosome conformation capture (3C) technique, this collection continues with chapters on targeted Hi-C approaches, sequencing-based approaches to assess nuclear environment, as well as single-cell technologies to better characterize the heterogeneity and dynamics of nuclear architectures and approaches to visualize them by microscopy. Finally, in order to be able to ask functional questions about the role of spatial chromatin organization in genomic control, the last section provides methods for acute manipulations of chromatin architecture. 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, Spatial Genome Organization: Methods and Protocols is an ideal resource for researchers searching for the best techniques to address their own specific research questions.


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Epigenomics : Methods and Protocols
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ISBN: 1071627244 1071627236 Year: 2023 Publisher: New York, NY : Springer US : Imprint: Humana,

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This detailed volume provides a comprehensive collection of protocols for epigenomic research, powering our ability to analyze epigenetic modifications across the entire genome. Beginning with methods used to investigate epigenomic modifications such as DNA methylation, histone modifications, and chromatin structure, the book continues with methods for manipulating the epigenome, including platforms for epigenome editing, inducible systems for epigenome editing, and epigenetically modified animals. Written for the highly successful Methods in Molecular Biology series, chapters feature 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, Epigenomics: Methods and Protocols serves as an ideal resource for researchers looking to further expand the utility and scope of epigenomics research.


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Epigenetics in Biological Communication
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ISBN: 9783031592867 Year: 2024 Publisher: Cham : Springer Nature Switzerland : Imprint: Springer,

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Epigenetics in Biological Communication is the first book that integrates Development, Signaling, Context, Genetics and Evolution. Every cell, tissue, organ and organism is competent to use signals to exchange information reaching common coordinations and organisations of both single cell and group behavior. These signal-mediated interactions we term biological communication (biocommunication). The regulatory system that works in development, morphology, cell fate and identity, physiology, genetic instructions, immunity, memory/learning, physical and mental disease depends on epigenetic marks. The communication of cells, persistent viruses and their defectives such as mobile genetic elements and RNA networks ensures both the transport of regulatory instructions and the reprogramming of these instructions. But how are the different states of the epigenome orchestrated? With the emergence of epigenetic memory, organisms can fix historical and context- dependent impressive experiences. Evolution from now on learnt to learn. Learning means organisms can avoid reproduction of always the same. This is key to adaptation. However, inheritance of acquired characteristics is only one of the many examples of the explanatory power of epigenetics. Behavioral epigenetics demonstrates the way in which environmental and social experiences produce individual differences in behavior, cognition, personality, and mental health. This book assembles leading experts to outline the various motifs of epigenetic regulation of cellular life.


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Epigenetics in Biological Communication
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ISBN: 9783031592867 9783031592850 9783031592874 9783031592881 Year: 2024 Publisher: Cham Springer Nature, Imprint: Springer

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Abstract

Epigenetics in Biological Communication is the first book that integrates Development, Signaling, Context, Genetics and Evolution. Every cell, tissue, organ and organism is competent to use signals to exchange information reaching common coordinations and organisations of both single cell and group behavior. These signal-mediated interactions we term biological communication (biocommunication). The regulatory system that works in development, morphology, cell fate and identity, physiology, genetic instructions, immunity, memory/learning, physical and mental disease depends on epigenetic marks. The communication of cells, persistent viruses and their defectives such as mobile genetic elements and RNA networks ensures both the transport of regulatory instructions and the reprogramming of these instructions. But how are the different states of the epigenome orchestrated? With the emergence of epigenetic memory, organisms can fix historical and context- dependent impressive experiences. Evolution from now on learnt to learn. Learning means organisms can avoid reproduction of always the same. This is key to adaptation. However, inheritance of acquired characteristics is only one of the many examples of the explanatory power of epigenetics. Behavioral epigenetics demonstrates the way in which environmental and social experiences produce individual differences in behavior, cognition, personality, and mental health. This book assembles leading experts to outline the various motifs of epigenetic regulation of cellular life.


Book
Biotechnology for Silkworm Crop Enhancement : Tools and Applications
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ISBN: 981975061X Year: 2024 Publisher: Singapore : Springer,

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The book introduces readers to the latest developments in biotechnological methods used for improving the cultivation of silkworms. The text focuses on implementing biotechnological approaches, ranging from basic to advanced techniques, on enhancing silk production, increasing abiotic stress resilience, improving disease tolerance, and developing resistance in silkworm crops. With the current climate crisis and growing demand for high-quality silk, biotechnological applications have become essential in addressing the urgent need to increase silk production. The field of sericulture has made significant breakthroughs, such as identifying DNA markers, linkage association, genome-wide association studies, generating mutants, and introducing transgenic silkworms. Developing silkworms with improved cocoon yield and disease resistance is crucial to boost silk production. The book covers fundamental principles and recent advancements and delves into various methodologies employed inseri-biotechnology for improving silkworm crops. These methodologies include next-generation sequencing for DNA sequencing, using molecular markers to enhance abiotic stress tolerance (specifically high temperature and humidity conditions), expression analysis, RNA interference, gene knockout approaches to bolster disease resistance, and transcriptomics to enhance economically significant parameters such as silk content. The book explains these topics in detail and includes contemporary research appraisals, extensive discussions, and an evaluation of the benefits and risks associated with the use of biotechnological tools. This book serves as an invaluable reference for researchers and academics in biotechnology, molecular biology, and sericulture while also serving as an informative starting point for budding researchers.


Book
Health Analytics with R : Learning Data Science Using Examples from Healthcare and Direct-to-Consumer Genetics
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ISBN: 9783031743832 3031743830 Year: 2024 Publisher: Cham : Springer Nature Switzerland : Imprint: Springer,

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This textbook teaches health analytics using examples from the statistical programming language R. It utilizes real-world examples with publicly available datasets from healthcare and direct-to-consumer genetics to provide learners with real-world examples and enable them to get their hands on actual data. This textbook is designed to accompany either a senior-level undergraduate course or a Masters level graduate course on health analytics. The reader will advance from no prior knowledge of R to being well versed in applications within R that apply to data science and health analytics. “I have never seen a book like this and think it will make an important contribution to the field. I really like that it covers environmental, social, and geospatial data. I also really like the coverage of ethics. These aspects of health analytics are often overlooked or deemphasized. I will definitely buy copies for my team.” - Jason Moore, Cedars-Sinai Medical Center “Overall, I have a highly positive impression of the book. It is VERY comprehensive. It covers very extensive data types. I do not recall other books with the same level of comprehensiveness.” - Shuangge Ma, Yale University “The book is comprehensive in both aspects of genetics, and health analytics. It covers any type of information a healthcare data scientist should be familiar with, whether they are novice or experienced. I found any chapter that I looked into comprehensive, but also not too detailed (although in general this book is more than 600 pages of comprehensive and detailed relevant information).” - Robert Moskovtich, Ben-Gurion University of the Negev.


Book
Plant Comparative Genomics
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ISBN: 1071624296 1071624288 Year: 2022 Publisher: New York, NY : Springer US : Imprint: Humana,

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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.


Periodical
Human genomics.
ISSN: 14797364 Year: 2003 Publisher: [London] : [London] : Henry Stewart Publications, BioMed Central


Book
R-Loops : Methods and Protocols
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ISBN: 1071624776 1071624768 Year: 2022 Publisher: New York, NY : Springer US : Imprint: Humana,

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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.


Book
Nuclear, Chromosomal, and Genomic Architecture in Biology and Medicine
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ISBN: 3031065727 3031065735 Year: 2022 Publisher: Cham : Springer International Publishing : Imprint: Springer,

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This volume reviews the latest research on the functional implications of nuclear, chromosomal and genomic organization and architecture on cell and organismal biology, and development and progression of diseases. The architecture of the cell nucleus and non-random arrangement of chromosomes, genes, and the non-membranous nuclear bodies in the three-dimensional (3D) space alters in response to the environmental, mechanical, chemical, and temporal cues. The changes in the nuclear, chromosomal, or genomic compaction and configuration modify the gene expression program and induce or inhibit epigenetic modifications. The intrinsically programmed rearrangements of the nuclear architecture are necessary for cell differentiation, the establishment of cell fate during development and maturation of tissues and organs including the immune, muscle, and nervous systems. The non-programmed changes in the nuclear architecture can lead to fragmentation of the nucleus and instability of the genome and thus cause cancer. Microbial and viral infections can lead to a clustering of centromeres, telomeres and ribosomal DNA and alter the properties of the nuclear membrane, allowing large immobile macromolecules to enter the nucleus. Recent advances in next-generation sequencing technologies combined with nucleus/chromosome conformation capture, super-resolution imaging, chromosomal contact maps methods, integrative modeling, and genetic approaches, are uncovering novel features and importance of nuclear, chromosomal and genomic architecture. This book is an interesting read for cell biologists, researchers studying the structure and function of chromosomes, and anyone else who wants to get an overview of the field of nuclear, chromosomal and genomic architecture.

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