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Molecular Biology Of Dna Methylation
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Book Synopsis Molecular Biology of DNA Methylation by : Roger L.P. Adams
Download or read book Molecular Biology of DNA Methylation written by Roger L.P. Adams and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 256 pages. Available in PDF, EPUB and Kindle. Book excerpt: During the past few decades we have witnessed an era of remarkable growth in the field of molecular biology. In 1950 very little was known of the chemical constitution of biological systems, the manner in which in formation was transmitted from one organism to another, or the extent to which the chemical basis of life is unified. The picture today is dramati cally different. We have an almost bewildering variety of information detailing many different aspects of life at the molecular level. These great advances have brought with them some breath-taking insights into the molecular mechanisms used by nature for replicating, distributing and modifying biological information. We have learned a great deal about the chemical and physical nature of the macromolecular nucleic acids and proteins, and the manner in which carbohydrates, lipids and smaller mole cules work together to provide the molecular setting of living systems. It might be said that these few decades have replaced a near vacuum of information with a very large surplus. It is in the context of this flood of information that this series of mono graphs on molecular biology has been organized. The idea is to bring together in one place, between the covers of one book, a concise assess ment of the state of the subject in a well-defined field.
Download or read book DNA Methylation written by J. Jost and published by Birkhäuser. This book was released on 2013-11-11 with total page 581 pages. Available in PDF, EPUB and Kindle. Book excerpt: The occurrence of 5-methylcytosine in DNA was first described in 1948 by Hotchkiss (see first chapter). Recognition of its possible physiologi cal role in eucaryotes was first suggested in 1964 by Srinivasan and Borek (see first chapter). Since then work in a great many laboratories has established both the ubiquity of 5-methylcytosine and the catholicity of its possible regulatory function. The explosive increase in the number of publications dealing with DNA methylation attests to its importance and makes it impossible to write a comprehensive coverage of the literature within the scope of a general review. Since the publication of the 3 most recent books dealing with the subject (DNA methylation by Razin A. , Cedar H. and Riggs A. D. , 1984 Springer Verlag; Molecular Biology of DNA methylation by Adams R. L. P. and Burdon R. H. , 1985 Springer Verlag; Nucleic Acids Methylation, UCLA Symposium suppl. 128, 1989) considerable progress both in the techniques and results has been made in the field of DNA methylation. Thus we asked several authors to write chapters dealing with aspects of DNA methyla tion in which they are experts. This book should be most useful for students, teachers as well as researchers in the field of differentiation and gene regulation. We are most grateful to all our colleagues who were willing to spend much time and effort on the publication of this book. We also want to express our gratitude to Yan Chim Jost for her help in preparing this book.
Download or read book DNA Methylation written by A. Razin and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 398 pages. Available in PDF, EPUB and Kindle. Book excerpt: During the past few decades we have witnessed an era of remarkable growth in the field of molecular biology. In 1950 very little was known of the chemical constitution of biological systems, the manner in which information was trans mitted from one organism to another, or the extent to which the chemical basis of life is unified. The picture today is dramatically different. We have an almost bewildering variety of information detailing many different aspects of life at the molecular level. These great advances have brought with them some breath-taking insights into the molecular mechanisms used by nature for rep licating, distributing and modifying biological information. We have learned a great deal about the chemical and physical nature of the macromolecular nucleic acids and proteins, and the manner in which carbohydrates, lipids and smaller molecules work together to provide the molecular setting of living sys tems. It might be said that these few decades have replaced a near vacuum of information with a very large surplus. It is in the context of this flood of information that this series of monographs on molecular biology has been organized. The idea is to bring together in one place, between the covers of one book, a concise assessment of the state of the subject in a well-defined field. This will enable the reader to get a sense of historical perspective-what is known about the field today-and a description of the frontiers of research where our knowledge is increasing steadily.
Book Synopsis Molecular Biology of DNA Methylation by : Roger Lionel Poulter Adams
Download or read book Molecular Biology of DNA Methylation written by Roger Lionel Poulter Adams and published by . This book was released on 1985 with total page 247 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis DNA Methylation by : Jean Pierre Jost
Download or read book DNA Methylation written by Jean Pierre Jost and published by Birkhauser. This book was released on 1992 with total page 572 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis DNA Methylation, Biochemistry, and Biological Significance by : Aharon Razin
Download or read book DNA Methylation, Biochemistry, and Biological Significance written by Aharon Razin and published by . This book was released on 1984 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis DNA Methylation: Development, Genetic Disease and Cancer by : Walter Doerfler
Download or read book DNA Methylation: Development, Genetic Disease and Cancer written by Walter Doerfler and published by Springer. This book was released on 2010-11-16 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: It has become apparent that the genomes of many organisms are characterized by unique patterns of DNA methylation which can differ from genome segment to genome segment and cell type to cell type. These patterns can be instrumental in determining cell type and function. Thus, it is not surprising that studies on the role of DNA methylation now occupy center stage in many fields of biology and medicine such as developmental biology, genetic imprinting, genetic disease, tumor biology, gene therapy, cloning of organisms and others. Once again, basic research in molecular biology has provided the essential foundation for investigations of biomedical problems.
Download or read book DNA Methylation written by Manel Esteller and published by CRC Press. This book was released on 2004-09-29 with total page 240 pages. Available in PDF, EPUB and Kindle. Book excerpt: DNA Methylation: Approaches, Methods and Applications describes the relation DNA methylation has to gene silencing in disease, and explores its promising role in treating cancer. Written by leaders in the field, this exceptional compilation of articles outlines the best techniques to use when addressing questions concerning the cytosine methylation
Book Synopsis DNA Methylation and Cellular Differentiation by : James H. Taylor
Download or read book DNA Methylation and Cellular Differentiation written by James H. Taylor and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 146 pages. Available in PDF, EPUB and Kindle. Book excerpt: In 1977 I wrote a grant proposal in which I applied to study developmental patterns in enzymatic methylation of DNA in eukaryotes. One part of the proposal was to assay cells at different embryonic developmental stages for maintenance and de novo type methylase activity. With one exception the referees, probably developmental biologists, recommended that the work not be supported because there was no evidence that methylation plays any role in eukaryotic gene regulation. Aside from proving that innovative ideas can seldom be used to successfully compete for grant funds, the skepticism of biologists toward methylation as a regulatory mechanism was, and still is, widespread even among some of those who investigate the problem. That is a healthy situation for all points of view should be brought to bear on a problem of such importance. However, to deny funds to investigate a problem because one has already formed an opinion without evidence is hardly commendable. The great skepticism about the significance of DNA methylation is based in part on the evidence that it is absent or very little used in Drosophila, a favorite organism for genetic and developmental studies. There now remains little doubt that methylation of cytosine in certain CpG sites can strikingly affect the transcription of sequences 3' to the methylated doublet. How this inhibition operates and to what extent it is utilized in cells is still debatable.
Book Synopsis DNA Methylation and Complex Human Disease by : Michel Neidhart
Download or read book DNA Methylation and Complex Human Disease written by Michel Neidhart and published by Academic Press. This book was released on 2015-08-11 with total page 552 pages. Available in PDF, EPUB and Kindle. Book excerpt: DNA Methylation and Complex Human Disease reviews the possibilities of methyl-group-based epigenetic biomarkers of major diseases, tailored epigenetic therapies, and the future uses of high-throughput methylome technologies. This volume includes many pertinent advances in disease-bearing research, including obesity, type II diabetes, schizophrenia, and autoimmunity. DNA methylation is also discussed as a plasma and serum test for non-invasive screening, diagnostic and prognostic tests, as compared to biopsy-driven gene expression analysis, factors which have led to the use of DNA methylation as a potential tool for determining cancer risk, and diagnosis between benign and malignant disease. Therapies are at the heart of this volume and the possibilities of DNA demethylation. In cancer, unlike genetic mutations, DNA methylation and histone modifications are reversible and thus have shown great potential in the race for effective treatments. In addition, the authors present the importance of high-throughput methylome analysis, not only in cancer, but also in non-neoplastic diseases such as rheumatoid arthritis. Discusses breaking biomarker research in major disease families of current health concern and research interest, including obesity, type II diabetes, schizophrenia, and autoimmunity Summarizes advances not only relevant to cancer, but also in non-neoplastic disease, currently an emerging field Describes wholly new concepts, including the linking of metabolic pathways with epigenetics Provides translational researchers with the knowledge of both basic research and clinic applications of DNA methylation in human diseases
Book Synopsis Modifications of Nuclear DNA and Its Regulatory Proteins by : Xiaodong Cheng
Download or read book Modifications of Nuclear DNA and Its Regulatory Proteins written by Xiaodong Cheng and published by Academic Press. This book was released on 2011-04-27 with total page 516 pages. Available in PDF, EPUB and Kindle. Book excerpt: DNA methylation is essential for the normal development and functioning of organisms. This volume discusses the latest developments in this very active field of research. It presents the evolution of DNA methylation, mammalian DNA methyltransferases, DNA methylation and demethlyation, DNA methylation and silencing and the role it plays in medicine including cancer. Discusses new discoveries, approaches, and ideas Contributions from leading scholars and industry experts Reference guide for researchers involved in molecular biology and related fields
Book Synopsis DNA Methylation Protocols by : Jörg Tost
Download or read book DNA Methylation Protocols written by Jörg Tost and published by Humana Press. This book was released on 2018-08-30 with total page 704 pages. Available in PDF, EPUB and Kindle. Book excerpt: This third edition volume expands on the previous editions by providing a comprehensive update on the available technologies required to successfully perform DNA methylation analysis. The different technologies discussed in this book analyze the global DNA methylation contents, comprehensive analyses using various NGS based methods for genome-wide DNA methylation analysis, along with precise quantification of DNA methylation levels on single CpG positions. The chapters in this book are divided into 7 parts: an introduction to the field along with tips on study design and data analysis; global DNA methylation levels; genome-wide DNA methylation analysis; highly multiplexed target regions; locus-specific DNA methylation analysis; DNA methylation analysis of specific biological samples; and hydroxymethylation. 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, DNA Methylation Protocols, Third Edition is a valuable resource for postdoctoral investigators and research scientists who work with different aspects of genetics, and cellular and molecular biology, as well as clinicians who are involved in diagnostics or treatment of diseases with epigenetic components.
Book Synopsis DNA Methylation Protocols by : Jörg Tost
Download or read book DNA Methylation Protocols written by Jörg Tost and published by . This book was released on 2018 with total page 704 pages. Available in PDF, EPUB and Kindle. Book excerpt: Of the biological processes, disease-associated changes, and clinical applications of DNA methylation / Gitte Brinch Andersen and Jorg Tost -- Considerations for design and analysis of DNA methylation studies / Karin B. Michels and Alexandra M. Binder -- Quantification of global DNA methylation levels by mass spectrometry / Agustin F. Fernandez, Luis Valledor, Fernando Vallejo, Maria Jesus Canal, and Mario F. Fraga -- Antibody-based detection of global nuclear DNA methylation in cells, tissue sections, and mammalian embryos / Nathalie Beaujean, Juliette Salvaing, Nur Annies Abd Hadi, and Sari Pennings -- Whole-genome bisulfite sequencing using the Ovation® ultralow methyl-seq protocol / Christian Daviaud, Victor Renault, Florence Mauger, Jean-Francois Deleuze, and Jorg Tost -- Tagmentation-based library preparation for low DNA input whole genome bisulfite sequencing / Dieter Weichenhan, Qi Wang, Andrew Adey, Stephan Wolf, Jay Shendure, Roland Eils, and Christoph Plass -- Post-bisulfite adaptor tagging for PCR-free whole-genome bisulfite sequencing / Fumihito Miura and Takashi Ito -- Multiplexed reduced representation bisulfite sequencing with magnetic bead fragment size selection / William P. Accomando Jr. and Karin B. Michels -- Low input whole-genome bisulfite sequencing using a post-bisulfite adapter tagging approach / Julian R. Peat and Sebastien A. Smallwood -- Methyl-CpG-binding domain sequencing : MBD-seq / Karolina A. Aberg, Robin F. Chan, Linying Xie, Andrey A. Shabalin, and Edwin J.C.G. van den Oord -- HELP-based DNA methylation assays / John M. Greally -- Comprehensive whole DNA methylome analysis by integrating MeDIP-seq and MRE-seq / Xiaoyun Xing, Bo Zhang, Daofeng Li, and Ting Wang -- Digital restriction enzyme analysis of methylation (DREAM) / Jaroslav Jelinek, Justin T. Lee, Matteo Cesaroni, Jozef Madzo, Shoudan Liang, Yue Lu, and Jean-Pierre J. Issa -- Nucleosome occupancy and methylome sequencing (NOMe-seq) / Fides D. Lay, Theresa K. Kelly, and Peter A. Jones -- Bisulphite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq) / Clare Stirzaker, Jenny Z. Song, Aaron L. Statham, and Susan J. Clark -- Guide to illumina beadChip data analysis / Michael C. Wu and Pei-Fen Kuan -- Microdroplet PCR for highly multiplexed targeted bisulfite sequencing / H. Kiyomi Komori, Sarah A. LaMere, Traver Hart, Steven R. Head, Ali Torkamani, and Daniel R. Salomon -- Multiplexed DNA methylation analysis of target regions using microfluidics (fluidigm) / Martyna Adamowicz, Klio Maratou, and Timothy J. Aitman -- Large-scale targeted DNA methylation analysis using bisulfite padlock probes / Dinh Diep, Nongluk Plongthongkum, and Kun Zhang -- Targeted bisulfite sequencing using the seqCap epi enrichment system / Jennifer Wendt, Heidi Rosenbaum, Todd A. Richmond, Jeffrey A. Jeddeloh, and Daniel L. Burgess -- Multiplexed and sensitive DNA methylation testing using methylation-sensitive restriction enzymes "MSRE-qPCR" / Gabriel Beikircher, Walter Pulverer, Manuela Hofner, Christa Noehammer, and Andreas Weinhaeusel -- Quantitative DNA methylation analysis at single-nucleotide resolution by pyrosequencing / Florence Busato, Emelyne Dejeux, Hafida El abdalaoui, Ivo Glynne Gut, and Jorg Tost -- Methylation-specific PCR / Joao Ramalho-Carvalho, Rui Henrique, and Carmen Jeronimo -- Quantitation of DNA methylation by quantitative multiplex methylation-specific PCR (QM-MSP) assay / Mary Jo Fackler and Saraswati Sukumar -- Methylight and digital methyLight / Mihaela Campan, Daniel J. Weisenberger, Binh Trinh, and Peter W. Laird -- Quantitative region-specific DNA methylation analysis by the EpiTYPER technology / Sonja Kunze -- Methylation-specific multiplex ligation-dependent probe amplification (MS-MLPA) / Cathy B. Moelans, Lilit Atanesyan, Suvi P. Savola, and Paul J. van Diest -- Methylation-sensitive high resolution melting (MS-HRM) / Dianna Hussmann and Lise Lotte Hansen -- Hairpin bisulfite sequencing : synchronous methylation analysis on complementary DNA strands of individual chromosomes / Pascal Giehr and Jorn Walter -- Helper-dependent chain reaction (HDCR) for selective amplification of methylated DNA sequences / Susan M. Mitchell, Keith N. Rand, Zheng-Zhou Xu, Thu Ho, Glenn S. Brown, Jason P. Ross, and Peter L. Molloy -- DNA methylation analysis from blood spots : increasing yield and quality for genome-wide and locus-specific methylation analysis / Akram Ghantous, Hector Hernandez-Vargas, and Zdenko Herceg -- DNA methylation analysis of free-circulating DNA in body fluids / Maria Jung, Glen Kristiansen, and Dimo Dietrich -- Tet-assisted bisulfite sequencing (TAB-seq) / Miao Yu, Dali Han, Gary C. Hon, and Chuan He -- Multiplexing for oxidative bisulfite sequencing (oxBS-seq) / Kristina Kirschner, Felix Krueger, Anthony R. Green, and Tamir Chandra -- Affinity-based enrichment techniques for the genome-wide analysis of 5-hydroxymethylcytosine / John P. Thomson and Richard R. Meehan.
Book Synopsis DNA Methylation: Development, Genetic Disease and Cancer by : Walter Doerfler
Download or read book DNA Methylation: Development, Genetic Disease and Cancer written by Walter Doerfler and published by Springer Science & Business Media. This book was released on 2006-09-02 with total page 291 pages. Available in PDF, EPUB and Kindle. Book excerpt: It has become apparent that the genomes of many organisms are characterized by unique patterns of DNA methylation which can differ from genome segment to genome segment and cell type to cell type. These patterns can be instrumental in determining cell type and function. Thus, it is not surprising that studies on the role of DNA methylation now occupy center stage in many fields of biology and medicine such as developmental biology, genetic imprinting, genetic disease, tumor biology, gene therapy, cloning of organisms and others. Once again, basic research in molecular biology has provided the essential foundation for investigations of biomedical problems.
Book Synopsis Molecular Biology of The Cell by : Bruce Alberts
Download or read book Molecular Biology of The Cell written by Bruce Alberts and published by . This book was released on 2002 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis DNA Methylation by : Tatiana Tatarinova
Download or read book DNA Methylation written by Tatiana Tatarinova and published by BoD – Books on Demand. This book was released on 2012-03-16 with total page 404 pages. Available in PDF, EPUB and Kindle. Book excerpt: Epigenetics is one of the most exciting and rapidly developing areas of modern genetics with applications in many disciplines from medicine to agriculture. The most common form of epigenetic modification is DNA methylation, which plays a key role in fundamental developmental processes such as embryogenesis and also in the response of organisms to a wide range of environmental stimuli. Indeed, epigenetics is increasing regarded as one of the major mechanisms used by animals and plants to modulate their genome and its expression to adapt to a wide range of environmental factors. This book brings together a group of experts at the cutting edge of research into DNA methylation and highlights recent advances in methodology and knowledge of underlying mechanisms of this most important of genetic processes. The reader will gain an understanding of the impact, significance and recent advances within the field of epigenetics with a focus on DNA methylation.
Book Synopsis Dynamic regulation of DNA methylation in human T-cell biology by : Antonio Lentini
Download or read book Dynamic regulation of DNA methylation in human T-cell biology written by Antonio Lentini and published by Linköping University Electronic Press. This book was released on 2019-03-19 with total page 65 pages. Available in PDF, EPUB and Kindle. Book excerpt: T helper cells play a central role in orchestrating immune responses in humans. Upon encountering a foreign antigen, T helper cells are activated followed by a differentiation process where the cells are specialised to help combating the infection. Dysregulation of T helper cell activation, differentiation and function has been implicated in numerous diseases, including autoimmunity and cancer. Whereas gene-regulatory networks help drive T-cell differentiation, acquisition of stable cell states require heritable epigenetic signals, such as DNA methylation. Indeed, the establishment of DNA methylation patterns is a key part of appropriate T-cell differentiation but how this is regulated over time remains unknown. Methylation can be directly attached to cytosine residues in DNA to form 5-methylcytosine (5mC) but the removal of DNA methylation requires multiple enzymatic reactions, commonly initiated by the conversion into 5-hydroxymethylcytosine (5hmC), thus creating a highly complex regulatory system. This thesis aimed to investigate how DNA methylation is dynamically regulated during T-cell differentiation. To this end, we employed large-scale profiling techniques combining gene expression as well as genome-wide 5mC and 5hmC measurements to construct a time-series model of epigenetic regulation of differentiation. This revealed that early T-cell activation was accompanied by extensive genome-wide deposition of 5hmC which resulted in demethylation upon proliferation. Early DNA methylation remodelling through 5hmC was not only indicative of demethylation events during T-cell differentiation but also marked changes persisting longterm in memory T-cell subsets. These results suggest that priming of epigenetic landscapes in T-cells is initiated during early activation events, preceding any establishment of a stable lineage, which are then maintained throughout the cells lifespan. The regions undergoing remodelling were also highly enriched for genetic variants in autoimmune diseases which we show to be functional through disruption of protein binding. These variants could potentially disrupt gene-regulatory networks and the establishment of epigenetic priming, highlighting the complex interplay between genetic and epigenetic layers. In the course of this work, we discovered that a commonly used technique to study genome-wide DNA modifications, DNA immunoprecipitation (DIP)-seq, had a false discovery rate between 50-99% depending on the modification and cell type being assayed. This represented inherent technical errors related to the use of antibodies resulting in off-target binding of repetitive sequences lacking any DNA modifications. These sequences are common in mammalian genomes making robust detection of rare DNA modifications very difficult due to the high background signals. However, offtarget binding could easily be controlled for using a non-specific antibody control which greatly improved data quality and biological insight of the data. Although future studies are advised to use alternative methods where available, error correction is an acceptable alternative which will help fuel new discoveries through the removal of extensive background signals. Taken together, this thesis shows how integrative use of high-resolution epigenomic data can be used to study complex biological systems over time as well as how these techniques can be systematically characterised to identify and correct errors resulting in improved detection.
