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Dynamics of Gene Networks in Cancer Research

Dynamics of Gene Networks in Cancer Research
Author: Paul Scott
Publisher:
Total Pages: 54
Release: 2017
Genre: Electronic dissertations
ISBN:

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Author's abstract: Cancer prevention treatments are being researched to see if an optimized treatment schedule would decrease the likelihood of a person being diagnosed with cancer. To do this we are looking at genes involved in the cell cycle and how they interact with one another. Through each gene expression during the life of a normal cell we get an understanding of the gene interactions and test these against those of a cancerous cell. First we construct a simplified network model of the normal gene network. Once we have this model we translate it into a transition matrix and force changes on it. Observing the effects of the changes we see the interactions each gene has with other genes within the network. Using the observed interactions we construct a set of differential equations that represent the network dynamics. Using numerical methods and the rough system of equations, we find an approximated system of equations that accurately predicts the dynamics of the normal gene network.


Integration and Visualization of Gene Selection and Gene Regulatory Networks for Cancer Genome

Integration and Visualization of Gene Selection and Gene Regulatory Networks for Cancer Genome
Author: Shruti Mishra
Publisher: Academic Press
Total Pages: 133
Release: 2018-05-09
Genre: Science
ISBN: 0128163577

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Integration and Visualization of Gene Selection and Gene Regulatory Networks for Cancer Genome helps readers identify and select the specific genes causing oncogenes. The book also addresses the validation of the selected genes using various classification techniques and performance metrics, making it a valuable source for cancer researchers, bioinformaticians, and researchers from diverse fields interested in applying systems biology approaches to their studies. Provides well described techniques for the purpose of gene selection/feature selection for the generation of gene subsets Presents and analyzes three different types of gene selection algorithms: Support Vector Machine-Bayesian T-Test-Recursive Feature Elimination (SVM-BT-RFE), Canonical Correlation Analysis-Trace Ratio (CCA-TR), and Signal-To-Noise Ratio-Trace Ratio (SNRTR) Consolidates fundamental knowledge on gene datasets and current techniques on gene regulatory networks into a single resource


Genome Chaos

Genome Chaos
Author: Henry H. Heng
Publisher: Academic Press
Total Pages: 556
Release: 2019-05-25
Genre: Medical
ISBN: 0128136367

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Genome Chaos: Rethinking Genetics, Evolution, and Molecular Medicine transports readers from Mendelian Genetics to 4D-genomics, building a case for genes and genomes as distinct biological entities, and positing that the genome, rather than individual genes, defines system inheritance and represents a clear unit of selection for macro-evolution. In authoring this thought-provoking text, Dr. Heng invigorates fresh discussions in genome theory and helps readers reevaluate their current understanding of human genetics, evolution, and new pathways for advancing molecular and precision medicine. Bridges basic research and clinical application and provides a foundation for re-examining the results of large-scale omics studies and advancing molecular medicine Gathers the most pressing questions in genomic and cytogenomic research Offers alternative explanations to timely puzzles in the field Contains eight evidence-based chapters that discuss 4d-genomics, genes and genomes as distinct biological entities, genome chaos and macro-cellular evolution, evolutionary cytogenetics and cancer, chromosomal coding and fuzzy inheritance, and more


Gene Network Inference

Gene Network Inference
Author: Alberto Fuente
Publisher: Springer Science & Business Media
Total Pages: 135
Release: 2014-01-03
Genre: Science
ISBN: 3642451616

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This book presents recent methods for Systems Genetics (SG) data analysis, applying them to a suite of simulated SG benchmark datasets. Each of the chapter authors received the same datasets to evaluate the performance of their method to better understand which algorithms are most useful for obtaining reliable models from SG datasets. The knowledge gained from this benchmarking study will ultimately allow these algorithms to be used with confidence for SG studies e.g. of complex human diseases or food crop improvement. The book is primarily intended for researchers with a background in the life sciences, not for computer scientists or statisticians.


Cancer Gene Networks

Cancer Gene Networks
Author: Usha Kasid
Publisher:
Total Pages: 248
Release: 2016
Genre: Biomedicine
ISBN: 9781493965397

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Annotation This volume is a valuable and timely resource for a broad audience with interests in basic and translational cancer biology, cancer drug development, as well as in the practice of personalized oncology. 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, Cancer Gene Networks aims to ensure successful results in the further study of this evolving and vital field. Ultimately these efforts will guide development of transformative strategies for cancer diagnosis and treatment.


Debating Cancer

Debating Cancer
Author: Henry H. Heng
Publisher: World Scientific
Total Pages: 463
Release: 2015-10-08
Genre: Science
ISBN: 9814520853

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"Cancer research is at a crossroads. Traditionally, cancer has been thought of as a disease of gene mutation, where the stepwise accumulation of cancer gene mutations is the key, and the identification of common gene mutations has been considered to be essential for diagnosis and treatment. Despite extensive research efforts and accumulated knowledge on cancer genes and pathways, the clinical benefits of this traditional approach have been limited. Recently, cancer genome sequencing has revealed an extensive amount of genetic heterogeneity where the long-expected common mutation drivers have been difficult, if not impossible, to identify. These realities ultimately challenge the conceptual framework of current cancer biology. This book introduces a new concept of genome theory of cancer evolution, in an attempt to unify the field. Many important and representative, but often confusing, questions and paradoxes are critically analyzed. By comparing gene- and genome-based theories, the hidden flaws of many popular viewpoints are addressed. This discussion is intended to initiate a much-needed critical re-evaluation of current cancer research."--


Probabilistic Boolean Networks

Probabilistic Boolean Networks
Author: Ilya Shmulevich
Publisher: SIAM
Total Pages: 276
Release: 2010-01-21
Genre: Mathematics
ISBN: 0898716926

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The first comprehensive treatment of probabilistic Boolean networks, unifying different strands of current research and addressing emerging issues.


Genomic Control Process

Genomic Control Process
Author: Isabelle S. Peter
Publisher: Academic Press
Total Pages: 461
Release: 2015-01-21
Genre: Science
ISBN: 0124047467

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Genomic Control Process explores the biological phenomena around genomic regulatory systems that control and shape animal development processes, and which determine the nature of evolutionary processes that affect body plan. Unifying and simplifying the descriptions of development and evolution by focusing on the causality in these processes, it provides a comprehensive method of considering genomic control across diverse biological processes. This book is essential for graduate researchers in genomics, systems biology and molecular biology seeking to understand deep biological processes which regulate the structure of animals during development. Covers a vast area of current biological research to produce a genome oriented regulatory bioscience of animal life Places gene regulation, embryonic and postembryonic development, and evolution of the body plan in a unified conceptual framework Provides the conceptual keys to interpret a broad developmental and evolutionary landscape with precise experimental illustrations drawn from contemporary literature Includes a range of material, from developmental phenomenology to quantitative and logic models, from phylogenetics to the molecular biology of gene regulation, from animal models of all kinds to evidence of every relevant type Demonstrates the causal power of system-level understanding of genomic control process Conceptually organizes a constellation of complex and diverse biological phenomena Investigates fundamental developmental control system logic in diverse circumstances and expresses these in conceptual models Explores mechanistic evolutionary processes, illuminating the evolutionary consequences of developmental control systems as they are encoded in the genome


Gene Regulatory Networks

Gene Regulatory Networks
Author: Guido Sanguinetti
Publisher: Humana
Total Pages: 0
Release: 2018-12-14
Genre: Science
ISBN: 9781493988815

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This volume explores recent techniques for the computational inference of gene regulatory networks (GRNs). The chapters in this book cover topics such as methods to infer GRNs from time-varying data; the extraction of causal information from biological data; GRN inference from multiple heterogeneous data sets; non-parametric and hybrid statistical methods; the joint inference of differential networks; and mechanistic models of gene regulation dynamics. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, descriptions of recently developed methods for GRN inference, applications of these methods on real and/ or simulated biological data, and step-by-step tutorials on the usage of associated software tools. Cutting-edge and thorough, Gene Regulatory Networks: Methods and Protocols is an essential tool for evaluating the current research needed to further address the common challenges faced by specialists in this field.