Chemical Biology Of The Genome

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Chemical Biology of the Genome

Siddhartha Roy,Tapas K. Kundu
Chemical Biology of the Genome Book PDF

Author : Siddhartha Roy,Tapas K. Kundu
Publisher : Academic Press
Page : 352 pages
File Size : 49,9 Mb
Release : 2021-05-14
Category : Science
ISBN : 9780128176450

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Chemical Biology of the Genome by Siddhartha Roy,Tapas K. Kundu Pdf

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 Genomics

Haian Fu
Chemical Genomics Book PDF

Author : Haian Fu
Publisher : Cambridge University Press
Page : 359 pages
File Size : 41,6 Mb
Release : 2012-02-13
Category : Science
ISBN : 9781107377585

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Chemical Genomics by Haian Fu Pdf

Advances in chemistry, biology and genomics coupled with laboratory automation and computational technologies have led to the rapid emergence of the multidisciplinary field of chemical genomics. This edited text, with contributions from experts in the field, discusses the new techniques and applications that help further the study of chemical genomics. The beginning chapters provide an overview of the basic principles of chemical biology and chemical genomics. This is followed by a technical section that describes the sources of small-molecule chemicals; the basics of high-throughput screening technologies; and various bioassays for biochemical-, cellular- and organism-based screens. The final chapters connect the chemical genomics field with personalized medicine and the druggable genome for future discovery of new therapeutics. This book will be valuable to researchers, professionals and graduate students in many fields, including biology, biomedicine and chemistry.

Advancing Development of Synthetic Gene Regulators

Anandhakumar Chandran
Advancing Development of Synthetic Gene Regulators Book PDF

Author : Anandhakumar Chandran
Publisher : Springer
Page : 114 pages
File Size : 53,9 Mb
Release : 2017-09-19
Category : Science
ISBN : 9789811065477

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Advancing Development of Synthetic Gene Regulators by Anandhakumar Chandran Pdf

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.

Advanced Chemical Biology

Howard C. Hang,Matthew R. Pratt,Jennifer A. Prescher
Advanced Chemical Biology Book PDF

Author : Howard C. Hang,Matthew R. Pratt,Jennifer A. Prescher
Publisher : John Wiley & Sons
Page : 806 pages
File Size : 55,6 Mb
Release : 2023-04-03
Category : Science
ISBN : 9783527347339

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Advanced Chemical Biology by Howard C. Hang,Matthew R. Pratt,Jennifer A. Prescher Pdf

Advanced Chemical Biology 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. With a Foreword by Nobel Laureate Carolyn Bertozzi.

The Chemical Biology of Long Noncoding RNAs

Stefan Jurga,Jan Barciszewski
The Chemical Biology of Long Noncoding RNAs Book PDF

Author : Stefan Jurga,Jan Barciszewski
Publisher : Springer Nature
Page : 545 pages
File Size : 51,5 Mb
Release : 2020-10-01
Category : Medical
ISBN : 9783030447434

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The Chemical Biology of Long Noncoding RNAs by Stefan Jurga,Jan Barciszewski Pdf

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.

Chemical Biology of Natural Products

David J. Newman,Gordon M. Cragg,Paul Grothaus
Chemical Biology of Natural Products Book PDF

Author : David J. Newman,Gordon M. Cragg,Paul Grothaus
Publisher : CRC Press
Page : 622 pages
File Size : 46,7 Mb
Release : 2017-09-22
Category : Medical
ISBN : 9781351643283

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Chemical Biology of Natural Products by David J. Newman,Gordon M. Cragg,Paul Grothaus Pdf

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.

Chemical Genomics

Stefan Jaroch,Hilmar Weinmann
Chemical Genomics Book PDF

Author : Stefan Jaroch,Hilmar Weinmann
Publisher : Springer Science & Business Media
Page : 187 pages
File Size : 40,7 Mb
Release : 2007-05-26
Category : Science
ISBN : 9783540376354

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Chemical Genomics by Stefan Jaroch,Hilmar Weinmann Pdf

Chemical genomics is a highly interdisciplinary and very exciting field of research both in academics and in the life sciences industry. The Ernst Schering Research Foundation Workshop 58 was organized to bring together scientific leaders in the field to discuss the implications of chemical genomics for drug discovery. Various aspects of the interface between chemistry and biology are covered in this volume, such as chemogenomics efforts in the pharmaceutical industry, diversity-oriented synthesis, chemogenomic approaches to the study of cell function, screening technologies, and natural products as tools in chemical biology.

Chemogenomics and Chemical Genetics

ERIC MARECHAL,Sylvaine Roy,Laurence Lafanechère
Chemogenomics and Chemical Genetics Book PDF

Author : ERIC MARECHAL,Sylvaine Roy,Laurence Lafanechère
Publisher : Springer Science & Business Media
Page : 258 pages
File Size : 51,6 Mb
Release : 2011-06-21
Category : Science
ISBN : 9783642196157

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Chemogenomics and Chemical Genetics by ERIC MARECHAL,Sylvaine Roy,Laurence Lafanechère Pdf

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.

Chemical Biology of Nucleic Acids

Volker A. Erdmann,Wojciech T. Markiewicz,Jan Barciszewski
Chemical Biology of Nucleic Acids Book PDF

Author : Volker A. Erdmann,Wojciech T. Markiewicz,Jan Barciszewski
Publisher : Springer Science & Business
Page : 599 pages
File Size : 47,8 Mb
Release : 2014-04-22
Category : Science
ISBN : 9783642544521

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Chemical Biology of Nucleic Acids by Volker A. Erdmann,Wojciech T. Markiewicz,Jan Barciszewski Pdf

This volume contains 29 engrossing chapters contributed by worldwide, leading research groups in the field of chemical biology. Topics include pre-biology; the establishment of the genetic code; isomerization of RNA; damage of nucleobases in RNA; the dynamic structure of nucleic acids and their analogs in DNA replication, extra- and intra-cellular transport; molecular crowding by the use of ionic liquids; new technologies enabling the modification of gene expression via editing of therapeutic genes; the use of riboswitches; the modification of mRNA cap regions; new approaches to detect appropriately modified RNAs with EPR spectroscopy and the use of parallel and high-throughput techniques for the analysis of the structure and new functions of nucleic acids. This volume discusses how chemistry can add new frontiers to the field of nucleic acids in molecular medicine, biotechnology and nanotechnology and is not only an invaluable source of information to chemists, biochemists and life scientists but will also stimulate future research.

Plant Chemical Genomics

Glenn R. Hicks,Chunhua Zhang
Plant Chemical Genomics Book PDF

Author : Glenn R. Hicks,Chunhua Zhang
Publisher : Humana
Page : 196 pages
File Size : 43,9 Mb
Release : 2020-12-04
Category : Science
ISBN : 107160953X

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Plant Chemical Genomics by Glenn R. Hicks,Chunhua Zhang Pdf

This second edition volume is a companion volume to the previous edition and looks at new findings on novel bioactive chemicals and cognate targets, as well as the use of synthetic small molecules and a variety of tools to understand these processes. Chapters in this book cover topics such as screening plants for novel bioactive chemicals including lipid signaling and photo receptors; small molecule screens to include peptide ligands to generate new variations; using new chemicals to affect and dissect hormone signaling; and the application of easier microscale methods to simplify target identification and validation. 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 practical, Plant Chemical Genomics: Methods and Protocols, Second Edition is a valuable resource that provides a foundation of techniques for novice and expert researchers in the plant chemical biology community.

High Throughput Screening Methods

Joshua A. Bittker,Nathan T. Ross
High Throughput Screening Methods Book PDF

Author : Joshua A. Bittker,Nathan T. Ross
Publisher : Royal Society of Chemistry
Page : 416 pages
File Size : 54,8 Mb
Release : 2016-12-08
Category : Medical
ISBN : 9781782624714

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High Throughput Screening Methods by Joshua A. Bittker,Nathan T. Ross Pdf

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

Edward D. Zanders
Chemical Genomics Book PDF

Author : Edward D. Zanders
Publisher : Springer Science & Business Media
Page : 280 pages
File Size : 52,7 Mb
Release : 2008-02-04
Category : Science
ISBN : 9781592599486

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Chemical Genomics by Edward D. Zanders Pdf

Chemical genomics is an exciting new field that aims to transform biolo- cal chemistry into a high-throughput industrialized process, much in the same way that molecular biology has been transformed by genomics. The inter- tion of small organic molecules with biological systems (mostly proteins) underpins drug discovery in the pharmaceutical and biotechnology industries, and therefore a volume of laboratory protocols that covers the key aspects of chemical genomics would be of use to biologists and chemists in these orga- zations. Academic scientists have been exploring the functions of proteins using small molecules as probes for many years and therefore would also b- efit from sharing ideas and laboratory procedures. Whatever the organizational backgrounds of the scientists involved, the challenges of extracting the ma- mum human benefit from genome sequencing projects remains considerable, and one where it is increasingly recognized that chemical genomics will play an important part. Chemical Genomics: Reviews and Protocols is divided into two sections, the first being a series of reviews to describe what chemical genomics is about and to set the scene for the protocol chapters. The subject is introduced by Paul Caron, who explains the various flavors of chemical genomics. This is f- lowed by Lutz Weber and Philip Dean who cover the interaction between organic molecules and protein targets from the different perspectives of la- ratory experimentation and in silico design. The protocols begin with the me- ods developed in Christopher Lowes’ laboratory (Roque et al.

Nucleic Acids in Chemistry and Biology

G Michael Blackburn,Martin Egli,Michael J Gait,Jonathan K Watts
Nucleic Acids in Chemistry and Biology Book PDF

Author : G Michael Blackburn,Martin Egli,Michael J Gait,Jonathan K Watts
Publisher : Royal Society of Chemistry
Page : 774 pages
File Size : 43,9 Mb
Release : 2022-06-24
Category : Science
ISBN : 9781839163241

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Nucleic Acids in Chemistry and Biology by G Michael Blackburn,Martin Egli,Michael J Gait,Jonathan K Watts Pdf

The structure, function and reactions of nucleic acids are central to molecular biology and medicine and are crucial for understanding of the ever-expanding range of complex biological processes involved which are central to life. Revised, extended, updated and lavishly illustrated, this 4th Edition of Nucleic Acids in Chemistry and Biology is a long-awaited standard text for teaching and research in nucleic acids science. It maintains the close integration of chemistry and biology that characterised the earlier editions and contains a major expansion largely focused on the burgeoning growth of RNA science. Written by an international team of leading experts, all with extensive teaching experience, this 4th Edition provides up-to-date and extended coverage of the reactions and interactions of RNA and DNA with proteins and drugs. A brief history of the discovery of nucleic acids is followed by a molecule-based introduction to the structure and biological roles of DNA and RNA and the basics of Genes and Genomes. New key chapters are devoted to non-coding RNA, nucleic acids sequencing, nucleic acid therapeutics, in vitro evolution and aptamers, and protein-RNA interactions. The text is linked to an extensive list of references to make it a definitive reference source. This authoritative volume presents topics in an integrated manner and readable style with full colour illustrations throughout. It is ideal for graduate and undergraduate students of chemistry and biochemistry, biophysics and biotechnology, and molecular biology and medicine. It will be a guidebook for new researchers to the field of nucleic acids science.

Chemical Synthetic Biology

Pier Luigi Luisi,Cristiano Chiarabelli
Chemical Synthetic Biology Book PDF

Author : Pier Luigi Luisi,Cristiano Chiarabelli
Publisher : John Wiley & Sons
Page : 269 pages
File Size : 46,9 Mb
Release : 2011-02-10
Category : Science
ISBN : 9781119990307

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Chemical Synthetic Biology by Pier Luigi Luisi,Cristiano Chiarabelli Pdf

Chemistry plays a very important role in the emerging field of synthetic biology. In particular, chemical synthetic biology is concerned with the synthesis of chemical structures, such as proteins, that do not exist in nature. With contributions from leading international experts, Chemical Synthetic Biology shows how chemistry underpins synthetic biology. The book is an essential guide to this fascinating new field, and will find a place on the bookshelves of researchers and students working in synthetic chemistry, synthetic and molecular biology, bioengineering, systems biology, computational genomics, and bioinformatics.

Nucleic Acids in Medicinal Chemistry and Chemical Biology

Lihe Zhang,Xinjing Tang,Zhen Xi,Jyoti Chattopadhyaya
Nucleic Acids in Medicinal Chemistry and Chemical Biology Book PDF

Author : Lihe Zhang,Xinjing Tang,Zhen Xi,Jyoti Chattopadhyaya
Publisher : John Wiley & Sons
Page : 564 pages
File Size : 40,7 Mb
Release : 2023-01-05
Category : Science
ISBN : 9781119692744

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Nucleic Acids in Medicinal Chemistry and Chemical Biology by Lihe Zhang,Xinjing Tang,Zhen Xi,Jyoti Chattopadhyaya Pdf

Nucleic Acids in Medicinal Chemistry and Chemical Biology An up-to-date and comprehensive exploration of nucleic acid medicinal chemistry and its applications In Nucleic Acids in Medicinal Chemistry and Chemical Biology: Drug Development and Clinical Applications, a team of distinguished researchers delivers a comprehensive overview of the chemistry and biology of nucleic acids and their therapeutic applications. The book emphasizes the latest research in the field, including new technologies like CRISPR that create novel possibilities to edit mutated genes at the genomic DNA level and to treat inherited diseases and cancers. The authors explore the application of modified nucleosides and nucleotides in medicinal chemistry, a variety of current topics on nucleic acid chemistry and biology, nucleic acid drugs used to treat disease, and more. They also probe new domains of pharmaceutical research, offering the reader a wealth of new drug discovery opportunities emerging in this dynamic field. Readers will also find: A thorough introduction to the basic terminology and knowledge of the field of nucleic acid medicinal chemistry Comprehensive explorations of the methods used to determine the development of nucleic acid drugs Practical discussions of new technologies, like CRISPR, nanotechnology-based delivery systems, synthetic biology, and DNA-encoded chemical libraries In-depth examinations of the latest, cutting-edge developments in nucleic acid medicinal chemistry Perfect for medicinal and nucleic acid chemists, Nucleic Acids in Medicinal Chemistry and Chemical Biology will also earn a place in the libraries of biochemists, chemical biologists, and pharmaceutical researchers.