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The Evolving Chromatin And Transcriptional Landscapes Emerging Methods Tools And Techniques
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Book Synopsis The Evolving Chromatin and Transcriptional Landscapes – Emerging Methods, Tools and Techniques by : Jean-Philippe Lambert
Download or read book The Evolving Chromatin and Transcriptional Landscapes – Emerging Methods, Tools and Techniques written by Jean-Philippe Lambert and published by Frontiers Media SA. This book was released on 2022-01-03 with total page 157 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Evolution of Nucleosome Positioning and Gene Regulation in Yeasts by : Alex Tsankov
Download or read book Evolution of Nucleosome Positioning and Gene Regulation in Yeasts written by Alex Tsankov and published by . This book was released on 2010 with total page 111 pages. Available in PDF, EPUB and Kindle. Book excerpt: Chromatin organization plays a major role in gene regulation and can affect the function and evolution of new transcriptional programs. Here, we present the first multi-species comparative genomic analysis of the relationship between chromatin organization and gene expression by measuring mRNA abundance and nucleosome positions genome-wide in 13 Ascomycota yeast species. Our work introduces a host of new computational tools for studying chromatin structure, function, and evolution. We improved on existing methods for detecting nucleosome positions and developed a new approach for identifying nucleosome-free regions (NFRs) and characterizing chromatin organization at gene promoters. We used a general statistical approach for studying the evolution of chromatin and gene regulation at a functional level. We also introduced a new technique for discovering the DNA binding motifs of transacting General Regulatory Factors (GRFs) and developed a new technique for quantifying the relative contribution of intrinsic sequence, GRFs, and transcription to establishing NFRs. And finally, we built a computational framework to quantify the evolutionary interplay between nucleosome positions, transcription factor binding sites, and gene expression. Through our analysis, we found large conservation of global and functional chromatin organization. Chromatin organization has also substantially diverged in both global quantitative features and in functional groups of genes. We find that global usage of intrinsic anti-nucleosomal sequences such as PolyA varies over this phylogeny, and uncover that PolyG tracts also intrinsically repel nucleosomes. The specific sequences bound by GRFs are also highly plastic; we experimentally validate an evolutionary handover from Cbfl in pre-WGD yeasts to Rebi in post-WGD yeast. We also identify five mechanisms that couple chromatin organization to evolution of gene regulation, including (i) compensatory evolution of alternative modifiers associated with conserved chromatin organization; (ii) a gradual transition from constitutive to transregulated NFRs; (iii) a loss of intrinsic anti-nucleosomal sequences accompanying changes in chromatin organization and gene expression, (iv) repositioning of motifs from NFRs to nucleosome-occluded regions; and (v) the expanded use of NFRs by paralogous activator-repressor pairs. Our multi-species dataset and general computational framework provide a foundation for future studies on how chromatin structure changes over time and in evolution.
Book Synopsis New Methods for Red Blood Cell Research and Diagnosis by : Richard Van Wijk
Download or read book New Methods for Red Blood Cell Research and Diagnosis written by Richard Van Wijk and published by Frontiers Media SA. This book was released on 2021-11-26 with total page 167 pages. Available in PDF, EPUB and Kindle. Book excerpt: Topic Editors Dr. Paola Bianchi and Dr. Richard Van Wijk provide consultancy to Agios Pharmaceuticals. Dr. Richard Van Wijk has research support from RR Mechatronics and Agios Pharmaceuticals.
Book Synopsis Innate lymphocytes in tumor surveillance by : Dagmar Stoiber
Download or read book Innate lymphocytes in tumor surveillance written by Dagmar Stoiber and published by Frontiers Media SA. This book was released on 2022-12-27 with total page 121 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Author :American Association for Cancer Research Publisher :Coe Truman International, LLC ISBN 13 :0463372727 Total Pages :3012 pages Book Rating :4.4/5 (633 download)
Book Synopsis AACR 2019 Proceedings: Abstracts 2749-5314 by : American Association for Cancer Research
Download or read book AACR 2019 Proceedings: Abstracts 2749-5314 written by American Association for Cancer Research and published by Coe Truman International, LLC. This book was released on 2019-03-08 with total page 3012 pages. Available in PDF, EPUB and Kindle. Book excerpt: American Association for Cancer Research 2019 Proceedings: Abstracts 2749-5314 - Part B
Book Synopsis Old Questions and Young Approaches to Animal Evolution by : José M. Martín-Durán
Download or read book Old Questions and Young Approaches to Animal Evolution written by José M. Martín-Durán and published by Springer. This book was released on 2019-07-22 with total page 284 pages. Available in PDF, EPUB and Kindle. Book excerpt: Animal evolution has always been at the core of Biology, but even today many fundamental questions remain open. The field of animal ‘evo-devo’ is leveraging recent technical and conceptual advances in development, paleontology, genomics and transcriptomics to propose radically different answers to traditional evolutionary controversies. This book is divided into four parts, each of which approaches animal evolution from a different perspective. The first part (chapters 2 and 3) investigates how new sources of evidence have changed conventional views of animal origins, while the second (chapters 4–8) addresses the connection between embryogenesis and evolution, and the genesis of cellular, tissue and morphological diversity. The third part (chapters 9 and 10) investigates how big data in molecular biology is transforming our understanding of the mechanisms governing morphological change in animals. In closing, the fourth part (chapters 11–13) explores new theoretical and conceptual approaches to animal evolution. ‘Old questions and young approaches to animal evolution’ offers a comprehensive and updated view of animal evolutionary biology that will serve both as a first step into this fascinating field for students and university educators, and as a review of complementary approaches for researchers.
Book Synopsis Endometrial Gene Expression by : Joanne Kwak-Kim
Download or read book Endometrial Gene Expression written by Joanne Kwak-Kim and published by Springer Nature. This book was released on 2019-11-08 with total page 220 pages. Available in PDF, EPUB and Kindle. Book excerpt: The endometrium goes through cyclical changes under the influence of hormones, and immune effectors in the endometrium change their populations cyclically as well. Dynamic changes in immune effectors determine endometrial cytokine and chemokine milieus and, consequently, the endometrial immune response. Endometrial immune responses have been shown to be important for trophoblast invasion and early pregnancy. Indeed, dysregulated endometrial inflammatory immune responses are associated with reproductive failures, such as recurrent pregnancy losses, repeated implantation failure, and gynecological diseases with oncogenic potential. Hence, the investigation of endometrial gene expression may predict infertility, gynecological and oncological conditions. This book presents the state of the art in endometrial gene expression as well as recent developmental findings relating to reproduction and reproductive disorders. It begins with a review of the genetic regulation of urogenital tract formation and molecular mechanism underlying the physiology of menstrual cycle before moving on to the current and emerging technological advances in molecular biology. Endometrial gene expressions of immune inflammatory conditions, viral infection, metabolic and nutritional conditions, and reproductive disorders are then presented in following chapters. Examples of the use and interpretation of gene expression in clinical scenarios including recurrent pregnancy losses, infertility and multiple implantation failures are presented with currently available endometrial gene analysis. Utilizing the latest evidence and clinical guidelines, Endometrial Gene Expression will be a cutting-edge resource for gynecologist, reproductive immunologist, reproductive endocrinologists, obstetrician, maternal fetal medicine specialist and other health care providers in the field of reproductive medicine.
Book Synopsis Applications and Methods in Genomic Networks by : Kimberly Glass
Download or read book Applications and Methods in Genomic Networks written by Kimberly Glass and published by Frontiers Media SA. This book was released on 2022-07-01 with total page 234 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Advances in Animal Genomics by : Sukanta Mondal
Download or read book Advances in Animal Genomics written by Sukanta Mondal and published by Academic Press. This book was released on 2020-11-25 with total page 340 pages. Available in PDF, EPUB and Kindle. Book excerpt: Advances in Animal Genomics provides an outstanding collection of integrated strategies involving traditional and modern - omics (structural, functional, comparative and epigenomics) approaches and genomics-assisted breeding methods which animal biotechnologists can utilize to dissect and decode the molecular and gene regulatory networks involved in the complex quantitative yield and stress tolerance traits in livestock. Written by international experts on animal genomics, this book explores the recent advances in high-throughput, next-generation whole genome and transcriptome sequencing, array-based genotyping, and modern bioinformatics approaches which have enabled to produce huge genomic and transcriptomic resources globally on a genome-wide scale. This book is an important resource for researchers, students, educators and professionals in agriculture, veterinary and biotechnology sciences that enables them to solve problems regarding sustainable development with the help of current innovative biotechnologies. Integrates basic and advanced concepts of animal biotechnology and presents future developments Describes current high-throughput next-generation whole genome and transcriptome sequencing, array-based genotyping, and modern bioinformatics approaches for sustainable livestock production Illustrates integrated strategies to dissect and decode the molecular and gene regulatory networks involved in complex quantitative yield and stress tolerance traits in livestock Ensures readers will gain a strong grasp of biotechnology for sustainable livestock production with its well-illustrated discussion
Book Synopsis Integrative Omics by : Manish Kumar Gupta
Download or read book Integrative Omics written by Manish Kumar Gupta and published by Elsevier. This book was released on 2024-05-10 with total page 434 pages. Available in PDF, EPUB and Kindle. Book excerpt: Integrative Omics: Concepts, Methodology and Applications provides a holistic and integrated view of defining and applying network approaches, integrative tools, and methods to solve problems for the rationalization of genotype to phenotype relationships. The reference includes a range of chapters in a systemic ‘step by step’ manner, which begins with the basic concepts from Omic to Multi Integrative Omics approaches, followed by their full range of approaches, applications, emerging trends, and future trends. All key areas of Omics are covered including biological databases, sequence alignment, pharmacogenomics, nutrigenomics and microbial omics, integrated omics for Food Science and Identification of genes associated with disease, clinical data integration and data warehousing, translational omics as well as omics technology policy and society research. Integrative Omics: Concepts, Methodology and Applications highlights the recent concepts, methodologies, advancements in technologies and is also well-suited for researchers from both academic and industry background, undergraduate and graduate students who are mainly working in the area of computational systems biology, integrative omics and translational science. The book bridges the gap between biological sciences, physical sciences, computer science, statistics, data science, information technology and mathematics by presenting content specifically dedicated to mathematical models of biological systems. Provides a holistic, integrated view of a defining and applying network approach, integrative tools, and methods to solve problems for rationalization of genotype to phenotype relationships Offers an interdisciplinary approach to Databases, data analytics techniques, biological tools, network construction, analysis, modeling, prediction and simulation of biological systems leading to ‘translational research’, i.e., drug discovery, drug target prediction, and precision medicine Covers worldwide methods, concepts, databases, and tools used in the construction of integrated pathways
Book Synopsis Innovations in Nephrology by : Geraldo Bezerra da Silva Junior
Download or read book Innovations in Nephrology written by Geraldo Bezerra da Silva Junior and published by Springer Nature. This book was released on 2022-10-28 with total page 538 pages. Available in PDF, EPUB and Kindle. Book excerpt: Our world is facing unprecedented technological development, which affects all the sectors of society. The 4th industrial revolution has brought numerous advances that are currently integrated in our daily life, including artificial intelligence (A.I.), internet of things (IoT), genetic engineering, 3D-printing and robotics. The health care sector is one of the most impacted by these technologies of the so-called digital era. From the simple advent of medical records to robotic surgery, health care has significantly changed from the XX to XXI century and is constantly changing, incorporating novel technologies. Nephrology is itself an innovative branch of medicine, created as a discipline in the 1960s, with breakthrough inventions, such as the dialysis machine, which made it possible to prolong life of those who suffer from chronic kidney disease; kidney transplant, with point-of-care immunosuppression that favours maintenance of kidney allografts for long years; kidney biopsy, which made it possible to discover the mysteries of glomerulonephritis and nephropathology. Novel technologies, such as A.I., IoT, robotics, stem cells, 3D-printing, mHealth, eHealth and several others are starting to be applied in nephrology, with promising results. It is possible that a great part of these technologies will become routinely available in clinical practice, and the burden of kidney diseases will significantly decrease once prevention, prediction, detection, monitoring and treatment of kidney diseases are more precise, with patients taking part in the process and becoming more and more connected. This book gathers essential information on the technologies that have been applied in nephrology and that can be applied in the future, with real possibilities of improving the care of kidney diseases. At first glance, this work is directed to the entire nephrology community and all the healthcare professionals that deal with kidney diseases. Researchers from different fields, not directly linked to nephrology, may also be interested in the book since many of the topics presented are related to other areas and serve as examples of their uses in medicine, such as artificial intelligence, robotics, and big data. Finally, the content provides an important resource to medical students, discussing technologies that will certainly be integrated in their professional practice.
Book Synopsis New Insights into the Complexity of Tumor Immunology in B-cell Malignancies: Disease Biology and Signaling by : Jérôme Paggetti
Download or read book New Insights into the Complexity of Tumor Immunology in B-cell Malignancies: Disease Biology and Signaling written by Jérôme Paggetti and published by Frontiers Media SA. This book was released on 2022-01-31 with total page 164 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Bioinformatics: Applications of Computational Biology in Life Sciences by : Michael Roberts
Download or read book Bioinformatics: Applications of Computational Biology in Life Sciences written by Michael Roberts and published by Richards Education. This book was released on with total page 159 pages. Available in PDF, EPUB and Kindle. Book excerpt: Embark on a journey into the fascinating realm of bioinformatics with 'Bioinformatics: Exploring Computational Biology in Life Sciences.' This comprehensive book delves into the applications of computational techniques in understanding biological systems, from sequence analysis and genome assembly to structural biology and systems biology. Whether you're a researcher, student, or industry professional, each chapter provides in-depth insights, methodologies, and real-world examples that highlight the transformative impact of bioinformatics on modern life sciences. Navigate the complexities of biological data analysis and discover how computational biology is shaping the future of healthcare, agriculture, and beyond.
Book Synopsis Hi-C Data Analysis by : Silvio Bicciato
Download or read book Hi-C Data Analysis written by Silvio Bicciato and published by Humana. This book was released on 2022-09-04 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume details a comprehensive set of methods and tools for Hi-C data processing, analysis, and interpretation. Chapters cover applications of Hi-C to address a variety of biological problems, with a specific focus on state-of-the-art computational procedures adopted for the data analysis. 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 cutting-edge, Hi-C Data Analysis: Methods and Protocols aims to help computational and molecular biologists working in the field of chromatin 3D architecture and transcription regulation.
Book Synopsis Insights in Computational Genomics: 2022 by : Richard D. Emes
Download or read book Insights in Computational Genomics: 2022 written by Richard D. Emes and published by Frontiers Media SA. This book was released on 2023-08-15 with total page 195 pages. Available in PDF, EPUB and Kindle. Book excerpt: This Research Topic is part of the Insights in Frontiers in Genetics series. Other titles in the series are: Genetics, Insights in Evolutionary and Population Genetics: 2022 Genetics, Insights in Livestock Genomics: 2022 Genetics, Insights in Epigenomics and Epigenetics: 2022 Genetics, Insights in Behavioral and Psychiatric Genetics: 2022 Genetics, Insights in Neurogenomics: 2022 Genetics, Insights in Genomic Assay Technology: 2022 Genetics, Insights in Genetics of Common and Rare Diseases: 2022 We are now entering the third decade of the 21st Century, and, especially in the last years, the achievements made by scientists have been exceptional, leading to major advancements in the fast-growing field of Genetics. Frontiers have organized a series of Research Topics to highlight the latest advancements in research across the field of Computational Genomics, with articles from the members of our accomplished Editorial Boards. This editorial initiative of particular relevance, led by Prof Richard Emes, Specialty Chief Editor of the Computational Genomics section, together with Dr. Pirooznia and Dr Zou, focused on new insights, novel developments, current challenges, latest discoveries, recent advances, and future perspectives in the field of Computational Genomics. The Research Topic solicits brief, forward-looking contributions from the editorial board members that describe the state of the art, outlining recent developments and major accomplishments that have been achieved and that need to occur to move the field forward. Authors are encouraged to identify the greatest challenges in the sub-disciplines, and how to address those challenges.
Book Synopsis Plant Gene Regulatory Networks by : Kerstin Kaufmann
Download or read book Plant Gene Regulatory Networks written by Kerstin Kaufmann and published by Springer Nature. This book was released on with total page 380 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Directed Enzyme Evolution by : Frances H. Arnold
Download or read book Directed Enzyme Evolution written by Frances H. Arnold and published by Springer Science & Business Media. This book was released on 2008-02-02 with total page 381 pages. Available in PDF, EPUB and Kindle. Book excerpt: Directed evolution comprises two distinct steps that are typically applied in an iterative fashion: (1) generating molecular diversity and (2) finding among the ensemble of mutant sequences those proteins that perform the desired fu- tion according to the specified criteria. In many ways, the second step is the most challenging. No matter how cleverly designed or diverse the starting library, without an effective screening strategy the ability to isolate useful clones is severely diminished. The best screens are (1) high throughput, to increase the likelihood that useful clones will be found; (2) sufficiently sen- tive (i. e. , good signal to noise) to allow the isolation of lower activity clones early in evolution; (3) sufficiently reproducible to allow one to find small improvements; (4) robust, which means that the signal afforded by active clones is not dependent on difficult-to-control environmental variables; and, most importantly, (5) sensitive to the desired function. Regarding this last point, almost anyone who has attempted a directed evolution experiment has learned firsthand the truth of the dictum “you get what you screen for. ” The protocols in Directed Enzyme Evolution describe a series of detailed p- cedures of proven utility for directed evolution purposes. The volume begins with several selection strategies for enzyme evolution and continues with assay methods that can be used to screen enzyme libraries. Genetic selections offer the advantage that functional proteins can be isolated from very large libraries s- ply by growing a population of cells under selective conditions.
