Download or read book Toward Reverse Engineering Spatiotemporal Gene Regulatory Networks of Nematostella Vectensis written by Amir Masoud Abdol and published by . This book was released on 2018 with total page 125 pages. Available in PDF, EPUB and Kindle. Book excerpt: Over the last decade, the sea anemone Nematostella vectensis has become a popular model to study bilaterian evolution, development and more recently also regeneration. Understanding genetic interactions during the early development of N. vectensis is the first step toward unveiling the details of its early developmental processes, e.g., polarization, the formation of the blastula and initiation of the gastrulation process. Furthermore, the collective knowledge of gene interactions allows researchers to speculate about possible Gene Regulatory Networks (GRNs) governing each process. The knowledge of gene interactions also provides an opportunity to reverse engineer gene interactions in a GRN model which potentially leads to detailed understanding of the early developmental processes, e.g., pattern formation and the mechanics of gastrulation. There is still a limited amount of knowledge available regarding N. vectensis gene interactions and possible GRNs involved in each developmental process. This thesis introduces a method for extracting spatial gene expression profiles from in situ hybridization images of N. vectensis embryo. My collaborators and I have introduced a systematic procedure to combine and process the available data from different sources (e.g., in situ and qPCR) in order to understand gene interactions and reconstruct testable hypotheses for GRNs controlling development.
Download or read book Reverse Engineering of Regulatory Networks written by Sudip Mandal and published by Springer Nature. This book was released on 2023-11-07 with total page 331 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume details the development of updated dry lab and wet lab based methods for the reconstruction of Gene regulatory networks (GRN). Chapters guide readers through culprit genes, in-silico drug discovery techniques, genome-wide ChIP-X data, high-Throughput Transcriptomic Data Exome Sequencing, Next-Generation Sequencing, Fuorescence Spectroscopy, data analysis in Bioinformatics, Computational Biology, and S-system based modeling of GRN. 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 key tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Reverse Engineering of Regulatory Networks aims to be a useful and practical guide to new researchers and experts looking to expand their knowledge.
Download or read book System Identification Methods for Reverse Engineering Gene Regulatory Networks written by Zhen Wang and published by . This book was released on 2010 with total page 158 pages. Available in PDF, EPUB and Kindle. Book excerpt: With the advent of high throughput measurement technologies, large scale gene expression data are available for analysis. Various computational methods have been introduced to analyze and predict meaningful molecular interactions from gene expression data. Such patterns can provide an understanding of the regulatory mechanisms in the cells. In the past, system identification algorithms have been extensively developed for engineering systems. These methods capture the dynamic input/output relationship of a system, provide a deterministic model of its function, and have reasonable computational requirements. In this work, two system identification methods are applied for reverse engineering of gene regulatory networks. The first method is based on an orthogonal search; it selects terms from a predefined set of gene expression profiles to best fit the expression levels of a given output gene. The second method consists of a few cascades, each of which includes a dynamic component and a static component. Multiple cascades are added in a parallel to reduce the difference of the estimated expression profiles with the actual ones. Gene regulatory networks can be constructed by defining the selected inputs as the regulators of the output. To assess the performance of the approaches, a temporal synthetic dataset is developed. Methods are then applied to this dataset as well as the Brainsim dataset, a popular simulated temporal gene expression data. Furthermore, the methods are also applied to a biological dataset in yeast Saccharomyces Cerevisiae. This dataset includes 14 cell-cycle regulated genes; their known cell cycle pathway is used as the target network structure, and the criteria sensitivity, precision, and specificity are calculated to evaluate the inferred networks through these two methods. Resulting networks are also compared with two previous studies in the literature on the same dataset.
Download or read book Time Lagged Information Theoretic Approaches to the Reverse Engineering of Gene Regulatory Networks written by Vijender Chaitankar and published by . This book was released on 2010 with total page 14 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Reverse Engineering of Gene Regulatory Networks for Discovery of Novel Interactions in Pathways Using Gene Expression Data written by Tanwir Habib and published by . This book was released on 2009 with total page 216 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book An Ensemble Learning Approach to Reverse engineering Transcriptional Regulatory Networks from Time series Gene Expression Data written by and published by . This book was released on 2009 with total page 13 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Reverse Engineering Gene Regulatory Networks written by Vincenzo Belcastro and published by . This book was released on 2010 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Systems Biology of Cancer written by Sam Thiagalingam and published by Cambridge University Press. This book was released on 2015-04-09 with total page 597 pages. Available in PDF, EPUB and Kindle. Book excerpt: An overview of the current systems biology-based knowledge and the experimental approaches for deciphering the biological basis of cancer.
Download or read book Symbiotic Microbiomes of Coral Reefs Sponges and Corals written by Zhiyong Li and published by Springer. This book was released on 2019-06-07 with total page 570 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book focuses on the symbiotic microbiomes of invertebrates in coral reefs, especially sponges and corals. It provides in-depth and up-to-date reviews on the microbial structure and diversity, metabolism and function, symbiosis and coevolution, environment and adaption, and bioactive potentials. Meanwhile, the future perspectives will be discussed according to the existing problems and the development trend. This book will be of particular interest to the professionals in marine ecology, marine biotechnology, as well as medicinal chemists and molecular biologists.
Download or read book The Circadian Clock written by Urs Albrecht and published by Springer Science & Business Media. This book was released on 2010-01-23 with total page 306 pages. Available in PDF, EPUB and Kindle. Book excerpt: With the invitation to edit this volume, I wanted to take the opportunity to assemble reviews on different aspects of circadian clocks and rhythms. Although most c- tributions in this volume focus on mammalian circadian clocks, the historical int- duction and comparative clocks section illustrate the importance of various other organisms in deciphering the mechanisms and principles of circadian biology. Circadian rhythms have been studied for centuries, but only recently, a mole- lar understanding of this process has emerged. This has taken research on circadian clocks from mystic phenomenology to a mechanistic level; chains of molecular events can describe phenomena with remarkable accuracy. Nevertheless, current models of the functioning of circadian clocks are still rudimentary. This is not due to the faultiness of discovered mechanisms, but due to the lack of undiscovered processes involved in contributing to circadian rhythmicity. We know for example, that the general circadian mechanism is not regulated equally in all tissues of m- mals. Hence, a lot still needs to be discovered to get a full understanding of cir- dian rhythms at the systems level. In this respect, technology has advanced at high speed in the last years and provided us with data illustrating the sheer complexity of regulation of physiological processes in organisms. To handle this information, computer aided integration of the results is of utmost importance in order to d- cover novel concepts that ultimately need to be tested experimentally.
Download or read book Systems Biology written by Edda Klipp and published by John Wiley & Sons. This book was released on 2016-03-28 with total page 504 pages. Available in PDF, EPUB and Kindle. Book excerpt: This advanced textbook is tailored for an introductory course in Systems Biology and is well-suited for biologists as well as engineers and computer scientists. It comes with student-friendly reading lists and a companion website featuring a short exam prep version of the book and educational modeling programs. The text is written in an easily accessible style and includes numerous worked examples and study questions in each chapter. For this edition, a section on medical systems biology has been included.
Download or read book Glial Neuronal Signaling written by Glenn I. Hatton and published by Springer Science & Business Media. This book was released on 2004-05-31 with total page 460 pages. Available in PDF, EPUB and Kindle. Book excerpt: Glial Neuronal Signaling fills a need for a monograph/textbook to be used in advanced courses or graduate seminars aimed at exploring glial-neuronal interactions. Even experts in the field will find useful the authoritative summaries of evidence on ion channels and transporters in glia, genes involved in signaling during development, metabolic cross talk and cooperation between astrocytes and neurons, to mention but a few of the timely summaries of a wide range of glial-neuronal interactions. The chapters are written by the top researchers in the field of glial-neuronal signaling, and cover the most current advances in this field. The book will also be of value to the workers in the field of cell biology in general. When we think about the brain we usually think about neurons. Although there are 100 billion neurons in mammalian brain, these cells do not constitute a majority. Quite the contrary, glial cells and other non-neuronal cells are 10-50 times more numerous than neurons. This book is meant to integrate the emerging body of information that has been accumulating, revealing the interactive nature of the brain's two major neural cell types, neurons and glia, in brain function.
Download or read book Nanomaterials for Magnetic and Optical Hyperthermia Applications written by Raluca Maria Fratila and published by Elsevier. This book was released on 2018-11-30 with total page 386 pages. Available in PDF, EPUB and Kindle. Book excerpt: Nanomaterials for Magnetic and Optical Hyperthermia Applications focuses on the design, fabrication and characterization of nanomaterials (magnetic, gold and hybrid magnetic-gold nanoparticles) for in vitro and in vivo hyperthermia applications, both as standalone and adjuvant therapy in combination with chemotherapy. The book explores the potential for more effective cancer therapy solutions through the synergistic use of nanostructured materials as magnetic and optical hyperthermia agents and targeted drug delivery vehicles, while also discussing the challenges related to their toxicity, regulatory and translational aspects. In particular, the book focuses on the design, synthesis, biofunctionalization and characterization of nanomaterials employed for magnetic and optical hyperthermia. This book will be an important reference resource for scientists working in the areas of biomaterials and biomedicine seeking to learn about the potential of nanomaterials to provide hyperthermia solutions. Explores the design of efficient nanomaterials for hyperthermia applications, allowing readers to make informed materials selection decisions Discusses the biofunctionalization of a range of nanomaterials and their interaction with living systems Provides an overview of the current clinical applications of nanomaterials in hyperthermia treatment
Download or read book Binaural Hearing written by Ruth Y. Litovsky and published by Springer Nature. This book was released on 2021-03-01 with total page 425 pages. Available in PDF, EPUB and Kindle. Book excerpt: The field of Binaural Hearing involves studies of auditory perception, physiology, and modeling, including normal and abnormal aspects of the system. Binaural processes involved in both sound localization and speech unmasking have gained a broader interest and have received growing attention in the published literature. The field has undergone some significant changes. There is now a much richer understanding of the many aspects that comprising binaural processing, its role in development, and in success and limitations of hearing-aid and cochlear-implant users. The goal of this volume is to provide an up-to-date reference on the developments and novel ideas in the field of binaural hearing. The primary readership for the volume is expected to be academic specialists in the diverse fields that connect with psychoacoustics, neuroscience, engineering, psychology, audiology, and cochlear implants. This volume will serve as an important resource by way of introduction to the field, in particular for graduate students, postdoctoral scholars, the faculty who train them and clinicians.
Download or read book Post harvest Pathology written by Dov Prusky and published by Springer Science & Business Media. This book was released on 2009-12-01 with total page 212 pages. Available in PDF, EPUB and Kindle. Book excerpt: As a collection of papers that includes material presented at the 2008 International Congress for Plant Pathology, this text features research right at the leading edge of the field. The latest findings are particularly crucial in their implications for fruit production; an important market sector where in some areas up to 50 per cent of the crop can be lost after harvest. While post-harvest fruit treatments with fungicides are the most effective means to reduce decay, rising concerns about toxicity have led to the development of alternative approaches to disease control, including biological methods, the subject of three chapters of this book. With several new techniques requiring modification of current post-harvest practices, it is more important than ever to stay abreast of the latest information. Other chapters deal with the mechanisms of host fruit and vegetable resistance, fungal pathogenicity factors and their relationship with the host response, and a number of subjects related to disease assessments before harvest as well as their relationship to the postharvest treatment of fruits and vegetables. The book also includes several useful case studies of crops such as kiwifruit and peaches, where different approaches at the pre- and post-harvest levels are combined to good effect. With food production issues gaining an ever higher profile internationally, this text makes an important contribution to the debate.
Download or read book Molecular Genetics and Developmental Biology written by Society of General Physiologists and published by Prentice Hall. This book was released on 1972 with total page 504 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Behavior of Lizards written by Vincent Bels and published by CRC Press. This book was released on 2019-02-06 with total page 427 pages. Available in PDF, EPUB and Kindle. Book excerpt: Key features: Presents a contemporary snapshot of the mechanisms underlying the evolution and adaptation of behavior Explores how genetics, epigenetics, development, and environment shape behavior Discusses a broad range of behavioral repertoires and responses, including those related to thermoregulatory, foraging, predatory, displaying, social and escape strategies. Examines physiological and sensory mechanisms Covers the effects of various aspects of global change on behavior, with chapters that focus on the impacts of climate change on hydroregulatory behavior and behavioral responses to the effects of habitat alteration resulting from human-mediated change and colonization by invasive species. Lizards serve as focal organisms for many of biological questions related to evolution, ecology, physiology, and morphology. They are studied at multiple spatial and temporal scales, from the individual to the community level. This book, authored by expert contributors from around the world, explores behaviors underlying the evolution and adaptation of these organisms. It covers conceptual, empirical, and methodological approaches to the understanding of the role that natural and sexual selection play in molding the behavioral traits of lizards. This thorough, illustrated reference should stimulate discussion of the conceptual and methodological approaches for studying the behavioral traits of these fascinating and highly diverse vertebrates.
