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Inference Of 3d Structure Of Diploid Chromosomes
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Book Synopsis Inference of 3D Structure of Diploid Chromosomes by : Lawrence J. Sun
Download or read book Inference of 3D Structure of Diploid Chromosomes written by Lawrence J. Sun and published by . This book was released on 2018 with total page 62 pages. Available in PDF, EPUB and Kindle. Book excerpt: The spatial organization of DNA in the cell nucleus plays an important role for gene regulation, DNA replication, and genomic integrity. Through the development of chromosome capture experiments (such as 3C, 4C, Hi-C) it is now possible to obtain the contact frequencies of the DNA at the whole-genome level. In this thesis, we study the problem of reconstructing the 3D organization of the genome from whole-genome contact frequencies. A standard approach is to transform the contact frequencies into noisy distance measurements and then apply semidefinite programming (SDP) formulations to obtain the 3D configurations. However, neglected in such reconstructions is the fact that most eukaryotes including humans are diploid and therefore contain two (from the available data) indistinguishable copies of each genomic locus. Due to this, the standard approach performs very poorly on diploid organisms. We prove that the 3D organization of the DNA is not identifiable from exclusively chromosome capture data for diploid organisms. In fact, there are infinitely many solutions even in the noise-free setting. We then discuss various additional biologically relevant constraints (including distances between neighboring genomic loci and to the nucleus center or higher-order interactions). Under these conditions we prove there are finitely many solutions and conjecture we in fact have identifiability. Finally, we provide SDP formulations for computing the 3D embedding of the DNA with these additional constraints and show that we can recover the true 3D embedding with high accuracy even under noise.
Book Synopsis Recent Advances in Learning and Control by : Vincent D. Blondel
Download or read book Recent Advances in Learning and Control written by Vincent D. Blondel and published by Springer Science & Business Media. This book was released on 2008-01-11 with total page 283 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume is composed of invited papers on learning and control. The contents form the proceedings of a workshop held in January 2008, in Hyderabad that honored the 60th birthday of Doctor Mathukumalli Vidyasagar. The 14 papers, written by international specialists in the field, cover a variety of interests within the broader field of learning and control. The diversity of the research provides a comprehensive overview of a field of great interest to control and system theorists.
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 The Quinoa Genome by : Sandra M. Schmöckel
Download or read book The Quinoa Genome written by Sandra M. Schmöckel and published by Springer Nature. This book was released on 2021-02-04 with total page 205 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book focuses on quinoa, providing background information on its history, summarizing recent genetic and genomic advances, and offering directions for future research. Meeting the caloric and nutritional demands of our growing population will not only require increases in overall food production, but also the development of new crops that can be grown sustainably in agricultural environments that are increasingly susceptible to degradation. Quinoa is an ancient crop native to the Andean region of South America that has recently gained international attention because its seeds are high in protein, particularly in essential amino acids. Quinoa is also highly tolerant of abiotic stresses, including drought, frost and salinity. For these reasons, quinoa has the potential to help address issues of food security – a potential that was recognized when the United Nations declared 2013 the International Year of Quinoa. However, more effort is needed to improve quinoa agronomically and to understand the mechanisms of its abiotic stress tolerance; the recent development of genetic and genomic tools, including a reference genome sequence, will now help accelerate research in these areas.
Book Synopsis The Nutritional Biochemistry of Chromium(III) by : John Vincent
Download or read book The Nutritional Biochemistry of Chromium(III) written by John Vincent and published by Elsevier. This book was released on 2011-10-13 with total page 293 pages. Available in PDF, EPUB and Kindle. Book excerpt: Chromium nutritional supplements are the second best selling mineral supplements after calcium as chromium is found in pills, sports drinks, chewing gums, smoothies, and numerous other products. Chromium has been promoted to promote weight loss and muscle development and most recently to be available to treat the symptoms of type 2 diabetes and related conditions. The aim of The Nutritional Biochemistry of Chromium(III) is to examine the four most controversial areas of chromium nutrition and biochemistry: - is chromium an essential element for humans and are chromium nutritional supplements of value? - what biochemical role, if any, does chromium play in the body - can large doses of chromium(III) be used to treat symptoms of type 2 diabetes, cardiovascular disease, and related medical conditions - is the use of chromium(III) supplements a health concern. Scientific experts, who are recognized leaders in the field, weigh in with their opinions on both sides of these issues in this book.A background review of the field from 1955-1995 by Vincent opens the book and concludes with a summary by Dr. Forrest Nielsen, Center Director of the USDA's Grand Forks Human Nutrition Research Center concludes the book. * Point-counterpoint format, providing both sides of major issues* Complete coverage of current issues, including nutrition, health, biochemical role and toxicology* Authors are recognised experts and leaders in this field
Download or read book DNA written by James D. Watson and published by Knopf. This book was released on 2009-01-21 with total page 464 pages. Available in PDF, EPUB and Kindle. Book excerpt: Fifty years ago, James D. Watson, then just twentyfour, helped launch the greatest ongoing scientific quest of our time. Now, with unique authority and sweeping vision, he gives us the first full account of the genetic revolution—from Mendel’s garden to the double helix to the sequencing of the human genome and beyond. Watson’s lively, panoramic narrative begins with the fanciful speculations of the ancients as to why “like begets like” before skipping ahead to 1866, when an Austrian monk named Gregor Mendel first deduced the basic laws of inheritance. But genetics as we recognize it today—with its capacity, both thrilling and sobering, to manipulate the very essence of living things—came into being only with the rise of molecular investigations culminating in the breakthrough discovery of the structure of DNA, for which Watson shared a Nobel prize in 1962. In the DNA molecule’s graceful curves was the key to a whole new science. Having shown that the secret of life is chemical, modern genetics has set mankind off on a journey unimaginable just a few decades ago. Watson provides the general reader with clear explanations of molecular processes and emerging technologies. He shows us how DNA continues to alter our understanding of human origins, and of our identities as groups and as individuals. And with the insight of one who has remained close to every advance in research since the double helix, he reveals how genetics has unleashed a wealth of possibilities to alter the human condition—from genetically modified foods to genetically modified babies—and transformed itself from a domain of pure research into one of big business as well. It is a sometimes topsy-turvy world full of great minds and great egos, driven by ambitions to improve the human condition as well as to improve investment portfolios, a world vividly captured in these pages. Facing a future of choices and social and ethical implications of which we dare not remain uninformed, we could have no better guide than James Watson, who leads us with the same bravura storytelling that made The Double Helix one of the most successful books on science ever published. Infused with a scientist’s awe at nature’s marvels and a humanist’s profound sympathies, DNA is destined to become the classic telling of the defining scientific saga of our age.
Book Synopsis The Functional Nucleus by : David P. Bazett-Jones
Download or read book The Functional Nucleus written by David P. Bazett-Jones and published by Springer. This book was released on 2016-10-17 with total page 501 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book gives an in-depth overview on nuclear structure and function. It clearly shows that the epigenome and the three-dimensional organization of the nucleus are not independent properties. The intimate relationship between the location and the epigenetic modifications of gene loci is highlighted. Finally, it shows that the complex three-dimensional organization of the nucleus is not just of academic interest: The structure, composition and function of virtually all of the sub-nuclear compartments identified so far can be implicated to a list of human genetic diseases. Hence, a detailed elucidation of how these domains are assembled and function will provide new opportunities for therapeutic intervention in clinical practice.
Book Synopsis Chromosome Structure and Function by : Andreas Houben
Download or read book Chromosome Structure and Function written by Andreas Houben and published by Springer My Copy UK. This book was released on 2009 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Our understanding of the function and structure of chromosomes and their interrelationship has grown in recent years. The chapters in this issue describe the advances that have been made possible by combining microscope techniques with sophisticated biochemical and genetic approaches to unlock the secrets of chromosomes. The authors look at many aspects of chromosome biology, such as protein, DNA and RNA composition of chromosomes, defined chromosome structures, unusual chromosome structures and specialized chromosomes and microscope tools for chromosome analysis. 'Chromosome Structure and Function' will be an invaluable resource for undergraduate and postgraduate students in fields such as plant and animal sciences, genetics, and molecular biology. In fact, any student, teacher or researcher interested in chromosome biology will find this special issue indispensable.
Book Synopsis Nuclear Architecture and Dynamics by : Christophe Lavelle
Download or read book Nuclear Architecture and Dynamics written by Christophe Lavelle and published by Academic Press. This book was released on 2017-10-27 with total page 620 pages. Available in PDF, EPUB and Kindle. Book excerpt: Nuclear Architecture and Dynamics provides a definitive resource for (bio)physicists and molecular and cellular biologists whose research involves an understanding of the organization of the genome and the mechanisms of its proper reading, maintenance, and replication by the cell. This book brings together the biochemical and physical characteristics of genome organization, providing a relevant framework in which to interpret the control of gene expression and cell differentiation. It includes work from a group of international experts, including biologists, physicists, mathematicians, and bioinformaticians who have come together for a comprehensive presentation of the current developments in the nuclear dynamics and architecture field. The book provides the uninitiated with an entry point to a highly dynamic, but complex issue, and the expert with an opportunity to have a fresh look at the viewpoints advocated by researchers from different disciplines. Highlights the link between the (bio)chemistry and the (bio)physics of chromatin Deciphers the complex interplay between numerous biochemical factors at task in the nucleus and the physical state of chromatin Provides a collective view of the field by a large, diverse group of authors with both physics and biology backgrounds
Book Synopsis The Flowering of Apomixis by : Yves Savidan
Download or read book The Flowering of Apomixis written by Yves Savidan and published by CIMMYT. This book was released on 2001 with total page 260 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Multiscale Modeling From Macromolecules to Cell: Opportunities and Challenges of Biomolecular Simulations by : Valentina Tozzini
Download or read book Multiscale Modeling From Macromolecules to Cell: Opportunities and Challenges of Biomolecular Simulations written by Valentina Tozzini and published by Frontiers Media SA. This book was released on 2020-10-27 with total page 235 pages. Available in PDF, EPUB and Kindle. Book excerpt: This eBook is a collection of articles from a Frontiers Research Topic. Frontiers Research Topics are very popular trademarks of the Frontiers Journals Series: they are collections of at least ten articles, all centered on a particular subject. With their unique mix of varied contributions from Original Research to Review Articles, Frontiers Research Topics unify the most influential researchers, the latest key findings and historical advances in a hot research area! Find out more on how to host your own Frontiers Research Topic or contribute to one as an author by contacting the Frontiers Editorial Office: frontiersin.org/about/contact.
Book Synopsis The Kiwifruit Genome by : Raffaele Testolin
Download or read book The Kiwifruit Genome written by Raffaele Testolin and published by Springer. This book was released on 2016-05-02 with total page 275 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book describes the basic botanical features of kiwifruit and its wild relatives, reports on the steps that led to its genome sequencing, and discusses the results obtained with the assembly and annotation. The core chapters provide essential insights into the main gene families that characterize this species as a crop, including the genes controlling sugar and starch metabolism, pigment biosynthesis and degradation, the ascorbic-acid pathway, fruit softening and postharvest metabolism, allergens, and resistance to pests and diseases. The book offers a valuable reference guide for taxonomists, geneticists and horticulturists. Further, since information gained from the genome sequence is extraordinarily useful in assessing the breeding value of individuals based on whole-genome scans, it will especially benefit plant breeders. Accordingly, chapters are included that focus on gene introgression from wild relatives and genome-based breeding.
Book Synopsis Mechanisms Driving Karyotype Evolution and Genomic Architecture by : Aurora Ruiz-Herrera
Download or read book Mechanisms Driving Karyotype Evolution and Genomic Architecture written by Aurora Ruiz-Herrera and published by MDPI. This book was released on 2021-08-31 with total page 248 pages. Available in PDF, EPUB and Kindle. Book excerpt: Understanding of the origin of species and their adaptability to new environments is one of the main questions in biology. This is fueled by the ongoing debate on species concepts and facilitated by the availability of an unprecedented large number of genomic resources. Genomes are organized into chromosomes, where significant variations in number and morphology are observed among species due to large-scale structural variants such as inversions, translocations, fusions, and fissions. This genomic reshuffling provides, in the long term, new chromosomal forms on which natural selection can act upon, contributing to the origin of biodiversity. This book contains mainly articles, reviews, and an opinion piece that explore numerous aspects of genome plasticity among taxa that will help in understanding the dynamics of genome composition, the evolutionary relationships between species and, in the long run, speciation.
Book Synopsis New Models of the Cell Nucleus: Crowding, Entropic Forces, Phase Separation, and Fractals by : Ronald Hancock
Download or read book New Models of the Cell Nucleus: Crowding, Entropic Forces, Phase Separation, and Fractals written by Ronald Hancock and published by Academic Press. This book was released on 2013-12-27 with total page 511 pages. Available in PDF, EPUB and Kindle. Book excerpt: International Review of Cell and Molecular Biology presents current advances and comprehensive reviews in cell biology--both plant and animal. Articles address structure and control of gene expression, nucleocytoplasmic interactions, control of cell development and differentiation, and cell transformation and growth. Impact factor for 2012: 4.973. Ideas from the fields of biophysics, physical chemistry, of polymer and colloid, and soft matter science have helped clarify the structure and functions of the cell nucleus. The development of powerful methods for modeling conformations and interactions of macromolecules has also contributed. The book aims to encourage cell and molecular biologists to become more familiar with and understand these new concepts and methods, and the crucial contributions they are making to our perception of the nucleus. This is the first volume to present a comprehensive review of New Models of the Cell Nucleus
Book Synopsis Anatomy of Flowering Plants by : Paula J. Rudall
Download or read book Anatomy of Flowering Plants written by Paula J. Rudall and published by Cambridge University Press. This book was released on 2007-03-15 with total page 111 pages. Available in PDF, EPUB and Kindle. Book excerpt: In the 2007 third edition of her successful textbook, Paula Rudall provides a comprehensive yet succinct introduction to the anatomy of flowering plants. Thoroughly revised and updated throughout, the book covers all aspects of comparative plant structure and development, arranged in a series of chapters on the stem, root, leaf, flower, seed and fruit. Internal structures are described using magnification aids from the simple hand-lens to the electron microscope. Numerous references to recent topical literature are included, and new illustrations reflect a wide range of flowering plant species. The phylogenetic context of plant names has also been updated as a result of improved understanding of the relationships among flowering plants. This clearly written text is ideal for students studying a wide range of courses in botany and plant science, and is also an excellent resource for professional and amateur horticulturists.
Book Synopsis Alien Introgression in Wheat by : Márta Molnár-Láng
Download or read book Alien Introgression in Wheat written by Márta Molnár-Láng and published by Springer. This book was released on 2015-11-20 with total page 387 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides an overview of the latest advancements in the field of alien introgression in wheat. The discovery and wide application of molecular genetic techniques including molecular markers, in situ hybridization, and genomics has led to a surge in interspecific and intergeneric hybridization in recent decades. The work begins with the taxonomy of cereals, especially of those species which are potential gene sources for wheat improvement. The text then goes on to cover the origin of wheat, breeding in connection with alien introgressions, and the problems of producing intergeneric hybrids and backcross derivatives. These problems can include crossability, sterility, and unequal chromosome transmission. The work then covers alien introgressions according to the related species used, as well as new results in the field of genomics of wild wheat relatives and introgressions.
Book Synopsis Introduction to Pharmaceutical Biotechnology, Volume 1 by : Saurabh Bhatia
Download or read book Introduction to Pharmaceutical Biotechnology, Volume 1 written by Saurabh Bhatia and published by . This book was released on 2018-05-23 with total page 320 pages. Available in PDF, EPUB and Kindle. Book excerpt: Animal biotechnology is a broad field including polarities of fundamental and applied research, as well as DNA science, covering key topics of DNA studies and its recent applications. In Introduction to Pharmaceutical Biotechnology, DNA isolation procedures followed by molecular markers and screening methods of the genomic library are explained in detail. Interesting areas such as isolation, sequencing and synthesis of genes, with broader coverage of the latter, are also described. The book begins with an introduction to biotechnology and its main branches, explaining both the basic science and the applications of biotechnology-derived pharmaceuticals, with special emphasis on their clinical use. It then moves on to the historical development and scope of biotechnology with an overall review of early applications that scientists employed long before the field was defined. Additionally, this book offers first-hand accounts of the use of biotechnology tools in the area of genetic engineering and provides comprehensive information related to current developments in the following parameters: plasmids, basic techniques used in gene transfer, and basic principles used in transgenesis. The text also provides the fundamental understanding of stem cell and gene therapy, and offers a short description of current information on these topics as well as their clinical associations and related therapeutic options.
