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Chemical Biology Of The Genome

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Chemical Biology of the Genome

Chemical Biology of the Genome Book
Author : Siddhartha Roy,Tapas K. Kundu
Publisher : Academic Press
Release : 2021-05-14
ISBN : 0128176458
Language : En, Es, Fr & De

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Book Description :

Chemical Biology of the Genome provides a comprehensive overview of essential concepts and principles of genomic and epigenomics dynamics as explored through the lens of chemical biology. Key examples and case studies illustrate chemical biology methods for study and analysis of the genome and epigenome, with an emphasis on relevance to physiological and pathophysiological processes and drug discovery. Authors and international leaders in biochemical studies of the genome, Drs. Siddhartha Roy and Tapas Kundu, adopt an integrated, interdisciplinary approach throughout, demonstrating how fast evolving chemical and mass-scale sequencing tools are increasingly used to interpret biochemical processes of the genome. Later sections discuss chemical modifications of the genome, DNA sequence recognition by proteins and gene regulation, GWAS and EpiGWAS studies, 3D architecture of the genome, and functional genome architecture. In-depth, discovery focused chapters examine intervention in gene networks using SiRNA/ShRNA, miRNA, and anti-miR, small molecule modulation of iPS, drug resistance pathways altered DNA methylation as drug targets, anti-miR as therapeutics, and nanodelivery of drugs. Offers an interdisciplinary discussion of the chemical biology of the genome and epigenome, employing illustrative case studies in both physiological and pathophysiological contexts Supports researchers in employing chemical and mass-scale sequencing approaches to interpret genomic and epigenomic dynamics Highlights innovative pathways and molecular targets for new disease study and drug discovery

Chemical Biology of the Genome

Chemical Biology of the Genome Book
Author : Siddhartha Roy,Tapas K. Kundu
Publisher : Elsevier
Release : 2021-05-19
ISBN : 012817644X
Language : En, Es, Fr & De

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Book Description :

Chemical Biology of the Genome provides a comprehensive overview of essential concepts and principles of genomic and epigenomics dynamics as explored through the lens of chemical biology. Key examples and case studies illustrate chemical biology methods for study and analysis of the genome and epigenome, with an emphasis on relevance to physiological and pathophysiological processes and drug discovery. Authors and international leaders in biochemical studies of the genome, Drs. Siddhartha Roy and Tapas Kundu, adopt an integrated, interdisciplinary approach throughout, demonstrating how fast evolving chemical and mass-scale sequencing tools are increasingly used to interpret biochemical processes of the genome. Later sections discuss chemical modifications of the genome, DNA sequence recognition by proteins and gene regulation, GWAS and EpiGWAS studies, 3D architecture of the genome, and functional genome architecture. In-depth, discovery focused chapters examine intervention in gene networks using SiRNA/ShRNA, miRNA, and anti-miR, small molecule modulation of iPS, drug resistance pathways altered DNA methylation as drug targets, anti-miR as therapeutics, and nanodelivery of drugs. Offers an interdisciplinary discussion of the chemical biology of the genome and epigenome, employing illustrative case studies in both physiological and pathophysiological contexts Supports researchers in employing chemical and mass-scale sequencing approaches to interpret genomic and epigenomic dynamics Highlights innovative pathways and molecular targets for new disease study and drug discovery

The Chemical Biology of Long Noncoding RNAs

The Chemical Biology of Long Noncoding RNAs Book
Author : Stefan Jurga,Jan Barciszewski
Publisher : Springer Nature
Release : 2020-10-01
ISBN : 303044743X
Language : En, Es, Fr & De

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Book Description :

This book offers a comprehensive and detailed overview of various aspects of long non-coding RNAs. It discusses their emerging significance in molecular medicine, ranging from human cancers to cardiovascular and metabolic diseases. Transcriptomic studies have demonstrated that the majority of genomes found in complex organisms are expressed in highly dynamic and cell-specific patterns, producing huge numbers of intergenic, antisense and intronic long non-protein-coding RNAs (lncRNAs). Thousands of lncRNAs have been identified, and unlike mRNA, they have no protein-coding capacity. A large repertoire of ncRNAs, actively transcribed from the mammalian genome, control diverse cellular processes, both in terms of development and diseases, through a variety of gene regulatory mechanisms. IncRNAs have emerged as a new paradigm in epigenetic regulation of the genome. Given its scope, the book will be of particular interest to molecular, chemical, cell and developmental biologists, as well as specialists in translational medicine involved in disease-oriented research. It also offers a valuable resource for in silico experts seeking a deeper understanding of lncRNA expression and function through computational analysis of the NGS data.

Advancing Development of Synthetic Gene Regulators

Advancing Development of Synthetic Gene Regulators Book
Author : Anandhakumar Chandran
Publisher : Springer
Release : 2019-01-26
ISBN : 9789811348990
Language : En, Es, Fr & De

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Book Description :

This book focuses on an “outside the box” notion by utilizing the powerful applications of next-generation sequencing (NGS) technologies in the interface of chemistry and biology. In personalized medicine, developing small molecules targeting a specific genomic sequence is an attractive goal. N-methylpyrrole (P)–N-methylimidazole (I) polyamides (PIPs) are a class of small molecule that can bind to the DNA minor groove. First, a cost-effective NGS (ion torrent platform)-based Bind-n-Seq was developed to identify the binding specificity of PIP conjugates in a randomized DNA library. Their biological influences rely primarily on selective DNA binding affinity, so it is important to analyze their genome-wide binding preferences. However, it is demanding to enrich specifically the small-molecule-bound DNA without chemical cross-linking or covalent binding in chromatinized genomes. Herein is described a method that was developed using high-throughput sequencing to map the differential binding sites and relative enriched regions of non-cross-linked SAHA-PIPs throughout the complex human genome. SAHA-PIPs binding motifs were identified and the genome-level mapping of SAHA-PIPs-enriched regions provided evidence for the differential activation of the gene network. A method using high-throughput sequencing to map the binding sites and relative enriched regions of alkylating PIP throughout the human genome was also developed. The genome-level mapping of alkylating the PIP-enriched region and the binding sites on the human genome identifies significant genomic targets of breast cancer. It is anticipated that this pioneering low-cost, high through-put investigation at the sequence-specific level will be helpful in understanding the binding specificity of various DNA-binding small molecules, which in turn will be beneficial for the development of small-molecule-based drugs targeting a genome-level sequence.

Chemical Biology of Natural Products

Chemical Biology of Natural Products Book
Author : David J. Newman,Gordon M. Cragg,Paul Grothaus
Publisher : CRC Press
Release : 2017-09-22
ISBN : 1351643282
Language : En, Es, Fr & De

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Book Description :

Chemical Biology of Natural Products This unique, long-awaited volume is designed to address contemporary aspects of natural product chemistry and its influence on biological systems, not solely on human interactions. The subjects covered include discovery, isolation and characterization, biosynthesis, biosynthetic engineering, pharmaceutical, and other applications of these compounds. Each chapter begins with a brief and simple introduction to the subject matter, and then proceeds to guide the reader towards the more contemporary, cutting-edge research in the field, with the contributing authors presenting current examples from their own work in order to exemplify key themes. Topics covered in the text include genome mining, heterologous expression, natural product synthesis, biosynthesis, glycosylation, chemical ecology, and therapeutic applications of natural products, both current and potential.

Molecular Biology of the Cell

Molecular Biology of the Cell Book
Author : Bruce Alberts
Publisher : Unknown
Release : 2004
ISBN : 9780815332183
Language : En, Es, Fr & De

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Book Description :

Download Molecular Biology of the Cell book written by Bruce Alberts, available in PDF, EPUB, and Kindle, or read full book online anywhere and anytime. Compatible with any devices.

CRISPR

CRISPR Book
Author : Erik J. Sontheimer,Luciano A. Marraffini,Rodolphe Barrangou
Publisher : John Wiley & Sons
Release : 2022-09-19
ISBN : 1683673611
Language : En, Es, Fr & De

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Book Description :

CRISPR CRISPR: BIOLOGY AND APPLICATIONS “An excellent compendium of all things CRISPR from some of the leading minds in the field. With thorough coverage from every angle and beautifully detailed illustrations, this book is not to be missed!” Jennifer A. Doudna, Professor of Chemistry, Biochemistry & Molecular Biology, UC Berkeley; Founder, Innovative Genomics Institute; Nobel Laureate and coinventor of CRISPR technology “This journey through CRISPR biology and several of its breakthrough applications offers an exciting glimpse into one of the most beautiful and compelling fields in the life sciences.” David R. Liu, Director of the Merkin Institute at the Broad Institute of MIT and Harvard; Professor of Chemistry and Chemical Biology at Harvard University; coinventor of base editing and prime editing “A must read! The CRISPR topics, written by world-leading experts, span from the fascinating mechanistic underpinnings to the ingenious applications. One can read from start to finish or pick and choose themes. Either way, the book delivers utterly enjoyable learning!” Bonnie Bassler, Squibb Professor and Chair, Princeton University Department of Molecular Biology; Howard Hughes Medical Institute Investigator CRISPR-Cas systems have revolutionized the science of gene editing and their possible applications continue to expand, from basic research to potentially groundbreaking medical and commercial uses. Led by a distinguished team of editors, CRISPR: Biology and Applications explores the subject matter needed to delve into this fascinating area. Topics covered include: Classification and molecular mechanisms of CRISPR-Cas systems CRISPR-Cas evolution, regulation, expression, and function Uses for gene editing and modulation of gene expression CRISPR-based antimicrobials and phage resistance for medical and industrial purposes Written by internationally renowned authors, CRISPR: Biology and Applications serves as both an introductory guide for those new to the field and an authoritative reference for seasoned researchers whose work touches this evolving and headline- making science.

Synthetic Biology

Synthetic Biology Book
Author : Fouad Sabry
Publisher : One Billion Knowledgeable
Release : 2022-10-05
ISBN : 0987650XXX
Language : En, Es, Fr & De

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Book Description :

What Is Synthetic Biology The interdisciplinary field of study known as synthetic biology (SynBio) aims to either develop new biological components, gadgets, and systems or to redesign systems that are already present in nature. How You Will Benefit (I) Insights, and validations about the following topics: Chapter 1: Synthetic biology Chapter 2: Genetic engineering Chapter 3: Genetic code Chapter 4: Genome Chapter 5: Genomics Chapter 6: Xenobiology Chapter 7: Recombinant DNA Chapter 8: Chemical biology Chapter 9: Gene Chapter 10: Recombineering Chapter 11: Synthetic genomics Chapter 12: Artificial gene synthesis Chapter 13: Christopher Voigt Chapter 14: Expanded genetic code Chapter 15: Organism Chapter 16: Synthetic biological circuit Chapter 17: Genome editing Chapter 18: History of genetic engineering Chapter 19: Genetic engineering techniques Chapter 20: Minimal genome Chapter 21: CRISPR gene editing (II) Answering the public top questions about synthetic biology. (III) Real world examples for the usage of synthetic biology in many fields. (IV) 17 appendices to explain, briefly, 266 emerging technologies in each industry to have 360-degree full understanding of synthetic biology' technologies. Who This Book Is For Professionals, undergraduate and graduate students, enthusiasts, hobbyists, and those who want to go beyond basic knowledge or information for any kind of synthetic biology.

Advanced Chemical Biology

Advanced Chemical Biology Book
Author : Howard C. Hang,Matthew R. Pratt,Jennifer A. Prescher
Publisher : Wiley-VCH
Release : 2023-02-28
ISBN : 9783527347339
Language : En, Es, Fr & De

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Book Description :

The modern approach to teaching chemical biology Advanced Chemical Biology is organized around the central dogma of life, progressing from genes to proteins and higher-order cellular structures, including core application areas such as imaging, chemical genetics, activity-based protein profiling, and natural product discovery and biosynthesis. Advanced topics and applications in, e. g., microbiology, developmental biology, and neurobiology, are covered in separate sections. Every chapter is homogeneous in style and layout, consisting of a short historical introduction followed by a description of the underlying concepts and a selection of recent examples of how the concept has been turned into practice. The subdivision of the contents into core and supplemental chapters enables a flexible use in teaching, both for a one-semester and a two-semester course. Written by authors and editors coming from the leading scientific institutions that have developed the concepts and technologies for this discipline, Advanced Chemical Biology includes specific information on topics like: DNA function, synthesis and engineering, chemical approaches to genome integrity, and RNA function, synthesis, and probing Chemical approaches to transcription and RNA regulation in vivo, chemical biology of genome engineering, and peptide/protein synthesis and engineering Directed evolution for chemical biology, chemical biology of cellular metabolism, chemical biology of lipids, and protein post-translational modifications Chemical glycobiology, chemical and enzymatic modification of proteins, genetic code expansion, bio-orthogonal chemistry, and cellular imaging With its broad scope and focus on turning concepts into applications, Advanced Chemical Biology is an excellent starting point for anyone entering the field and looking for a guide to the wide range of available methods and strategies that chemical biology has to offer.

Chemical and Functional Genomic Approaches to Stem Cell Biology and Regenerative Medicine

Chemical and Functional Genomic Approaches to Stem Cell Biology and Regenerative Medicine Book
Author : Sheng Ding
Publisher : John Wiley & Sons
Release : 2008-02-08
ISBN : 0470199121
Language : En, Es, Fr & De

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Book Description :

Scientists believe that stem cells have the potential to revolutionize the treatment of numerous diseases and conditions. This guide covers recent advances in technologies and their applications in stem cell biology, addressing the use of both embryonic and adult stem cells and discussing diverse technologies, including genome-wide expression analysis, informatics, chemical genomics, and more. Applications covered encompass self-renewal, differentiation, reprogramming, and regeneration in model organisms. This is a premier reference for practicing professionals involved in stem cell research and students.

Chemogenomics and Chemical Genetics

Chemogenomics and Chemical Genetics Book
Author : ERIC MARECHAL,Sylvaine Roy,Laurence Lafanechère
Publisher : Springer
Release : 2011-06-17
ISBN : 9783642196140
Language : En, Es, Fr & De

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Book Description :

Biological and chemical sciences have undergone an unprecedented transformation, reflected by the huge use of parallel and automated technologies in key fields such as genome sequencing, DNA chips, nanoscale functional biology or combinatorial chemistry. It is now possible to generate and store from tens of thousands to millions of new small molecules, based on enhanced chemical synthesis strategies. Automated screening of small molecules is one of the technologies that has revolutionized biology, first developed for the pharmaceutical industry and recently introduced in academic laboratories. High-throughput and high-content screening allow the identification of bioactive compounds in collections of molecules (chemical libraries), being effective on biological targets defined at various organisational scales, from proteins to cells to complete organisms. These bioactive molecules can be therapeutic drug candidates, molecules for biotech, diagnostic or agronomic applications, or tools for basic research. Handling a large number of biological (genomic and post-genomic), chemical and experimental information, screening approaches cannot be envisaged without any electronic storage and mathematical treatment of the data. “Chemogenomics and Chemical Genetics” is an introductory manual presenting methods and concepts making up the basis for this recent discipline. This book is dedicated to biologists, chemists and computer scientist beginners. It is organized in brief, illustrated chapters with practical examples. Clear definitions of biological, chemical and IT concepts are given in a glossary section to help readers who are not familiar with one of these disciplines. "Chemogenomics and Chemical Genetics" should therefore be helpful for students (from Bachelor's degree level), technological platform engineers, and researchers in biology, chemistry, bioinformatics, cheminformatics, both in biotech and academic laboratories.

High Throughput Screening Methods

High Throughput Screening Methods Book
Author : Joshua A. Bittker,Nathan T. Ross
Publisher : Royal Society of Chemistry
Release : 2016-12-08
ISBN : 1782624716
Language : En, Es, Fr & De

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Book Description :

High throughput screening remains a key part of early stage drug and tool compound discovery, and methods and technologies have seen many fundamental improvements and innovations over the past 20 years. This comprehensive book provides a historical survey of the field up to the current state-of-the-art. In addition to the specific methods, this book also considers cultural and organizational questions that represent opportunities for future success. Following thought-provoking foreword and introduction from Professor Stuart Schreiber and the editors, chapters from leading experts across academia and industry cover initial considerations for screening, methods appropriate for different goals in small molecule discovery, newer technologies that provide alternative approaches to traditional miniaturization procedures, and practical aspects such as cost and resourcing. Within the context of their historical development, authors explain common pitfalls and their solutions. This book will serve as both a practical reference and a thoughtful guide to the philosophy underlying technological change in such a fast-moving area for postgraduates and researchers in academia and industry, particularly in the areas of chemical biology, pharmacology, structural biology and assay development.

Chemical Genomics

Chemical Genomics Book
Author : Haian Fu
Publisher : Cambridge University Press
Release : 2012-02-13
ISBN : 0521889480
Language : En, Es, Fr & De

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Book Description :

This text covers new techniques and applications in chemical genomics for researchers, professionals and graduates in biology, biomedicine and chemistry.

Chemical Biology

Chemical Biology Book
Author : Marco F. Schmidt
Publisher : Springer Nature
Release : 2022
ISBN : 3662644126
Language : En, Es, Fr & De

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Book Description :

The focus of this textbook is on application, rather than pure knowledge transfer of the results of all chemical biological work (which would also be beyond the scope of a book). It gives the reader, through the specific selection of chemical-biological techniques and concepts, the necessary tools to be able to develop new ways of thinking and thus new therapeutic options in the complex field of chemical biology and drug development. The stated aim of this book is to provide concrete solutions and inspiration to students, (post)graduate students, and experienced scientists at universities as well as in industry in their problems. After an introduction to the problems addressed by chemical biology in drug discovery, the three levels of molecular biology dogma: DNA, RNA and proteins and their role as drug targets serve as the common thread of this book. This book is a translation of the original German 1st edition Chemische Biologie by Marco F. Schmidt, published by Springer-Verlag GmbH Germany, part of Springer Nature in 2020. The translation was done with the help of artificial intelligence (machine translation by the service DeepL.com). A subsequent human revision was done primarily in terms of content, so that the book will read stylistically differently from a conventional translation. Springer Nature works continuously to further the development of tools for the production of books and on the related technologies to support the authors. Marco F. Schmidt is co-founder and Chief Scientific Officer of biotx.ai Inc. which develops Artificial Intelligence for biomedical data analysis. Together with his team, he researches how machine learning can be used to identify drug targets and predict the clinical effect of drug candidates. He studied biochemistry at the FU Berlin and in Tübingen, received his PhD in chemical biology at the FMP Berlin and worked on new drug concepts at the University of Cambridge.

Introduction to Bioorganic Chemistry and Chemical Biology

Introduction to Bioorganic Chemistry and Chemical Biology Book
Author : David Van Vranken,Gregory A. Weiss
Publisher : Garland Science
Release : 2018-10-08
ISBN : 1135054827
Language : En, Es, Fr & De

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Book Description :

Introduction to Bioorganic Chemistry and Chemical Biology is the first textbook to blend modern tools of organic chemistry with concepts of biology, physiology, and medicine. With a focus on human cell biology and a problems-driven approach, the text explains the combinatorial architecture of biooligomers (genes, DNA, RNA, proteins, glycans, lipids, and terpenes) as the molecular engine for life. Accentuated by rich illustrations and mechanistic arrow pushing, organic chemistry is used to illuminate the central dogma of molecular biology. Introduction to Bioorganic Chemistry and Chemical Biology is appropriate for advanced undergraduate and graduate students in chemistry and molecular biology, as well as those going into medicine and pharmaceutical science.

Molecular Biology

Molecular Biology Book
Author : Nancy Craig,Rachel Green,Carol Greider,Orna Cohen-Fix,Gisela Storz,Cynthia Wolberger
Publisher : Oxford University Press
Release : 2014-05
ISBN : 0199658579
Language : En, Es, Fr & De

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Book Description :

'Molecular Biology' offers a fresh, distinctive approach to the study of molecular biology. With its focus on key principles, its emphasis on the commonalities that exist between the three kingdoms of life, and its integrated approach throughout, it is the perfect companion to any molecular biology course.

Biodefense in the Age of Synthetic Biology

Biodefense in the Age of Synthetic Biology Book
Author : National Academies of Sciences, Engineering, and Medicine,Division on Earth and Life Studies,Board on Life Sciences,Board on Chemical Sciences and Technology,Committee on Strategies for Identifying and Addressing Potential Biodefense Vulnerabilities Posed by Synthetic Biology
Publisher : National Academies Press
Release : 2019-01-05
ISBN : 0309465184
Language : En, Es, Fr & De

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Book Description :

Scientific advances over the past several decades have accelerated the ability to engineer existing organisms and to potentially create novel ones not found in nature. Synthetic biology, which collectively refers to concepts, approaches, and tools that enable the modification or creation of biological organisms, is being pursued overwhelmingly for beneficial purposes ranging from reducing the burden of disease to improving agricultural yields to remediating pollution. Although the contributions synthetic biology can make in these and other areas hold great promise, it is also possible to imagine malicious uses that could threaten U.S. citizens and military personnel. Making informed decisions about how to address such concerns requires a realistic assessment of the capabilities that could be misused. Biodefense in the Age of Synthetic Biology explores and envisions potential misuses of synthetic biology. This report develops a framework to guide an assessment of the security concerns related to advances in synthetic biology, assesses the levels of concern warranted for such advances, and identifies options that could help mitigate those concerns.

Mass Spectrometry in Chemical Biology

Mass Spectrometry in Chemical Biology Book
Author : Norberto Peporine Lopes,Ricardo Roberto da Silva
Publisher : Royal Society of Chemistry
Release : 2017-11-22
ISBN : 1782625275
Language : En, Es, Fr & De

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Book Description :

Mass spectrometry is one of the most widespread technologies in chemistry and has been increasingly used in biology with the rise of omics sciences. This book summarizes some important methodological approaches in mass spectrometry and applications in the field of chemical biology. The core chapters build on basic concepts introduced in the opening chapter and explore established fields such as high throughput screening, proteomics and metabolomics. Emerging applications of mass spectrometry in elucidating biosynthetic pathways, enzyme mechanisms and protein-protein interactions are then presented. Connections between these diverse research fields are highlighted throughout. The book concludes with a discussion of databases and future perspectives. This book will be a useful tool to early chemical biology researchers wishing to incorporate mass spectrometry as a tool in their research.

Applied Bioinformatics

Applied Bioinformatics Book
Author : Paul Maria Selzer,Richard Marhöfer,Andreas Rohwer
Publisher : Springer Science & Business Media
Release : 2008-01-18
ISBN : 3540728007
Language : En, Es, Fr & De

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Book Description :

At last, here is a baseline book for anyone who is confused by cryptic computer programs, algorithms and formulae, but wants to learn about applied bioinformatics. Now, anyone who can operate a PC, standard software and the internet can also learn to understand the biological basis of bioinformatics, of the existence as well as the source and availability of bioinformatics software, and how to apply these tools and interpret results with confidence. This process is aided by chapters that introduce important aspects of bioinformatics, detailed bioinformatics exercises (including solutions), and to cap it all, a glossary of definitions and terminology relating to bioinformatics.

Diagnostic Molecular Biology

Diagnostic Molecular Biology Book
Author : Chang-Hui Shen
Publisher : Academic Press
Release : 2019-04-02
ISBN : 012802867X
Language : En, Es, Fr & De

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Book Description :

Diagnostic Molecular Biology describes the fundamentals of molecular biology in a clear, concise manner to aid in the comprehension of this complex subject. Each technique described in this book is explained within its conceptual framework to enhance understanding. The targeted approach covers the principles of molecular biology including the basic knowledge of nucleic acids, proteins, and genomes as well as the basic techniques and instrumentations that are often used in the field of molecular biology with detailed procedures and explanations. This book also covers the applications of the principles and techniques currently employed in the clinical laboratory. • Provides an understanding of which techniques are used in diagnosis at the molecular level • Explains the basic principles of molecular biology and their application in the clinical diagnosis of diseases • Places protocols in context with practical applications