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The science of complex biological networks is transforming research in areas ranging from evolutionary biology to medicine. This is the first book on the subject, providing a comprehensive introduction to complex network science and its biological applications. With contributions from key leaders in both network theory and modern cell biology, this book discusses the network science that is increasingly foundational for systems biology and the quantitative understanding of living systems. It surveys studies in the quantitative structure and dynamics of genetic regulatory networks, molecular networks underlying cellular metabolism, and other fundamental biological processes. The book balances empirical studies and theory to give a unified overview of this interdisciplinary science. It is a key introductory text for graduate students and researchers in physics, biology and biochemistry, and presents ideas and techniques from fields outside the reader's own area of specialization.

Cellular control mechanisms. --- Biological systems. --- System analysis. --- Network analysis --- Network science --- Network theory --- Systems analysis --- System theory --- Mathematical optimization --- Biosystems --- Systems, Biological --- Biology --- Systems biology --- Cell regulation --- Biological control systems --- Cell metabolism --- Philosophy --- Gene regulatory networks. --- Circuits, Gene --- Gene circuits --- Gene modules --- Gene networks --- Genetic regulatory networks --- GRNs (Gene regulatory networks) --- Modules, Gene --- Networks, Gene regulatory --- Networks, Transcriptional --- Regulatory networks, Gene --- Transcriptional networks --- Genetic regulation --- Nucleotide sequence --- Régulation cellulaire --- Systèmes biologiques --- Systèmes, analyse de

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Genomic signal processing (GSP) can be defined as the analysis, processing, and use of genomic signals to gain biological knowledge, and the translation of that knowledge into systems-based applications that can be used to diagnose and treat genetic diseases. Situated at the crossroads of engineering, biology, mathematics, statistics, and computer science, GSP requires the development of both nonlinear dynamical models that adequately represent genomic regulation, and diagnostic and therapeutic tools based on these models. This book facilitates these developments by providing rigorous mathematical definitions and propositions for the main elements of GSP and by paying attention to the validity of models relative to the data. Ilya Shmulevich and Edward Dougherty cover real-world situations and explain their mathematical modeling in relation to systems biology and systems medicine. Genomic Signal Processing makes a major contribution to computational biology, systems biology, and translational genomics by providing a self-contained explanation of the fundamental mathematical issues facing researchers in four areas: classification, clustering, network modeling, and network intervention.

Cellular signal transduction. --- Genetic regulation. --- Genomics --- Signal Transduction --- Gene Expression. --- Gene Regulatory Networks. --- Models, Genetic. --- Models, Statistical. --- Mathematical models. --- genetics. --- Gene regulatory networks. --- Circuits, Gene --- Gene circuits --- Gene modules --- Gene networks --- Genetic regulatory networks --- GRNs (Gene regulatory networks) --- Modules, Gene --- Networks, Gene regulatory --- Networks, Transcriptional --- Regulatory networks, Gene --- Transcriptional networks --- Gene expression --- Gene expression regulation --- Gene regulation --- Biosynthesis --- Cellular control mechanisms --- Molecular genetics --- Cellular information transduction --- Information transduction, Cellular --- Signal transduction, Cellular --- Bioenergetics --- Information theory in biology --- Genetic regulation --- Nucleotide sequence --- Genome research --- Genomes --- Regulation --- Research --- Gene Expression --- Models, Genetic --- Models, Statistical

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Genetic Regulatory Networks (GRNs) in biological organisms are primary engines for cells to enact their engagements with environments, via incessant, continually active coupling. In differentiated multicellular organisms, tremendous complexity has arisen in the course of evolution of life on earth. Engineering and science have so far achieved no working system that can compare with this complexity, depth and scope of organization. Abstracting the dynamics of genetic regulatory control to a computational framework in which artificial GRNs in artificial simulated cells differentiate while connected in a changing topology, it is possible to apply Darwinian evolution in silico to study the capacity of such developmental/differentiated GRNs to evolve. In this volume an evolutionary GRN paradigm is investigated for its evolvability and robustness in models of biological clocks, in simple differentiated multicellularity, and in evolving artificial developing 'organisms' which grow and express an ontogeny starting from a single cell interacting with its environment, eventually including a changing local neighbourhood of other cells. These methods may help us understand the genesis, organization, adaptive plasticity, and evolvability of differentiated biological systems, and may also provide a paradigm for transferring these principles of biology's success to computational and engineering challenges at a scale not previously conceivable.

Gene regulatory networks --- Self-organizing systems --- Engineering & Applied Sciences --- Biology --- Health & Biological Sciences --- Genetics --- Computer Science --- Mathematical models --- Self-organizing systems. --- Mathematical models. --- Learning systems (Automatic control) --- Self-optimizing systems --- Circuits, Gene --- Gene circuits --- Gene modules --- Gene networks --- Genetic regulatory networks --- GRNs (Gene regulatory networks) --- Modules, Gene --- Networks, Gene regulatory --- Networks, Transcriptional --- Regulatory networks, Gene --- Transcriptional networks --- Engineering. --- Artificial intelligence. --- Computational intelligence. --- Computational Intelligence. --- Artificial Intelligence (incl. Robotics). --- Intelligence, Computational --- Artificial intelligence --- Soft computing --- AI (Artificial intelligence) --- Artificial thinking --- Electronic brains --- Intellectronics --- Intelligence, Artificial --- Intelligent machines --- Machine intelligence --- Thinking, Artificial --- Bionics --- Cognitive science --- Digital computer simulation --- Electronic data processing --- Logic machines --- Machine theory --- Simulation methods --- Fifth generation computers --- Neural computers --- Construction --- Industrial arts --- Technology --- Cybernetics --- Intellect --- Learning ability --- Synergetics --- Genetic regulation --- Nucleotide sequence --- Artificial Intelligence.

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Biotechnology --- Gene regulatory networks --- Genomics --- Research --- Systems biology --- Genómica --- Gene Regulatory Networks --- Research Support as Topic --- Systems Biology --- Systems Theory --- Government policy --- Investigación --- Genomics. --- Human Genome Project --- Genome --- Computational biology --- Bioinformatics --- Biological systems --- Molecular biology --- Science --- Science research --- Scientific research --- Information services --- Learning and scholarship --- Methodology --- Research teams --- Genome research --- Genomes --- Molecular genetics --- Circuits, Gene --- Gene circuits --- Gene modules --- Gene networks --- Genetic regulatory networks --- GRNs (Gene regulatory networks) --- Modules, Gene --- Networks, Gene regulatory --- Networks, Transcriptional --- Regulatory networks, Gene --- Transcriptional networks --- Genetic regulation --- Nucleotide sequence --- Chemical engineering --- Genetic engineering --- Seventh Framework Programme (European Commission) --- Sixth Framework Programme (European Commission) --- European Commission. --- EU's Framework Programme for Research and Technological Development --- European Community Framework Programme for Research, Technological Development, and Demonstration --- FP6 --- Sixth FP (European Commission) --- 6. RP --- Sechstes Rahmensprogramm (European Commission) --- Sexto Programa Marco (European Commission) --- 6e programme-cadre (European Commission) --- Sixième programme-cadre (European Commission) --- Sesto programma quadro (European Commission) --- Sixth Framework Programme for Research & Technological Development --- Sixth Framework Research Programme (European Commission) --- Sjette rammeprogram for forskning (European Commission) --- Sjette rammeprogrammet (European Commission) --- Zesde kaderprogramma voor onderzoek van de EU --- Zesde kaderprogramma (European Commission) --- Kuudes tutkimuksen puiteohjelma (European Commission) --- Kuudes puiteohjelma (European Commission) --- 6o Programa-Quadro de Investigação da UE --- Sexto Programa-Quadro de Investigação da UE --- Sexto Programma Quadro (European Commission) --- Sjätte ramprogram för forskning (European Commission) --- Sjätte ramprogrammet (European Commission) --- Seventh Framework Programme for Research and Technological Development --- Framework 7 (European Commission) --- Framework Seven (European Commission) --- FP7 --- Seventh Research Framework Programme (European Commission) --- Comparative Genomics --- Comparative Genomic --- Genomic, Comparative --- Genomics, Comparative