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Scalable Optimization Algorithms For High Throughput Genomic Data
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Book Synopsis Advances in Stochastic and Deterministic Global Optimization by : Panos M. Pardalos
Download or read book Advances in Stochastic and Deterministic Global Optimization written by Panos M. Pardalos and published by Springer. This book was released on 2016-11-04 with total page 300 pages. Available in PDF, EPUB and Kindle. Book excerpt: Current research results in stochastic and deterministic global optimization including single and multiple objectives are explored and presented in this book by leading specialists from various fields. Contributions include applications to multidimensional data visualization, regression, survey calibration, inventory management, timetabling, chemical engineering, energy systems, and competitive facility location. Graduate students, researchers, and scientists in computer science, numerical analysis, optimization, and applied mathematics will be fascinated by the theoretical, computational, and application-oriented aspects of stochastic and deterministic global optimization explored in this book. This volume is dedicated to the 70th birthday of Antanas Žilinskas who is a leading world expert in global optimization. Professor Žilinskas's research has concentrated on studying models for the objective function, the development and implementation of efficient algorithms for global optimization with single and multiple objectives, and application of algorithms for solving real-world practical problems.
Book Synopsis Enterprise Business Modeling, Optimization Techniques, and Flexible Information Systems by : Papajorgji, Petraq
Download or read book Enterprise Business Modeling, Optimization Techniques, and Flexible Information Systems written by Papajorgji, Petraq and published by IGI Global. This book was released on 2013-04-30 with total page 252 pages. Available in PDF, EPUB and Kindle. Book excerpt: Many factors can impact large-scale enterprise management systems, and maintaining these systems can be a complicated and challenging process. Therefore, businesses can benefit from an assortment of models and management styles to track and collect data for processes. Enterprise Business Modeling, Optimization Techniques, and Flexible Information Systems supplies a wide array of research on the intersections of business modeling, information systems, and optimization techniques. These various business models and structuring methods are proposed to provide ideas, methods, and points of view for managers, practitioners, entrepreneurs, and researchers on how to improve business processes.
Book Synopsis High-Throughput Field Phenotyping to Advance Precision Agriculture and Enhance Genetic Gain, Volume II by : Andreas Hund
Download or read book High-Throughput Field Phenotyping to Advance Precision Agriculture and Enhance Genetic Gain, Volume II written by Andreas Hund and published by Frontiers Media SA. This book was released on 2024-03-01 with total page 161 pages. Available in PDF, EPUB and Kindle. Book excerpt: This Research Topic is part of the High-Throughput Field Phenotyping to Advance Precision Agriculture and Enhance Genetic Gain series. The discipline of “High Throughput Field Phenotyping” (HTFP) has gained momentum in the last decade. HTFP includes a wide range of disciplines such as plant science, agronomy, remote sensing, and genetics; as well as biochemistry, imaging, computation, agricultural engineering, and robotics. High throughput technologies have substantially increased our ability to monitor and quantify field experiments and breeding nurseries at multiple scales. HTFP technology can not only rapidly and cost-effectively replace tedious and subjective ratings in the field, but can also unlock the potential of new, latent phenotypes representing underlying biological function. These advances have also provided the ability to follow crop growth and development across seasons at high and previously inaccessible spatial and temporal resolutions. By combining these data with measurements of all environmental factors affecting plant growth and yield (“Envirotyping”), genotypic-specific reaction norms and phenotypic plasticity may be elucidated.
Download or read book Cumulated Index Medicus written by and published by . This book was released on 1996 with total page 1354 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Handbook of Evolutionary Computation by : Thomas Baeck
Download or read book Handbook of Evolutionary Computation written by Thomas Baeck and published by CRC Press. This book was released on 1997-01-01 with total page 1130 pages. Available in PDF, EPUB and Kindle. Book excerpt: Many scientists and engineers now use the paradigms of evolutionary computation (genetic algorithms, evolution strategies, evolutionary programming, genetic programming, classifier systems, and combinations or hybrids) to tackle problems that are either intractable or unrealistically time consuming to solve through traditional computational strategies. The Handbook of Evolutionary Computation addresses the need for a comprehensive source of reference in the maturing field of evolutionary computation. The handbook is available in a looseleaf print format and an online format.
Book Synopsis High Performance Computing by : Ponnuswamy Sadayappan
Download or read book High Performance Computing written by Ponnuswamy Sadayappan and published by . This book was released on 2020 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes the refereed proceedings of the 35th International Conference on High Performance Computing, ISC High Performance 2020, held in Frankfurt/Main, Germany, in June 2020.* The 27 revised full papers presented were carefully reviewed and selected from 87 submissions. The papers cover a broad range of topics such as architectures, networks & infrastructure; artificial intelligence and machine learning; data, storage & visualization; emerging technologies; HPC algorithms; HPC applications; performance modeling & measurement; programming models & systems software. *The conference was held virtually due to the COVID-19 pandemic. Chapters "Scalable Hierarchical Aggregation and Reduction Protocol (SHARP) Streaming-Aggregation Hardware Design and Evaluation", "Solving Acoustic Boundary Integral Equations Using High Performance Tile Low-Rank LU Factorization", "Scaling Genomics Data Processing with Memory-Driven Computing to Accelerate Computational Biology", "Footprint-Aware Power Capping for Hybrid Memory Based Systems", and "Pattern-Aware Staging for Hybrid Memory Systems" are available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.
Book Synopsis Computational Genomics with R by : Altuna Akalin
Download or read book Computational Genomics with R written by Altuna Akalin and published by CRC Press. This book was released on 2020-12-16 with total page 463 pages. Available in PDF, EPUB and Kindle. Book excerpt: Computational Genomics with R provides a starting point for beginners in genomic data analysis and also guides more advanced practitioners to sophisticated data analysis techniques in genomics. The book covers topics from R programming, to machine learning and statistics, to the latest genomic data analysis techniques. The text provides accessible information and explanations, always with the genomics context in the background. This also contains practical and well-documented examples in R so readers can analyze their data by simply reusing the code presented. As the field of computational genomics is interdisciplinary, it requires different starting points for people with different backgrounds. For example, a biologist might skip sections on basic genome biology and start with R programming, whereas a computer scientist might want to start with genome biology. After reading: You will have the basics of R and be able to dive right into specialized uses of R for computational genomics such as using Bioconductor packages. You will be familiar with statistics, supervised and unsupervised learning techniques that are important in data modeling, and exploratory analysis of high-dimensional data. You will understand genomic intervals and operations on them that are used for tasks such as aligned read counting and genomic feature annotation. You will know the basics of processing and quality checking high-throughput sequencing data. You will be able to do sequence analysis, such as calculating GC content for parts of a genome or finding transcription factor binding sites. You will know about visualization techniques used in genomics, such as heatmaps, meta-gene plots, and genomic track visualization. You will be familiar with analysis of different high-throughput sequencing data sets, such as RNA-seq, ChIP-seq, and BS-seq. You will know basic techniques for integrating and interpreting multi-omics datasets. Altuna Akalin is a group leader and head of the Bioinformatics and Omics Data Science Platform at the Berlin Institute of Medical Systems Biology, Max Delbrück Center, Berlin. He has been developing computational methods for analyzing and integrating large-scale genomics data sets since 2002. He has published an extensive body of work in this area. The framework for this book grew out of the yearly computational genomics courses he has been organizing and teaching since 2015.
Book Synopsis Advances in Artificial Life by : György Kampis
Download or read book Advances in Artificial Life written by György Kampis and published by Springer Science & Business Media. This book was released on 2011-05-24 with total page 469 pages. Available in PDF, EPUB and Kindle. Book excerpt: The two-volume set LNAI 5777 and LNAI 5778 constitutes the thoroughly refereed post-conference proceedings of the 10th European Conference, ECAl 2009, held in Budapest, Hungary, in September 2009. The 141 revised full papers presented were carefully reviewed and selected from161 submissions. The papers are organized in topical sections on evolutionary developmental biology and hardware, evolutionary robotics, protocells and prebiotic chemistry, systems biology, artificial chemistry and neuroscience, group selection, ecosystems and evolution, algorithms and evolutionary computation, philosophy and arts, optimization, action, and agent connectivity, and swarm intelligence.
Author :National Academies of Sciences, Engineering, and Medicine Publisher :National Academies Press ISBN 13 :0309676738 Total Pages :201 pages Book Rating :4.3/5 (96 download)
Book Synopsis Next Steps for Functional Genomics by : National Academies of Sciences, Engineering, and Medicine
Download or read book Next Steps for Functional Genomics written by National Academies of Sciences, Engineering, and Medicine and published by National Academies Press. This book was released on 2020-12-18 with total page 201 pages. Available in PDF, EPUB and Kindle. Book excerpt: One of the holy grails in biology is the ability to predict functional characteristics from an organism's genetic sequence. Despite decades of research since the first sequencing of an organism in 1995, scientists still do not understand exactly how the information in genes is converted into an organism's phenotype, its physical characteristics. Functional genomics attempts to make use of the vast wealth of data from "-omics" screens and projects to describe gene and protein functions and interactions. A February 2020 workshop was held to determine research needs to advance the field of functional genomics over the next 10-20 years. Speakers and participants discussed goals, strategies, and technical needs to allow functional genomics to contribute to the advancement of basic knowledge and its applications that would benefit society. This publication summarizes the presentations and discussions from the workshop.
Book Synopsis Probabilistic Graphical Models and Algorithms for Genomic Analysis by : Poe Xing
Download or read book Probabilistic Graphical Models and Algorithms for Genomic Analysis written by Poe Xing and published by . This book was released on 2004 with total page 532 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Big Data Optimization: Recent Developments and Challenges by : Ali Emrouznejad
Download or read book Big Data Optimization: Recent Developments and Challenges written by Ali Emrouznejad and published by Springer. This book was released on 2016-05-26 with total page 492 pages. Available in PDF, EPUB and Kindle. Book excerpt: The main objective of this book is to provide the necessary background to work with big data by introducing some novel optimization algorithms and codes capable of working in the big data setting as well as introducing some applications in big data optimization for both academics and practitioners interested, and to benefit society, industry, academia, and government. Presenting applications in a variety of industries, this book will be useful for the researchers aiming to analyses large scale data. Several optimization algorithms for big data including convergent parallel algorithms, limited memory bundle algorithm, diagonal bundle method, convergent parallel algorithms, network analytics, and many more have been explored in this book.
Book Synopsis Genomics in the Cloud by : Geraldine A. Van der Auwera
Download or read book Genomics in the Cloud written by Geraldine A. Van der Auwera and published by O'Reilly Media. This book was released on 2020-04-02 with total page 496 pages. Available in PDF, EPUB and Kindle. Book excerpt: Data in the genomics field is booming. In just a few years, organizations such as the National Institutes of Health (NIH) will host 50+ petabytes—or over 50 million gigabytes—of genomic data, and they’re turning to cloud infrastructure to make that data available to the research community. How do you adapt analysis tools and protocols to access and analyze that volume of data in the cloud? With this practical book, researchers will learn how to work with genomics algorithms using open source tools including the Genome Analysis Toolkit (GATK), Docker, WDL, and Terra. Geraldine Van der Auwera, longtime custodian of the GATK user community, and Brian O’Connor of the UC Santa Cruz Genomics Institute, guide you through the process. You’ll learn by working with real data and genomics algorithms from the field. This book covers: Essential genomics and computing technology background Basic cloud computing operations Getting started with GATK, plus three major GATK Best Practices pipelines Automating analysis with scripted workflows using WDL and Cromwell Scaling up workflow execution in the cloud, including parallelization and cost optimization Interactive analysis in the cloud using Jupyter notebooks Secure collaboration and computational reproducibility using Terra
Book Synopsis Introduction to High Performance Computing for Scientists and Engineers by : Georg Hager
Download or read book Introduction to High Performance Computing for Scientists and Engineers written by Georg Hager and published by CRC Press. This book was released on 2010-07-02 with total page 350 pages. Available in PDF, EPUB and Kindle. Book excerpt: Written by high performance computing (HPC) experts, Introduction to High Performance Computing for Scientists and Engineers provides a solid introduction to current mainstream computer architecture, dominant parallel programming models, and useful optimization strategies for scientific HPC. From working in a scientific computing center, the author
Book Synopsis Analysis of Biological Data by : Sanghamitra Bandyopadhyay
Download or read book Analysis of Biological Data written by Sanghamitra Bandyopadhyay and published by World Scientific. This book was released on 2007 with total page 353 pages. Available in PDF, EPUB and Kindle. Book excerpt: Bioinformatics, a field devoted to the interpretation and analysis of biological data using computational techniques, has evolved tremendously in recent years due to the explosive growth of biological information generated by the scientific community. Soft computing is a consortium of methodologies that work synergistically and provides, in one form or another, flexible information processing capabilities for handling real-life ambiguous situations. Several research articles dealing with the application of soft computing tools to bioinformatics have been published in the recent past; however, they are scattered in different journals, conference proceedings and technical reports, thus causing inconvenience to readers, students and researchers. This book, unique in its nature, is aimed at providing a treatise in a unified framework, with both theoretical and experimental results, describing the basic principles of soft computing and demonstrating the various ways in which they can be used for analyzing biological data in an efficient manner. Interesting research articles from eminent scientists around the world are brought together in a systematic way such that the reader will be able to understand the issues and challenges in this domain, the existing ways of tackling them, recent trends, and future directions. This book is the first of its kind to bring together two important research areas, soft computing and bioinformatics, in order to demonstrate how the tools and techniques in the former can be used for efficiently solving several problems in the latter. Sample Chapter(s). Chapter 1: Bioinformatics: Mining the Massive Data from High Throughput Genomics Experiments (160 KB). Contents: Overview: Bioinformatics: Mining the Massive Data from High Throughput Genomics Experiments (H Tang & S Kim); An Introduction to Soft Computing (A Konar & S Das); Biological Sequence and Structure Analysis: Reconstructing Phylogenies with Memetic Algorithms and Branch-and-Bound (J E Gallardo et al.); Classification of RNA Sequences with Support Vector Machines (J T L Wang & X Wu); Beyond String Algorithms: Protein Sequence Analysis Using Wavelet Transforms (A Krishnan & K-B Li); Filtering Protein Surface Motifs Using Negative Instances of Active Sites Candidates (N L Shrestha & T Ohkawa); Distill: A Machine Learning Approach to Ab Initio Protein Structure Prediction (G Pollastri et al.); In Silico Design of Ligands Using Properties of Target Active Sites (S Bandyopadhyay et al.); Gene Expression and Microarray Data Analysis: Inferring Regulations in a Genomic Network from Gene Expression Profiles (N Noman & H Iba); A Reliable Classification of Gene Clusters for Cancer Samples Using a Hybrid Multi-Objective Evolutionary Procedure (K Deb et al.); Feature Selection for Cancer Classification Using Ant Colony Optimization and Support Vector Machines (A Gupta et al.); Sophisticated Methods for Cancer Classification Using Microarray Data (S-B Cho & H-S Park); Multiobjective Evolutionary Approach to Fuzzy Clustering of Microarray Data (A Mukhopadhyay et al.). Readership: Graduate students and researchers in computer science, bioinformatics, computational and molecular biology, artificial intelligence, data mining, machine learning, electrical engineering, system science; researchers in pharmaceutical industries.
Book Synopsis Association Analysis Techniques and Applications in Bioinformatics by : Qingfeng Chen
Download or read book Association Analysis Techniques and Applications in Bioinformatics written by Qingfeng Chen and published by Springer Nature. This book was released on with total page 396 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Genetic Algorithms in Search, Optimization, and Machine Learning by : David Edward Goldberg
Download or read book Genetic Algorithms in Search, Optimization, and Machine Learning written by David Edward Goldberg and published by Addison-Wesley Professional. This book was released on 1989 with total page 436 pages. Available in PDF, EPUB and Kindle. Book excerpt: A gentle introduction to genetic algorithms. Genetic algorithms revisited: mathematical foundations. Computer implementation of a genetic algorithm. Some applications of genetic algorithms. Advanced operators and techniques in genetic search. Introduction to genetics-based machine learning. Applications of genetics-based machine learning. A look back, a glance ahead. A review of combinatorics and elementary probability. Pascal with random number generation for fortran, basic, and cobol programmers. A simple genetic algorithm (SGA) in pascal. A simple classifier system(SCS) in pascal. Partition coefficient transforms for problem-coding analysis.
Book Synopsis Synthetic Biology-Guided Metabolic Engineering by : Rodrigo Ledesma-Amaro
Download or read book Synthetic Biology-Guided Metabolic Engineering written by Rodrigo Ledesma-Amaro and published by Frontiers Media SA. This book was released on 2020-05-05 with total page 142 pages. Available in PDF, EPUB and Kindle. Book excerpt: This eBook is a collection of articles from a Frontiers Research Topic. Frontiers Research Topics are very popular trademarks of the Frontiers Journals Series: they are collections of at least ten articles, all centered on a particular subject. With their unique mix of varied contributions from Original Research to Review Articles, Frontiers Research Topics unify the most influential researchers, the latest key findings and historical advances in a hot research area! Find out more on how to host your own Frontiers Research Topic or contribute to one as an author by contacting the Frontiers Editorial Office: frontiersin.org/about/contact.
