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Computational Epitranscriptomics Bioinformatic Approaches For The Analysis Of Rna Modifications
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Book Synopsis Computational Epitranscriptomics: Bioinformatic Approaches for the Analysis of RNA Modifications by : Mattia Pelizzola
Download or read book Computational Epitranscriptomics: Bioinformatic Approaches for the Analysis of RNA Modifications written by Mattia Pelizzola and published by Frontiers Media SA. This book was released on 2021-02-02 with total page 155 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Computational Epigenomics and Epitranscriptomics by : Pedro H. Oliveira
Download or read book Computational Epigenomics and Epitranscriptomics written by Pedro H. Oliveira and published by Springer Nature. This book was released on 2023-02-01 with total page 267 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume details state-of-the-art computational methods designed to manage, analyze, and generally leverage epigenomic and epitranscriptomic data. Chapters guide readers through fine-mapping and quantification of modifications, visual analytics, imputation methods, supervised analysis, and integrative approaches for single-cell 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 thorough, Computational Epigenomics and Epitranscriptomics aims to provide an overview of epiomic protocols, making it easier for researchers to extract impactful biological insight from their data.
Download or read book RNA Modifications written by Mary McMahon and published by . This book was released on 2021 with total page 427 pages. Available in PDF, EPUB and Kindle. Book excerpt: This detailed book describes some of the most recent advances and up-to-date methodologies to detect, quantify, analyze, and elucidate the biological function of different types of RNA modifications. Importantly, the methodologies and tools described herein can be applied to a wide variety of organisms and can be used to address biological and clinical questions. Beginning with a section on bioinformatics tools, the collection continues with sections on detecting RNA modifications using Nanopore direct RNA sequencing, next-generation sequencing approaches, qPCR- and molecular biology-based methods, mass spectrometry- and NMR-based methods, as well as approaches to assess kinetics, determinants, and functions of RNA modifications. Written for the highly successful Methods in Molecular Biology series style, chapters include introduction 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, RNA Modifications: Methods and Protocols serves as an ideal guide for those working directly in the fields of epitranscriptomics and post-transcriptional gene regulation, as well as for scientists and clinicians interested in bioinformatic tools to study RNA modifications and techniques to dissect their roles in physiology and disease. Chapter 20 is available open access under a CC BY 4.0 license.
Book Synopsis Epitranscriptomics: The Novel RNA Frontier by : Giovanni Nigita
Download or read book Epitranscriptomics: The Novel RNA Frontier written by Giovanni Nigita and published by Frontiers Media SA. This book was released on 2019-01-31 with total page 127 pages. Available in PDF, EPUB and Kindle. Book excerpt: Following the formulation of the central dogma of molecular biology and the later discovery of classes of non-coding RNAs, the primary focus of Genetics was essentially on variation of DNA aiming at elucidating biological pathways perturbed in diseases. Recently, extensive attention has shifted towards the study of posttranscriptional RNA modifications occurring in both protein-coding as well as non-coding RNAs, revealing a novel and finer layer of complexity in gene regulation. This, in turn, has led to the birth of the novel field of ‘Epitranscriptomics’. The recent increase of applications of high-throughput sequencing technology (HTS) has allowed the unprecedented opportunity to identify on a transcriptome-wide scale, millions of RNA modifications in human genes, counting today more than 140 distinct types such as: methylation (e.g. m6A, m1A, m5C, hm5C, 2’OMe) methylation (e.g. m6A, m1A, m5C, hm5C, 2’OMe), pseudourylation (?), deamination (e.g. A-to-I RNA editing). The scope of this Research Topic was to collect both reviews and research articles addressing the wet lab approaches and bioinformatics methodologies necessary to aid in the identification of novel RNA modifications and characterization of their biological functions. Among the articles embracing the aim of the Research Topic, we have collected four original research and methods articles, five reviews, and a technology article.
Book Synopsis Epitranscriptomics by : Stefan Jurga
Download or read book Epitranscriptomics written by Stefan Jurga and published by Springer Nature. This book was released on 2021-07-28 with total page 632 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book reviews a novel and exciting field of cellular and molecular biology called epitranscriptomics, which focuses on changes in an organism’s cells resulting from the posttranscriptional modification of cellular RNA. RNA-binding proteins (RBPs) play a crucial role in these posttranscriptional modifications and also support several cellular processes necessary for maintaining RNA homeostasis. Exploring the mechanisms underlying RNA modifications and RBP function is an emerging area of biomedical research, taking the study of gene regulation a step beyond epigenetics. This book reveals that the RNA molecule is not just an information-carrying molecule with some secondary structures. Accordingly, how RNA is modified, regulated, packaged, and controlled is an important aspect. Leading experts address questions such as where the over 170 distinct posttranscriptional RNA modifications are located on the genome, what percentage of mRNAs and noncoding RNAs these modifications include, and how an RNA modification impacts a person’s biology. In closing, the book reviews the role of RNA modifications and RBPs in a variety of diseases and their pathogenesis. Addressing some of the most exciting challenges in epitranscriptomics, this book provides a valuable and engaging resource for researchers in academia and industry studying the phenomena of RNA modification.
Book Synopsis RNA-seq Data Analysis by : Eija Korpelainen
Download or read book RNA-seq Data Analysis written by Eija Korpelainen and published by CRC Press. This book was released on 2014-09-19 with total page 322 pages. Available in PDF, EPUB and Kindle. Book excerpt: The State of the Art in Transcriptome AnalysisRNA sequencing (RNA-seq) data offers unprecedented information about the transcriptome, but harnessing this information with bioinformatics tools is typically a bottleneck. RNA-seq Data Analysis: A Practical Approach enables researchers to examine differential expression at gene, exon, and transcript le
Book Synopsis RNA Bioinformatics by : Ernesto Picardi
Download or read book RNA Bioinformatics written by Ernesto Picardi and published by Humana. This book was released on 2016-09-24 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume provides an overview of RNA bioinformatics methodologies, including basic strategies to predict secondary and tertiary structures, and novel algorithms based on massive RNA sequencing. Interest in RNA bioinformatics has rapidly increased thanks to the recent high-throughput sequencing technologies allowing scientists to investigate complete transcriptomes at single nucleotide resolution. Adopting advanced computational technics, scientists are now able to conduct more in-depth studies and present them to you in this book. Written in the highly successful Methods of Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and equipment, step-by-step, readily reproducible bioinformatics protocols, and key tips to avoid known pitfalls. Authoritative and practical, RNA Bioinformatics seeks to aid scientists in the further study of bioinformatics and computational biology of RNA.
Book Synopsis Epitranscriptomics by : Narendra Wajapeyee
Download or read book Epitranscriptomics written by Narendra Wajapeyee and published by Humana. This book was released on 2018-12-12 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume provides readers with the latest technologies to study changes in the epitranscriptome. The protocols described in this book explore both targeted and unbiased high-throughput analysis associated with post-transcriptional RNA modification. The chapters in this book also cover specific topics such as transcriptome-wide detection of 5-methylcytosine; HAMR; iRNA-2OM; genome-wide annotation of circRNAs; immune-northern blotting; and detection and quantification of pseudouridine in RNA. 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 comprehensive, Epitranscriptomics: Methods and Protocols is an important resource for both expert and novice scientists who are interested in learning more about this field.
Book Synopsis DNA and RNA Modification Enzymes by : Henri Grosjean
Download or read book DNA and RNA Modification Enzymes written by Henri Grosjean and published by CRC Press. This book was released on 2009-06-11 with total page 682 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume is a timely and comprehensive description of the many facets of DNA and RNA modification-editing processes and to some extent repair mechanisms. Each chapter offers fundamental principles as well as up to date information on recent advances in the field (up to end 2008). They ended by a shortconclusion and future prospect' section and
Book Synopsis Encyclopedia of Bioinformatics and Computational Biology by :
Download or read book Encyclopedia of Bioinformatics and Computational Biology written by and published by Elsevier. This book was released on 2018-08-21 with total page 3421 pages. Available in PDF, EPUB and Kindle. Book excerpt: Encyclopedia of Bioinformatics and Computational Biology: ABC of Bioinformatics, Three Volume Set combines elements of computer science, information technology, mathematics, statistics and biotechnology, providing the methodology and in silico solutions to mine biological data and processes. The book covers Theory, Topics and Applications, with a special focus on Integrative –omics and Systems Biology. The theoretical, methodological underpinnings of BCB, including phylogeny are covered, as are more current areas of focus, such as translational bioinformatics, cheminformatics, and environmental informatics. Finally, Applications provide guidance for commonly asked questions. This major reference work spans basic and cutting-edge methodologies authored by leaders in the field, providing an invaluable resource for students, scientists, professionals in research institutes, and a broad swath of researchers in biotechnology and the biomedical and pharmaceutical industries. Brings together information from computer science, information technology, mathematics, statistics and biotechnology Written and reviewed by leading experts in the field, providing a unique and authoritative resource Focuses on the main theoretical and methodological concepts before expanding on specific topics and applications Includes interactive images, multimedia tools and crosslinking to further resources and databases
Book Synopsis Normal and Malignant Hematopoiesis by : Enrico Mihich
Download or read book Normal and Malignant Hematopoiesis written by Enrico Mihich and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 251 pages. Available in PDF, EPUB and Kindle. Book excerpt: ''An exciting glance at key issues in contemporary hematopoiesis.'' -The Quarterly Review of Biology
Book Synopsis RNA-Seq Analysis: Methods, Applications and Challenges by : Filippo Geraci
Download or read book RNA-Seq Analysis: Methods, Applications and Challenges written by Filippo Geraci and published by Frontiers Media SA. This book was released on 2020-06-08 with total page 169 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis RNA Methylation by : Alexandra Lusser
Download or read book RNA Methylation written by Alexandra Lusser and published by Humana Press. This book was released on 2017-03-28 with total page 304 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume provides a comprehensive collection of current methods and protocols to study posttranscriptional base modifications in RNA with special focus on methylation. The protocols in this book discuss state-of-the-art methods for investigating aspects of RNA methylation on different types of RNA. The protocols cover topics such as wet-lab techniques for the detection of methylation, instructions for bioinformatics analyses of transcriptome-scale data, and protocols for the functional examination of RNA modifications and enzymes. 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, RNA Methylation: Methods and Protocols is a valuable resource for biochemists and molecular biologists, from various fields, who wish to investigate different types of RNA methylations.
Book Synopsis RNA-RNA Interactions by : Frank J. Schmidt
Download or read book RNA-RNA Interactions written by Frank J. Schmidt and published by Humana Press. This book was released on 2014-10-29 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: In this volume expert researchers in the field detail many of the methods which are now commonly used to study RNA. These methods are presented as a guidebook to scientists who are experienced with RNA research and want to brush up on a new technique. 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 key tips on troubleshooting and avoiding known pitfalls. Thorough and intuitive, RNA-RNA Interactions: Methods and Protocols guides scientists investigating biological systems and studying RNA.
Book Synopsis Unsupervised Feature Extraction Applied to Bioinformatics by : Y-h. Taguchi
Download or read book Unsupervised Feature Extraction Applied to Bioinformatics written by Y-h. Taguchi and published by Springer Nature. This book was released on 2019-08-23 with total page 321 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book proposes applications of tensor decomposition to unsupervised feature extraction and feature selection. The author posits that although supervised methods including deep learning have become popular, unsupervised methods have their own advantages. He argues that this is the case because unsupervised methods are easy to learn since tensor decomposition is a conventional linear methodology. This book starts from very basic linear algebra and reaches the cutting edge methodologies applied to difficult situations when there are many features (variables) while only small number of samples are available. The author includes advanced descriptions about tensor decomposition including Tucker decomposition using high order singular value decomposition as well as higher order orthogonal iteration, and train tenor decomposition. The author concludes by showing unsupervised methods and their application to a wide range of topics. Allows readers to analyze data sets with small samples and many features; Provides a fast algorithm, based upon linear algebra, to analyze big data; Includes several applications to multi-view data analyses, with a focus on bioinformatics.
Book Synopsis Fine-Tuning of RNA Functions by Modification and Editing by : Henri Grosjean
Download or read book Fine-Tuning of RNA Functions by Modification and Editing written by Henri Grosjean and published by Springer. This book was released on 2005-05-11 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Naturally occurring RNA always contains numerous biochemically altered nucleotides. They are formed by enzymatic modification of the primary transcripts during the complex RNA maturation process designated RNA modification. A large number of enzymes catalyzing the formation of these modified nucleosides or converting one canonical base into another at the posttranscriptional level have been studied for many years, but only recently have systematic and comparative studies begun. The functions of individual enzymes and/or the modified/edited nucleosides in RNA, however, have remained largely ignored. This book provides advance information on RNA modification, including the associated editing machinery, while offering the reader some perspective on the significance of such modifications in fine-tuning the structure and functions of mature RNA molecules and hence the ability to influence the efficiency and accuracy of genetic expression. Outstanding scientists who are actively working on RNA modification/editing processes have provided up-to-date information on these intriguing cellular processes that have been generated over the course of millions of years in all living organisms. Each review has been written and illustrated for a large audience of readers, not only specialists in the field, but also for advanced students or researchers who want to learn more about recent progress in RNA modification and editing.
Book Synopsis Computational Resources for Understanding Biomacromolecular Covalent Modifications by : Dong Xu
Download or read book Computational Resources for Understanding Biomacromolecular Covalent Modifications written by Dong Xu and published by Frontiers Media SA. This book was released on 2021-09-14 with total page 110 pages. Available in PDF, EPUB and Kindle. Book excerpt:
