Data Driven Mechanistic Modeling Of 3d Human Genome

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Modeling the 3D Conformation of Genomes

Author : Guido Tiana
Publisher : CRC Press
ISBN 13 : 1351386999
Total Pages : 306 pages
Book Rating : 4.3/5 (513 download)

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Book Synopsis Modeling the 3D Conformation of Genomes by : Guido Tiana

Download or read book Modeling the 3D Conformation of Genomes written by Guido Tiana and published by CRC Press. This book was released on 2019-01-15 with total page 306 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides a timely summary of physical modeling approaches applied to biological datasets that describe conformational properties of chromosomes in the cell nucleus. Chapters explain how to convert raw experimental data into 3D conformations, and how to use models to better understand biophysical mechanisms that control chromosome conformation. The coverage ranges from introductory chapters to modeling aspects related to polymer physics, and data-driven models for genomic domains, the entire human genome, epigenome folding, chromosome structure and dynamics, and predicting 3D genome structure.

Modeling the 3D Conformation of Genomes

Author : G. Tiana
Publisher : CRC Press
ISBN 13 : 9780367780456
Total Pages : 370 pages
Book Rating : 4.7/5 (84 download)

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Book Synopsis Modeling the 3D Conformation of Genomes by : G. Tiana

Download or read book Modeling the 3D Conformation of Genomes written by G. Tiana and published by CRC Press. This book was released on 2021-03-31 with total page 370 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides a timely summary of physical modeling approaches applied to biological datasets that describe conformational properties of chromosomes in the cell nucleus. The coverage ranges from introductory chapters to modeling aspects related to polymer physics, and data-driven models for genomic domains, and predicting 3D genome structur

Computational Methods for 3D Genome Analysis

Author : Ryuichiro Nakato
Publisher : Springer Nature
ISBN 13 : 1071641360
Total Pages : 455 pages
Book Rating : 4.0/5 (716 download)

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Book Synopsis Computational Methods for 3D Genome Analysis by : Ryuichiro Nakato

Download or read book Computational Methods for 3D Genome Analysis written by Ryuichiro Nakato and published by Springer Nature. This book was released on with total page 455 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Nuclear Architecture and Dynamics

Author : Christophe Lavelle
Publisher : Academic Press
ISBN 13 : 012803503X
Total Pages : 620 pages
Book Rating : 4.1/5 (28 download)

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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

HiC-Pro: an Optimized and Flexible Pipeline for Hi-C Data Processing

Author : Oldenburg Oldenburg Press
Publisher :
ISBN 13 : 9781523764426
Total Pages : 40 pages
Book Rating : 4.7/5 (644 download)

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Book Synopsis HiC-Pro: an Optimized and Flexible Pipeline for Hi-C Data Processing by : Oldenburg Oldenburg Press

Download or read book HiC-Pro: an Optimized and Flexible Pipeline for Hi-C Data Processing written by Oldenburg Oldenburg Press and published by . This book was released on 2016-01-29 with total page 40 pages. Available in PDF, EPUB and Kindle. Book excerpt: HiC-Pro is an optimized and flexible pipeline for processing Hi-C data from raw reads to normalized contact maps. HiC-Pro maps reads, detects valid ligation products, performs quality controls and generates intra- and inter-chromosomal contact maps. It includes a fast implementation of the iterative correction method and is based on a memory-efficient data format for Hi-C contact maps. In addition, HiC-Pro can use phased genotype data to build allele-specific contact maps. We applied HiC-Pro to different Hi-C datasets, demonstrating its ability to easily process large data in a reasonable time. Source code and documentation are available at http://github.com/nservant/HiC-Pro.

Handbook of Animal Models and its Uses in Cancer Research

Author : Surajit Pathak
Publisher : Springer Nature
ISBN 13 : 9811938245
Total Pages : 1158 pages
Book Rating : 4.8/5 (119 download)

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Book Synopsis Handbook of Animal Models and its Uses in Cancer Research by : Surajit Pathak

Download or read book Handbook of Animal Models and its Uses in Cancer Research written by Surajit Pathak and published by Springer Nature. This book was released on 2023-01-31 with total page 1158 pages. Available in PDF, EPUB and Kindle. Book excerpt: This reference book compiles together different animal models in cancer research. It provides knowledge and a better understanding of the advancement of the molecular and cellular mechanisms associated with the progression, formation, and clinical results of various types of cancer from the evidence collected from animal models utilized for cancer research. It discusses animal models for screening anti-cancer drugs and exploration of gene therapy. It presents different methods used to construct cancer animal models and the progress of each animal model in tumor research. The book also highlights the applications of genetic engineering, including CRISP/Cas9, in designing and developing animal models for cancer research. Further, it discusses strategies for modeling animals for investigating growth, metastasis, tumor-associated inflammation and microenvironment, cancer stem cells, tumor heterogeneity, and therapeutic resistance. This book is s a valuable resource for basic and translational cancer researchers, clinicians, and health care.

Machine Learning in Radiation Oncology

Author : Issam El Naqa
Publisher : Springer
ISBN 13 : 3319183052
Total Pages : 336 pages
Book Rating : 4.3/5 (191 download)

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Book Synopsis Machine Learning in Radiation Oncology by : Issam El Naqa

Download or read book Machine Learning in Radiation Oncology written by Issam El Naqa and published by Springer. This book was released on 2015-06-19 with total page 336 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides a complete overview of the role of machine learning in radiation oncology and medical physics, covering basic theory, methods, and a variety of applications in medical physics and radiotherapy. An introductory section explains machine learning, reviews supervised and unsupervised learning methods, discusses performance evaluation, and summarizes potential applications in radiation oncology. Detailed individual sections are then devoted to the use of machine learning in quality assurance; computer-aided detection, including treatment planning and contouring; image-guided radiotherapy; respiratory motion management; and treatment response modeling and outcome prediction. The book will be invaluable for students and residents in medical physics and radiation oncology and will also appeal to more experienced practitioners and researchers and members of applied machine learning communities.

The Vasculome

Author : Zorina S. Galis
Publisher : Academic Press
ISBN 13 : 0128225475
Total Pages : 528 pages
Book Rating : 4.1/5 (282 download)

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Book Synopsis The Vasculome by : Zorina S. Galis

Download or read book The Vasculome written by Zorina S. Galis and published by Academic Press. This book was released on 2022-06-11 with total page 528 pages. Available in PDF, EPUB and Kindle. Book excerpt: The Vasculome: From Many, One introduces the fundamental bases of the “unity in diversity of the Vasculome, from the coming together of various cell lineages during development, to its deceptively simple solution for architectural design: the efficient interplay of a few types of building blocks supporting key similar functions throughout the body and their highly specialized functional local variations. Specific examples are included to illustrate how the Vasculome is integral to the function and malfunction of different organs, such as the brain or the kidney. Each section is preceded by an introductory summary that will give a high level unified view of the key concepts illustrated in the various chapters in that section. Zorina Galis' The Vasculome was named a finalist in the Clinical Medicine category of the American Association of Publishers’ 2023 PROSE Awards. 2023 PROSE Awards - Winner: Finalist: Clinical Medicine: Association of American Publishers Brings together leading experts who present the latest biomedical thinking about the vasculature from the integrative perspective of the Vasculome Challenges traditional real and perceived boundaries within vascular research areas and stimulates new fundamental thinking and medical explorations Creates the bases for translating the integrative Vasculome concept into improved fundamental and clinical assessment and management of local and systemic contributions of the vasculature in health and disease

Dynamic Mode Decomposition

Author : J. Nathan Kutz
Publisher : SIAM
ISBN 13 : 1611974496
Total Pages : 241 pages
Book Rating : 4.6/5 (119 download)

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Book Synopsis Dynamic Mode Decomposition by : J. Nathan Kutz

Download or read book Dynamic Mode Decomposition written by J. Nathan Kutz and published by SIAM. This book was released on 2016-11-23 with total page 241 pages. Available in PDF, EPUB and Kindle. Book excerpt: Data-driven dynamical systems is a burgeoning field?it connects how measurements of nonlinear dynamical systems and/or complex systems can be used with well-established methods in dynamical systems theory. This is a critically important new direction because the governing equations of many problems under consideration by practitioners in various scientific fields are not typically known. Thus, using data alone to help derive, in an optimal sense, the best dynamical system representation of a given application allows for important new insights. The recently developed dynamic mode decomposition (DMD) is an innovative tool for integrating data with dynamical systems theory. The DMD has deep connections with traditional dynamical systems theory and many recent innovations in compressed sensing and machine learning. Dynamic Mode Decomposition: Data-Driven Modeling of Complex Systems, the first book to address the DMD algorithm, presents a pedagogical and comprehensive approach to all aspects of DMD currently developed or under development; blends theoretical development, example codes, and applications to showcase the theory and its many innovations and uses; highlights the numerous innovations around the DMD algorithm and demonstrates its efficacy using example problems from engineering and the physical and biological sciences; and provides extensive MATLAB code, data for intuitive examples of key methods, and graphical presentations.

Multiscale Cancer Modeling

Author : Thomas S. Deisboeck
Publisher : CRC Press
ISBN 13 : 1439814422
Total Pages : 492 pages
Book Rating : 4.4/5 (398 download)

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Book Synopsis Multiscale Cancer Modeling by : Thomas S. Deisboeck

Download or read book Multiscale Cancer Modeling written by Thomas S. Deisboeck and published by CRC Press. This book was released on 2010-12-08 with total page 492 pages. Available in PDF, EPUB and Kindle. Book excerpt: Cancer is a complex disease process that spans multiple scales in space and time. Driven by cutting-edge mathematical and computational techniques, in silico biology provides powerful tools to investigate the mechanistic relationships of genes, cells, and tissues. It enables the creation of experimentally testable hypotheses, the integration of dat

Encyclopedia of Biomedical Engineering

Author :
Publisher : Elsevier
ISBN 13 : 0128051442
Total Pages : 2069 pages
Book Rating : 4.1/5 (28 download)

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Book Synopsis Encyclopedia of Biomedical Engineering by :

Download or read book Encyclopedia of Biomedical Engineering written by and published by Elsevier. This book was released on 2018-09-01 with total page 2069 pages. Available in PDF, EPUB and Kindle. Book excerpt: Encyclopedia of Biomedical Engineering, Three Volume Set is a unique source for rapidly evolving updates on topics that are at the interface of the biological sciences and engineering. Biomaterials, biomedical devices and techniques play a significant role in improving the quality of health care in the developed world. The book covers an extensive range of topics related to biomedical engineering, including biomaterials, sensors, medical devices, imaging modalities and imaging processing. In addition, applications of biomedical engineering, advances in cardiology, drug delivery, gene therapy, orthopedics, ophthalmology, sensing and tissue engineering are explored. This important reference work serves many groups working at the interface of the biological sciences and engineering, including engineering students, biological science students, clinicians, and industrial researchers. Provides students with a concise description of the technologies at the interface of the biological sciences and engineering Covers all aspects of biomedical engineering, also incorporating perspectives from experts working within the domains of biomedicine, medical engineering, biology, chemistry, physics, electrical engineering, and more Contains reputable, multidisciplinary content from domain experts Presents a ‘one-stop’ resource for access to information written by world-leading scholars in the field

Index Medicus

Author :
Publisher :
ISBN 13 :
Total Pages : 2432 pages
Book Rating : 4.:/5 (319 download)

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Book Synopsis Index Medicus by :

Download or read book Index Medicus written by and published by . This book was released on 2004 with total page 2432 pages. Available in PDF, EPUB and Kindle. Book excerpt: Vols. for 1963- include as pt. 2 of the Jan. issue: Medical subject headings.

Modeling the Interplay Between Human Behavior and the Spread of Infectious Diseases

Author : Piero Manfredi
Publisher : Springer Science & Business Media
ISBN 13 : 1461454743
Total Pages : 329 pages
Book Rating : 4.4/5 (614 download)

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Book Synopsis Modeling the Interplay Between Human Behavior and the Spread of Infectious Diseases by : Piero Manfredi

Download or read book Modeling the Interplay Between Human Behavior and the Spread of Infectious Diseases written by Piero Manfredi and published by Springer Science & Business Media. This book was released on 2013-01-04 with total page 329 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume summarizes the state-of-the-art in the fast growing research area of modeling the influence of information-driven human behavior on the spread and control of infectious diseases. In particular, it features the two main and inter-related “core” topics: behavioral changes in response to global threats, for example, pandemic influenza, and the pseudo-rational opposition to vaccines. In order to make realistic predictions, modelers need to go beyond classical mathematical epidemiology to take these dynamic effects into account. With contributions from experts in this field, the book fills a void in the literature. It goes beyond classical texts, yet preserves the rationale of many of them by sticking to the underlying biology without compromising on scientific rigor. Epidemiologists, theoretical biologists, biophysicists, applied mathematicians, and PhD students will benefit from this book. However, it is also written for Public Health professionals interested in understanding models, and to advanced undergraduate students, since it only requires a working knowledge of mathematical epidemiology.

Probabilistic Boolean Networks

Author : Ilya Shmulevich
Publisher : SIAM
ISBN 13 : 0898716926
Total Pages : 276 pages
Book Rating : 4.8/5 (987 download)

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Book Synopsis Probabilistic Boolean Networks by : Ilya Shmulevich

Download or read book Probabilistic Boolean Networks written by Ilya Shmulevich and published by SIAM. This book was released on 2010-01-21 with total page 276 pages. Available in PDF, EPUB and Kindle. Book excerpt: The first comprehensive treatment of probabilistic Boolean networks, unifying different strands of current research and addressing emerging issues.

Bioinformatics Research and Development

Author : Sepp Hochreiter
Publisher : Springer
ISBN 13 : 354071233X
Total Pages : 497 pages
Book Rating : 4.5/5 (47 download)

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Book Synopsis Bioinformatics Research and Development by : Sepp Hochreiter

Download or read book Bioinformatics Research and Development written by Sepp Hochreiter and published by Springer. This book was released on 2007-05-21 with total page 497 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes the refereed proceedings of the First International Bioinformatics Research and Development Conference, BIRD 2007, held in Berlin, Germany in March 2007. The 36 revised full papers are organized in topical sections on microarray and systems biology and networks, medical, SNPs, genomics, systems biology, sequence analysis and coding, proteomics and structure, databases, Web and text analysis.

Genome Editing in Neurosciences

Author : Rudolf Jaenisch
Publisher :
ISBN 13 : 9781013268564
Total Pages : 128 pages
Book Rating : 4.2/5 (685 download)

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Book Synopsis Genome Editing in Neurosciences by : Rudolf Jaenisch

Download or read book Genome Editing in Neurosciences written by Rudolf Jaenisch and published by . This book was released on 2020-10-08 with total page 128 pages. Available in PDF, EPUB and Kindle. Book excerpt: Innovations in molecular biology are allowing neuroscientists to study the brain with unprecedented resolution, from the level of single molecules to integrated gene circuits. Chief among these innovations is the CRISPR-Cas genome editing technology, which has the precision and scalability to tackle the complexity of the brain. This Colloque Médecine et Recherche has brought together experts from around the world that are applying genome editing to address important challenges in neuroscience, including basic biology in model organisms that has the power to reveal systems-level insight into how the nervous system develops and functions as well as research focused on understanding and treating human neurological disorders. This work was published by Saint Philip Street Press pursuant to a Creative Commons license permitting commercial use. All rights not granted by the work's license are retained by the author or authors.

Towards a Theory of Development

Author : Alessandro Minelli
Publisher : Oxford University Press, USA
ISBN 13 : 0199671435
Total Pages : 299 pages
Book Rating : 4.1/5 (996 download)

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Book Synopsis Towards a Theory of Development by : Alessandro Minelli

Download or read book Towards a Theory of Development written by Alessandro Minelli and published by Oxford University Press, USA. This book was released on 2014 with total page 299 pages. Available in PDF, EPUB and Kindle. Book excerpt: Is it possible to explain and predict the development of living things? What is development? Articulate answers to these seemingly innocuous questions are far from straightforward. To date, no systematic, targeted effort has been made to construct a unifying theory of development. This novel work offers a unique exploration of the foundations of ontogeny by asking how the development of living things should be understood. It explores the key concepts of developmental biology, asks whether general principles of development can be discovered, and examines the role of models and theories. The two editors (one a biologist with long interest in the theoretical aspects of his discipline, the other a philosopher of science who has mainly worked on biological systems) have assembled a team of leading contributors who are representative of the scientific and philosophical community within which a diversity of thoughts are growing, and out of which a theory of development may eventually emerge. They analyse a wealth of approaches to concepts, models and theories of development, such as gene regulatory networks, accounts based on systems biology and on physics of soft matter, the different articulations of evolution and development, symbiont-induced development, as well as the widely discussed concepts of positional information and morphogenetic field, the idea of a 'programme' of development and its critiques, and the long-standing opposition between preformationist and epigenetic conceptions of development. Towards a Theory of Development is primarily aimed at students and researchers in the fields of 'evo-devo', developmental biology, theoretical biology, systems biology, biophysics, and the philosophy of science.