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Computational Biology for Stem Cell Research

Author: Pawan Raghav

Publisher: Elsevier

Published: 2024-01-12

Total Pages: 568

ISBN-13: 0443132216

Computational Biology for Stem Cell Research is an invaluable guide for researchers as they explore HSCs and MSCs in computational biology. With the growing advancement of technology in the field of biomedical sciences, computational approaches have reduced the financial and experimental burden of the experimental process. In the shortest span, it has established itself as an integral component of any biological research activity. HSC informatics (in silico) techniques such as machine learning, genome network analysis, data mining, complex genome structures, docking, system biology, mathematical modeling, programming (R, Python, Perl, etc.) help to analyze, visualize, network constructions, and protein-ligand or protein-protein interactions. This book is aimed at beginners with an exact correlation between the biomedical sciences and in silico computational methods for HSCs transplantation and translational research and provides insights into methods targeting HSCs properties like proliferation, self-renewal, differentiation, and apoptosis. Modeling Stem Cell Behavior: Explore stem cell behavior through animal models, bridging laboratory studies to real-world clinical allogeneic HSC transplantation (HSCT) scenarios. Bioinformatics-Driven Translational Research: Navigate a path from bench to bedside with cutting-edge bioinformatics approaches, translating computational insights into tangible advancements in stem cell research and medical applications. Interdisciplinary Resource: Discover a single comprehensive resource catering to biomedical sciences, life sciences, and chemistry fields, offering essential insights into computational tools vital for modern research.

Computational Stem Cell Biology

Author: Patrick Cahan

Publisher: Humana

Published: 2019-05-07

Total Pages: 0

ISBN-13: 9781493992232

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This volume details methods and protocols to further the study of stem cells within the computational stem cell biology (CSCB) field. Chapters are divided into four sections covering the theory and practice of modeling of stem cell behavior, analyzing single cell genome-scale measurements, reconstructing gene regulatory networks, and metabolomics. 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, Computational Stem Cell Biology: Methods and Protocols will be an invaluable guide to researchers as they explore stem cells from the perspective of computational biology.

Computational Biology of Embryonic Stem Cells

Author: Ming Zhan

Publisher: Bentham Science Publishers

Published: 2012-08-10

Total Pages: 262

ISBN-13: 1608050254

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"Computational biology in combination with large-scale biology has played a critical role in exploring the great potentials of embryonic stem cells, resulting in significant discoveries. This e-book brings together reviews and essays from different aspects"

Video Bioinformatics

Author: Bir Bhanu

Publisher: Springer

Published: 2015-12-16

Total Pages: 381

ISBN-13: 3319237241

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The advances of live cell video imaging and high-throughput technologies for functional and chemical genomics provide unprecedented opportunities to understand how biological processes work in subcellularand multicellular systems. The interdisciplinary research field of Video Bioinformatics is defined by BirBhanu as the automated processing, analysis, understanding, data mining, visualization, query-basedretrieval/storage of biological spatiotemporal events/data and knowledge extracted from dynamic imagesand microscopic videos. Video bioinformatics attempts to provide a deeper understanding of continuousand dynamic life processes.Genome sequences alone lack spatial and temporal information, and video imaging of specific moleculesand their spatiotemporal interactions, using a range of imaging methods, are essential to understandhow genomes create cells, how cells constitute organisms, and how errant cells cause disease. The bookexamines interdisciplinary research issues and challenges with examples that deal with organismal dynamics,intercellular and tissue dynamics, intracellular dynamics, protein movement, cell signaling and softwareand databases for video bioinformatics.Topics and Features• Covers a set of biological problems, their significance, live-imaging experiments, theory andcomputational methods, quantifiable experimental results and discussion of results.• Provides automated methods for analyzing mild traumatic brain injury over time, identifying injurydynamics after neonatal hypoxia-ischemia and visualizing cortical tissue changes during seizureactivity as examples of organismal dynamics• Describes techniques for quantifying the dynamics of human embryonic stem cells with examplesof cell detection/segmentation, spreading and other dynamic behaviors which are important forcharacterizing stem cell health• Examines and quantifies dynamic processes in plant and fungal systems such as cell trafficking,growth of pollen tubes in model systems such as Neurospora Crassa and Arabidopsis• Discusses the dynamics of intracellular molecules for DNA repair and the regulation of cofilintransport using video analysis• Discusses software, system and database aspects of video bioinformatics by providing examples of5D cell tracking by FARSIGHT open source toolkit, a survey on available databases and software,biological processes for non-verbal communications and identification and retrieval of moth imagesThis unique text will be of great interest to researchers and graduate students of Electrical Engineering,Computer Science, Bioengineering, Cell Biology, Toxicology, Genetics, Genomics, Bioinformatics, ComputerVision and Pattern Recognition, Medical Image Analysis, and Cell Molecular and Developmental Biology.The large number of example applications will also appeal to application scientists and engineers.Dr. Bir Bhanu is Distinguished Professor of Electrical & C omputer Engineering, Interim Chair of theDepartment of Bioengineering, Cooperative Professor of Computer Science & Engineering, and MechanicalEngineering and the Director of the Center for Research in Intelligent Systems, at the University of California,Riverside, California, USA.Dr. Prue Talbot is Professor of Cell Biology & Neuroscience and Director of the Stem Cell Center and Core atthe University of California Riverside, California, USA.

New Frontiers of Network Analysis in Systems Biology

Author: Avi Ma'ayan

Publisher: Springer Science & Business Media

Published: 2012-06-25

Total Pages: 204

ISBN-13: 9400743300

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The rapidly developing field of systems biology is influencing many aspects of biological research and is expected to transform biomedicine. Some emerging offshoots and specialized branches in systems biology are receiving particular attention and are becoming highly active areas of research. This collection of invited reviews describes some of the latest cutting-edge experimental and computational advances in these emerging sub-fields of systems biology. In particular, this collection focuses on the study of mammalian embryonic stem cells; new technologies involving mass-spectrometry proteomics; single cell measurements; methods for modeling complex stochastic systems; network-based classification algorithms; and the revolutionary emerging field of systems pharmacology.

The Threat and the Glory

Author: Peter Brian Medawar

Publisher: Oxford University Press, USA

Published: 1991

Total Pages: 328

ISBN-13:

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Sir Peter Medawar, as his many admirers know, was not only a great scientist but a great writer. The creative energy that earned him the 1960 Noble Prize for Medecine for his pathbreaking work in immunology also fueled his many and varied writings. Books such as Pluto's Republic, The Limits of Science, and The Hope of Progress (to name but a few) made the ever-changing world of modern science accessible to non-specialists, and have since become small classics of their kind. As Lewis Thomas writes in his foreword to this posthumous collection, "some of the wisest remarks of the twentieth century" come from the pen of Peter Medawar. The Threat and the Glory explores the twin nature of modern science; its ability to inspire both hope and fear in its professional and lay observers. Medawar, of course, says it best when he writes of science's ability to make the seemingly impossible a reality, "scientists may exult in the glory, but in the middle of the twentieth century the reaction of ordinary people is more often to cower at the threat." This theme runs throughout this collection of writings which cover a characteristically wide range of topics: genetic engineering, evolution, philosophy, creativity, scientific fraud, the medical community, and attitudes toward death. Ranging in tone from these serious reflections on the nature of science to more lighthearted pieces such as "Son of Stroke"--a guide for long-term hospital patients based on his own experience as the victim of a cerebral hemorrhage--The Threat and the Glory entertains as much as it educates. Selected by his close friend David Pyke, these essays--some previously unpublished, many appearing in book form for the first time--show Medawar to have been not only a tireless truth-seeker, but also a merciless debunker of myths. Reading Medawar, we come to understand and accept the indispensable role of science in our world. Witty, incisive, and above all compassionate, The Threat and the Glory will delight those who are familiar with Medawar's writing, and will be a special treat for those who are not.

Computational Immunology

Author: Shyamasree Ghosh

Publisher: CRC Press

Published: 2020-01-31

Total Pages: 181

ISBN-13: 1351023489

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Computational Immunology: Applications focuses on different mathematical models, statistical tools, techniques, and computational modelling that helps in understanding complex phenomena of the immune system and its biological functions. The book also focuses on the latest developments in computational biology in designing of drugs, targets, biomarkers for early detection and prognosis of a disease. It highlights the applications of computational methods in deciphering the complex processes of the immune system and its role in health and disease. This book discusses the most essential topics, including Next generation sequencing (NGS) and computational immunology Computational modelling and biology of diseases Drug designing Computation and identification of biomarkers Application in organ transplantation Application in disease detection and therapy Computational methods and applications in understanding of the invertebrate immune system S Ghosh is MSc, PhD, PGDHE, PGDBI, is PhD from IICB, CSIR, Kolkata, awarded the prestigious National Scholarship from the Government of India. She has worked and published extensively in glycobiology, sialic acids, immunology, stem cells and nanotechnology. She has authored several publications that include books and encyclopedia chapters in reputed journals and books.

Bioinformatics and Systems Biology

Author: Frederick Marcus

Publisher: Springer Science & Business Media

Published: 2008-07-22

Total Pages: 296

ISBN-13: 3540783539

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Collaborative research in bioinformatics and systems biology is a key element of modern biology and health research. This book highlights and provides access to many of the methods, environments, results and resources involved, including integral laboratory data generation and experimentation and clinical activities. Collaborative projects embody a research paradigm that connects many of the top scientists, institutions, their resources and research worldwide, resulting in first-class contributions to bioinformatics and systems biology. Central themes include describing processes and results in collaborative research projects using computational biology and providing a guide for researchers to access them. The book is also a practical guide on how science is managed. It shows how collaborative researchers are putting results together in a way accessible to the entire biomedical community.

Analyzing Network Data in Biology and Medicine

Author: Nataša Pržulj

Publisher: Cambridge University Press

Published: 2019-03-28

Total Pages: 647

ISBN-13: 1108386245

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The increased and widespread availability of large network data resources in recent years has resulted in a growing need for effective methods for their analysis. The challenge is to detect patterns that provide a better understanding of the data. However, this is not a straightforward task because of the size of the data sets and the computer power required for the analysis. The solution is to devise methods for approximately answering the questions posed, and these methods will vary depending on the data sets under scrutiny. This cutting-edge text introduces biological concepts and biotechnologies producing the data, graph and network theory, cluster analysis and machine learning, before discussing the thought processes and creativity involved in the analysis of large-scale biological and medical data sets, using a wide range of real-life examples. Bringing together leading experts, this text provides an ideal introduction to and insight into the interdisciplinary field of network data analysis in biomedicine.

Genome Informatics 2009

Author: Charles DeLisi

Publisher: World Scientific

Published: 2010

Total Pages: 215

ISBN-13: 9781848165694

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Umbilical cord blood, previously discarded after birth, has emerged over recent years as an alternative source of hematopoietic stem cells for hematological reconstitution, mainly for leukemia patients, as well as for some hematological deficiencies and bone marrow failures. In recent years, it has become increasingly clear that cord blood, as well as the surrounding tissue of the umbilical cord, contain additional stem cells which have been shown to be of great potential for regenerative medicine. Importantly, cord blood is abundant, it can be banked and shipped with ease, and thus has an indisputable potential for future medicines and regenerative therapies. Driven by a massive interest for regenerative medicine and alternative yet ethically acceptable stem cell sources, the scientific literature on umbilical cord and cord blood stem cells has increased tremendously. This book provides a consolidated, up-to-date overview of basic research on hematopoietic and mesenchymal stem cells contained within umbilical cord tissue, as well as other more recently described stem and precursor cells of not yet fully elucidated potential. It also takes an in-depth look at basic and translational research efforts with stem cells from the umbilical cord in academic institutions and biotech companies. Suitable for use as a primer and reference book by medical fellows and researchers entering the research fields of stem cell biology and regenerative medicine, it can also be used by students (undergraduate and graduate) as a starting point for read-up on the literature on stem cells and their potential and applications, or as a teaching tool in graduate schools for biologists, particularly for students wanting to enter the emerging field of stem cell biology.