Download or read book Polytopes in Computational Biology written by Peter McKinley Huggins and published by . This book was released on 2008 with total page 292 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Algebraic Statistics for Computational Biology written by L. Pachter and published by Cambridge University Press. This book was released on 2005-08-22 with total page 440 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book, first published in 2005, offers an introduction to the application of algebraic statistics to computational biology.
Download or read book Algebraic and Combinatorial Computational Biology written by Raina Robeva and published by Academic Press. This book was released on 2018-10-08 with total page 436 pages. Available in PDF, EPUB and Kindle. Book excerpt: Algebraic and Combinatorial Computational Biology introduces students and researchers to a panorama of powerful and current methods for mathematical problem-solving in modern computational biology. Presented in a modular format, each topic introduces the biological foundations of the field, covers specialized mathematical theory, and concludes by highlighting connections with ongoing research, particularly open questions. The work addresses problems from gene regulation, neuroscience, phylogenetics, molecular networks, assembly and folding of biomolecular structures, and the use of clustering methods in biology. A number of these chapters are surveys of new topics that have not been previously compiled into one unified source. These topics were selected because they highlight the use of technique from algebra and combinatorics that are becoming mainstream in the life sciences. - Integrates a comprehensive selection of tools from computational biology into educational or research programs - Emphasizes practical problem-solving through multiple exercises, projects and spinoff computational simulations - Contains scalable material for use in undergraduate and graduate-level classes and research projects - Introduces the reader to freely-available professional software - Supported by illustrative datasets and adaptable computer code
Download or read book Implementing Polytope Projects for Smart Systems written by Octavian Iordache and published by Springer. This book was released on 2017-01-25 with total page 197 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents a domain of extreme industrial and scientific interest: the study of smart systems and structures. It presents polytope projects as comprehensive physical and cognitive architectures that support the investigation, fabrication and implementation of smart systems and structures. These systems feature multifunctional components that can perform sensing, control, and actuation. In light of the fact that devices, tools, methodologies and organizations based on electronics and information technology for automation, specific to the third industrial revolution, are increasingly reaching their limits, it is essential that smart systems be implemented in industry. Polytope projects facilitate the utilization of smart systems and structures as key elements of the fourth industrial revolution. The book begins by presenting polytope projects as a reference architecture for cyber-physical systems and smart systems, before addressing industrial process synthesis in Chapter 2. Flow-sheet trees, cyclic separations and smart configurations for multi-component separations are discussed here. In turn, Chapter 3 highlights periodic features for drug delivery systems and networks of chemical reactions, while Chapter 4 applies conditioned random walks to polymers and smart materials structures. Chapter 5 examines self-assembly and self-reconfiguration at different scales from molecular to micro systems. Smart devices and technologies are the focus of chapter 6. Modular micro reactor systems and timed automata are examined in selected case studies. Chapter 7 focuses on inferential engineering designs, concept-knowledge, relational concept analysis and model driven architecture, while Chapter 8 puts the spotlight on smart manufacturing, industry 4.0, reference architectures and models for new product development and testing. Lastly, Chapter 9 highlights the polytope projects methodology and the prospects for smart systems and structures. Focusing on process engineering and mathematical modeling for the fourth industrial revolution, the book offers a unique resource for engineers, scientists and entrepreneurs working in chemical, biochemical, pharmaceutical, materials science or systems chemistry, students in various domains of production and engineering, and applied mathematicians.
Download or read book Automated Reasoning for Systems Biology and Medicine written by Pietro Liò and published by Springer. This book was released on 2019-06-11 with total page 471 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents outstanding contributions in an exciting, new and multidisciplinary research area: the application of formal, automated reasoning techniques to analyse complex models in systems biology and systems medicine. Automated reasoning is a field of computer science devoted to the development of algorithms that yield trustworthy answers, providing a basis of sound logical reasoning. For example, in the semiconductor industry formal verification is instrumental to ensuring that chip designs are free of defects (or “bugs”). Over the past 15 years, systems biology and systems medicine have been introduced in an attempt to understand the enormous complexity of life from a computational point of view. This has generated a wealth of new knowledge in the form of computational models, whose staggering complexity makes manual analysis methods infeasible. Sound, trusted, and automated means of analysing the models are thus required in order to be able to trust their conclusions. Above all, this is crucial to engineering safe biomedical devices and to reducing our reliance on wet-lab experiments and clinical trials, which will in turn produce lower economic and societal costs. Some examples of the questions addressed here include: Can we automatically adjust medications for patients with multiple chronic conditions? Can we verify that an artificial pancreas system delivers insulin in a way that ensures Type 1 diabetic patients never suffer from hyperglycaemia or hypoglycaemia? And lastly, can we predict what kind of mutations a cancer cell is likely to undergo? This book brings together leading researchers from a number of highly interdisciplinary areas, including: · Parameter inference from time series · Model selection · Network structure identification · Machine learning · Systems medicine · Hypothesis generation from experimental data · Systems biology, systems medicine, and digital pathology · Verification of biomedical devices “This book presents a comprehensive spectrum of model-focused analysis techniques for biological systems ...an essential resource for tracking the developments of a fast moving field that promises to revolutionize biology and medicine by the automated analysis of models and data.”Prof Luca Cardelli FRS, University of Oxford
Download or read book Foundations of Theoretical Approaches in Systems Biology written by Alberto Marin-Sanguino and published by Frontiers Media SA. This book was released on 2019-01-11 with total page 216 pages. Available in PDF, EPUB and Kindle. Book excerpt: If biology in the 20th century was characterized by an explosion of new technologies and experimental methods, that of the 21st has seen an equally exuberant proliferation of mathematical and computational methods that attempt to systematize and explain the abundance of available data. As we live through the consolidation of a new paradigm where experimental data goes hand in hand with computational analysis, we contemplate the challenge of fusing these two aspects of the new biology into a consistent theoretical framework. Whether systems biology will survive as a field or be washed away by the tides of future fads will ultimately depend on its success to achieve this type of synthesis. The famous quote attributed to Kurt Lewin comes to mind: "there is nothing more practical than a good theory". This book presents a wide assortment of articles on systems biology in an attempt to capture the variety of current methods in systems biology and show how they can help to find answers to the challenges of modern biology.
Download or read book Systems Biology written by Andreas Kremling and published by CRC Press. This book was released on 2013-11-12 with total page 382 pages. Available in PDF, EPUB and Kindle. Book excerpt: Drawing on the latest research in the field, Systems Biology: Mathematical Modeling and Model Analysis presents many methods for modeling and analyzing biological systems, in particular cellular systems. It shows how to use predictive mathematical models to acquire and analyze knowledge about cellular systems. It also explores how the models are systematically applied in biotechnology. The first part of the book introduces biological basics, such as metabolism, signaling, gene expression, and control as well as mathematical modeling fundamentals, including deterministic models and thermodynamics. The text also discusses linear regression methods, explains the differences between linear and nonlinear regression, and illustrates how to determine input variables to improve estimation accuracy during experimental design. The second part covers intracellular processes, including enzymatic reactions, polymerization processes, and signal transduction. The author highlights the process–function–behavior sequence in cells and shows how modeling and analysis of signal transduction units play a mediating role between process and function. The third part presents theoretical methods that address the dynamics of subsystems and the behavior near a steady state. It covers techniques for determining different time scales, sensitivity analysis, structural kinetic modeling, and theoretical control engineering aspects, including a method for robust control. It also explores frequent patterns (motifs) in biochemical networks, such as the feed-forward loop in the transcriptional network of E. coli. Moving on to models that describe a large number of individual reactions, the last part looks at how these cellular models are used in biotechnology. The book also explains how graphs can illustrate the link between two components in large networks with several interactions.
Download or read book Systems Biology written by Edda Klipp and published by John Wiley & Sons. This book was released on 2016-06-27 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 Analysis of Experimental Algorithms written by Ilias Kotsireas and published by Springer Nature. This book was released on 2019-11-14 with total page 575 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes the refereed post-conference proceedings of the Special Event on the Analysis of Experimental Algorithms, SEA2 2019, held in Kalamata, Greece, in June 2019. The 35 revised full papers presented were carefully reviewed and selected from 45 submissions. The papers cover a wide range of topics in both computer science and operations research/mathematical programming. They focus on the role of experimentation and engineering techniques in the design and evaluation of algorithms, data structures, and computational optimization methods.
Download or read book Systems Biology written by Bernhard Palsson and published by Cambridge University Press. This book was released on 2015-01-26 with total page 551 pages. Available in PDF, EPUB and Kindle. Book excerpt: The first comprehensive single-authored textbook on genome-scale models and the bottom-up approach to systems biology.
Download or read book Systems Biology written by Bernhard Ø. Palsson and published by Cambridge University Press. This book was released on 2015-01-26 with total page 551 pages. Available in PDF, EPUB and Kindle. Book excerpt: Recent technological advances have enabled comprehensive determination of the molecular composition of living cells. The chemical interactions between many of these molecules are known, giving rise to genome-scale reconstructed biochemical reaction networks underlying cellular functions. Mathematical descriptions of the totality of these chemical interactions lead to genome-scale models that allow the computation of physiological functions. Reflecting these recent developments, this textbook explains how such quantitative and computable genotype-phenotype relationships are built using a genome-wide basis of information about the gene portfolio of a target organism. It describes how biological knowledge is assembled to reconstruct biochemical reaction networks, the formulation of computational models of biological functions, and how these models can be used to address key biological questions and enable predictive biology. Developed through extensive classroom use, the book is designed to provide students with a solid conceptual framework and an invaluable set of modeling tools and computational approaches.
Download or read book Polytope Projects written by Octavian Iordache and published by CRC Press. This book was released on 2013-10-15 with total page 237 pages. Available in PDF, EPUB and Kindle. Book excerpt: How do you know what works and what doesn't? This book contains case studies highlighting the power of polytope projects for complex problem solving. Any sort of combinational problem characterized by a large variety of possibly complex constructions and deconstructions based on simple building blocks can be studied in a similar way. Although the majority of case studies are related to chemistry, the method is general and equally applicable to other fields for engineering or science.
Download or read book 11th International Conference on Practical Applications of Computational Biology Bioinformatics written by Florentino Fdez-Riverola and published by Springer. This book was released on 2017-06-19 with total page 346 pages. Available in PDF, EPUB and Kindle. Book excerpt: Biological and biomedical research are increasingly driven by experimental techniques that challenge our ability to analyse, process and extract meaningful knowledge from the underlying data. The impressive capabilities of next-generation sequencing technologies, together with novel and constantly evolving, distinct types of omics data technologies, have created an increasingly complex set of challenges for the growing fields of Bioinformatics and Computational Biology. The analysis of the datasets produced and their integration call for new algorithms and approaches from fields such as Databases, Statistics, Data Mining, Machine Learning, Optimization, Computer Science and Artificial Intelligence. Clearly, Biology is more and more a science of information and requires tools from the computational sciences. In the last few years, we have seen the rise of a new generation of interdisciplinary scientists with a strong background in the biological and computational sciences. In this context, the interaction of researchers from different scientific fields is, more than ever, of foremost importance in boosting the research efforts in the field and contributing to the education of a new generation of Bioinformatics scientists. The PACBB’17 conference was intended to contribute to this effort and promote this fruitful interaction, with a technical program that included 39 papers spanning many different sub-fields in Bioinformatics and Computational Biology. Further, the conference promoted the interaction of scientists from diverse research groups and with a distinct background (computer scientists, mathematicians, biologists).
Download or read book Hybrid Systems Biology written by Oded Maler and published by Springer. This book was released on 2015-12-24 with total page 185 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes the thoroughly refereed post-workshop proceedings of the Second International Workshop on Hybrid Systems Biology, HSB 2013, held as part of the ECAL 2013 event, in Taormina, Italy, in September 2013; and the Third International Workshop on Hybrid Systems Biology, HSB 2014, held as part of CAV 2014, in Vienna, Austria, in July 2014. This volume presents 8 full papers together with 2 invited tutorials/surveys from 21 submissions. The HSB 2013 workshop aims at collecting scientists working in the area of hybrid modeling applied to systems biology, in order to discuss about current achieved goals, current challenges and future possible developments. The scope of the HSB 2014 workshop is the general area of dynamical models in biology with an emphasis on hybrid approaches, which are not restricted to a narrow class of mathematical models, and which take advantage of techniques developed separately in different sub-fields. “br> /div
Download or read book Computational Methods in Systems Biology written by Eugenio Cinquemani and published by Springer Nature. This book was released on 2021-09-13 with total page 292 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes the refereed proceedings of the 19th International Conference on Computational Methods in Systems Biology, CMSB 2021, held in Bordeaux, France, September 22–24, 2021.*The 13 full papers and 5 tool papers were carefully reviewed and selected from 32 submissions. The topics of interest include biological process modelling; biological system model verification, validation, analysis, and simulation; high-performance computational systems biology; model inference from experimental data; multi-scale modeling and analysis methods; computational approaches for synthetic biology; machine learning and data-driven approaches; microbial ecology modelling and analysis; methods and protocols for populations and their variability; models, applications, and case studies in systems and synthetic biology. The chapters "Microbial Community Decision Making Models in Batch", "Population design for synthetic gene circuits", "BioFVM-X: An MPI+OpenMP 3-D Simulator for Biological Systems" are published open access under a CC BY license (Creative Commons Attribution 4.0 International License). * The conference was held in a hybrid mode due to the COVID-19 pandemic.
Download or read book Computational Methods in Systems Biology written by Pierpaolo Degano and published by Springer Science & Business Media. This book was released on 2009-08-17 with total page 337 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes the refereed proceedings of the 7th International Conference on Computational Methods in Systems Biology, CMSB 2009, held in Bologna, Italy, August 31 - September 1, 2009. The 18 revised full papers presented together with the summaries of 3 invited papers were carefully reviewed and selected from more than 45 submissions. The papers cover theoretical or applied contributions that are motivated by a biological question focusing on modeling approaches, including process algebra, simulation approaches, analysis methods, in particular model checking and flux analysis, and case studies.
Download or read book Discrete and Computational Geometry written by Boris Aronov and published by Springer Science & Business Media. This book was released on 2003-06-23 with total page 874 pages. Available in PDF, EPUB and Kindle. Book excerpt: An impressive collection of original research papers in discrete and computational geometry, contributed by many leading researchers in these fields, as a tribute to Jacob E. Goodman and Richard Pollack, two of the ‘founding fathers’ of the area, on the occasion of their 2/3 x 100 birthdays. The topics covered by the 41 papers provide professionals and graduate students with a comprehensive presentation of the state of the art in most aspects of discrete and computational geometry, including geometric algorithms, study of arrangements, geometric graph theory, quantitative and algorithmic real algebraic geometry, with important connections to algebraic geometry, convexity, polyhedral combinatorics, the theory of packing, covering, and tiling. The book serves as an invaluable source of reference in this discipline.
