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Bioinformatics Algorithms

Bioinformatics Algorithms Book
Author : Ion Mandoiu,Alexander Zelikovsky
Publisher : John Wiley & Sons
Release : 2008-02-25
ISBN : 0470097736
Language : En, Es, Fr & De

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Book Description :

Presents algorithmic techniques for solving problems in bioinformatics, including applications that shed new light on molecular biology This book introduces algorithmic techniques in bioinformatics, emphasizing their application to solving novel problems in post-genomic molecular biology. Beginning with a thought-provoking discussion on the role of algorithms in twenty-first-century bioinformatics education, Bioinformatics Algorithms covers: General algorithmic techniques, including dynamic programming, graph-theoretical methods, hidden Markov models, the fast Fourier transform, seeding, and approximation algorithms Algorithms and tools for genome and sequence analysis, including formal and approximate models for gene clusters, advanced algorithms for non-overlapping local alignments and genome tilings, multiplex PCR primer set selection, and sequence/network motif finding Microarray design and analysis, including algorithms for microarray physical design, missing value imputation, and meta-analysis of gene expression data Algorithmic issues arising in the analysis of genetic variation across human population, including computational inference of haplotypes from genotype data and disease association search in case/control epidemiologic studies Algorithmic approaches in structural and systems biology, including topological and structural classification in biochemistry, and prediction of protein-protein and domain-domain interactions Each chapter begins with a self-contained introduction to a computational problem; continues with a brief review of the existing literature on the subject and an in-depth description of recent algorithmic and methodological developments; and concludes with a brief experimental study and a discussion of open research challenges. This clear and approachable presentation makes the book appropriate for researchers, practitioners, and graduate students alike.

An Introduction to Bioinformatics Algorithms

An Introduction to Bioinformatics Algorithms Book
Author : Neil C. Jones,Pavel A. Pevzner
Publisher : MIT Press
Release : 2004-08-06
ISBN : 0262101068
Language : En, Es, Fr & De

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Book Description :

An introductory text that emphasizes the underlying algorithmic ideas that are driving advances in bioinformatics. This introductory text offers a clear exposition of the algorithmic principles driving advances in bioinformatics. Accessible to students in both biology and computer science, it strikes a unique balance between rigorous mathematics and practical techniques, emphasizing the ideas underlying algorithms rather than offering a collection of apparently unrelated problems. The book introduces biological and algorithmic ideas together, linking issues in computer science to biology and thus capturing the interest of students in both subjects. It demonstrates that relatively few design techniques can be used to solve a large number of practical problems in biology, and presents this material intuitively. An Introduction to Bioinformatics Algorithms is one of the first books on bioinformatics that can be used by students at an undergraduate level. It includes a dual table of contents, organized by algorithmic idea and biological idea; discussions of biologically relevant problems, including a detailed problem formulation and one or more solutions for each; and brief biographical sketches of leading figures in the field. These interesting vignettes offer students a glimpse of the inspirations and motivations for real work in bioinformatics, making the concepts presented in the text more concrete and the techniques more approachable.PowerPoint presentations, practical bioinformatics problems, sample code, diagrams, demonstrations, and other materials can be found at the Author's website.

Bioinformatics Algorithms

Bioinformatics Algorithms Book
Author : Phillip Compeau,Pavel Pevzner
Publisher : Unknown
Release : 2014-05-20
ISBN : 9780990374602
Language : En, Es, Fr & De

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Book Description :

Bioinformatics Algorithms: an Active Learning Approach is one of the first textbooks to emerge from the recent Massive Open Online Course (MOOC) revolution. A light-hearted and analogy-filled companion to the authors' acclaimed MOOC on Coursera, this book presents students with a dynamic approach to learning bioinformatics. It strikes a unique balance between practical challenges in modern biology and fundamental algorithmic ideas, thus capturing the interest of students of both biology and computer science. Each chapter begins with a central biological question, such as "Are There Fragile Regions in the Human Genome?" or "Which DNA Patterns Play the Role of Molecular Clocks?" and then steadily develops the algorithmic sophistication required to answer this question. Hundreds of exercises are incorporated directly into the text as soon as they are needed; readers can test their knowledge through automated coding challenges on the Rosalind Bioinformatics Textbook Track. A website augments the textbook by providing additional educational materials, including video lectures and PowerPoint slides.--Book website.

Bioinformatics Algorithms

Bioinformatics Algorithms Book
Author : Miguel Rocha,Pedro G. Ferreira
Publisher : Academic Press
Release : 2018-06-08
ISBN : 0128125217
Language : En, Es, Fr & De

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Book Description :

Bioinformatics Algorithms: Design and Implementation in Python provides a comprehensive book on many of the most important bioinformatics problems, putting forward the best algorithms and showing how to implement them. The book focuses on the use of the Python programming language and its algorithms, which is quickly becoming the most popular language in the bioinformatics field. Readers will find the tools they need to improve their knowledge and skills with regard to algorithm development and implementation, and will also uncover prototypes of bioinformatics applications that demonstrate the main principles underlying real world applications. Presents an ideal text for bioinformatics students with little to no knowledge of computer programming Based on over 12 years of pedagogical materials used by the authors in their own classrooms Features a companion website with downloadable codes and runnable examples (such as using Jupyter Notebooks) and exercises relating to the book

Bioinformatics Algorithms

Bioinformatics Algorithms Book
Author : Ion Mandoiu,Alexander Zelikovsky
Publisher : John Wiley & Sons
Release : 2008-02-15
ISBN : 9780470253427
Language : En, Es, Fr & De

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Book Description :

Presents algorithmic techniques for solving problems in bioinformatics, including applications that shed new light on molecular biology This book introduces algorithmic techniques in bioinformatics, emphasizing their application to solving novel problems in post-genomic molecular biology. Beginning with a thought-provoking discussion on the role of algorithms in twenty-first-century bioinformatics education, Bioinformatics Algorithms covers: General algorithmic techniques, including dynamic programming, graph-theoretical methods, hidden Markov models, the fast Fourier transform, seeding, and approximation algorithms Algorithms and tools for genome and sequence analysis, including formal and approximate models for gene clusters, advanced algorithms for non-overlapping local alignments and genome tilings, multiplex PCR primer set selection, and sequence/network motif finding Microarray design and analysis, including algorithms for microarray physical design, missing value imputation, and meta-analysis of gene expression data Algorithmic issues arising in the analysis of genetic variation across human population, including computational inference of haplotypes from genotype data and disease association search in case/control epidemiologic studies Algorithmic approaches in structural and systems biology, including topological and structural classification in biochemistry, and prediction of protein-protein and domain-domain interactions Each chapter begins with a self-contained introduction to a computational problem; continues with a brief review of the existing literature on the subject and an in-depth description of recent algorithmic and methodological developments; and concludes with a brief experimental study and a discussion of open research challenges. This clear and approachable presentation makes the book appropriate for researchers, practitioners, and graduate students alike.

Bioinformatic Algorithms

Bioinformatic Algorithms Book
Author : Miguel Rocha,Pedro G. Ferreira
Publisher : Academic Press
Release : 2018-02
ISBN : 9780128125205
Language : En, Es, Fr & De

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Book Description :

Bioinformatics Algorithms: Design and Implementation in Python provides a comprehensive book on many of the most important bioinformatics problems, putting forward the best algorithms and showing how to implement them. The book focuses on the use of the Python programming language and its algorithms, which is quickly becoming the most popular language in the bioinformatics field. Readers will find the tools they need to improve their knowledge and skills regarding algorithm development and implementation, and will also uncover prototypes of bioinformatics applications that demonstrate the main principles underlying real world applications. Presents an ideal text for bioinformatics students with little to no knowledge of computer programming Based on over 12 years of pedagogical materials used by the authors in their own classrooms Features a companion website with downloadable codes and runnable examples (such as using Jupyter Notebooks) and exercises relating to the book

Molecular Bioinformatics

Molecular Bioinformatics Book
Author : Steffen Schulze-Kremer
Publisher : Walter de Gruyter
Release : 1996-01-01
ISBN : 3110808919
Language : En, Es, Fr & De

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Book Description :

Download Molecular Bioinformatics book written by Steffen Schulze-Kremer, available in PDF, EPUB, and Kindle, or read full book online anywhere and anytime. Compatible with any devices.

Algorithms in Bioinformatics

Algorithms in Bioinformatics Book
Author : Ben Raphael,Jijun Tang
Publisher : Springer
Release : 2012-08-29
ISBN : 364233122X
Language : En, Es, Fr & De

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Book Description :

This book constitutes the refereed proceedings of the 12th International Workshop on Algorithms in Bioinformatics, WABI 2012, held in Ljubljana, Slovenia, in September 2012. WABI 2012 is one of six workshops which, along with the European Symposium on Algorithms (ESA), constitute the ALGO annual meeting and focuses on algorithmic advances in bioinformatics, computational biology, and systems biology with a particular emphasis on discrete algorithms and machine-learning methods that address important problems in molecular biology. The 35 full papers presented were carefully reviewed and selected from 92 submissions. The papers include algorithms for a variety of biological problems including phylogeny, DNA and RNA sequencing and analysis, protein structure, and others.

Polarity Index in Proteins A Bioinformatics Tool

Polarity Index in Proteins   A Bioinformatics Tool Book
Author : Carlos Polanco
Publisher : Bentham Science Publishers
Release : 2016-06-29
ISBN : 1681082691
Language : En, Es, Fr & De

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Book Description :

Polarity is a physico-chemical property that characterizes the electromagnetic stability of a protein and can be used to predict its plausible pathogenic action. For this reason, polarity is regarded as a major factor in most mathematical-computational algorithms that seek to characterize peptides and proteins. The Polarity Index Method makes it possible to reproduce the main classification of peptide proteins found in different databases, with a high degree of discriminative efficiency. Polarity Index In Proteins is a brief monograph that explains the foundations of the polarity index method and presents examples of the application of this method for identifying the structural and functional relationships of different types of proteins (including cell penetrating peptides and natively unfolded proteins). The monograph is divided into sections that cover basic protein biochemistry, the computational mathematical foundations of the polarity index method, the application of the method on different protein structures, and the evaluation of the results of famous experiments on biogenesis (Miller & Urey, Fox & Harada, Rode) by the same method. Polarity Index In Proteins serves as an essential handbook for students and researchers in the field of bioinformatics, proteomics as well as for studies on the role of proteins in the origin of life.

Bioinformatics Algorithms

Bioinformatics Algorithms Book
Author : C. Kuppuswamy
Publisher : Unknown
Release : 2007
ISBN : 9788178884820
Language : En, Es, Fr & De

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Book Description :

Download Bioinformatics Algorithms book written by C. Kuppuswamy, available in PDF, EPUB, and Kindle, or read full book online anywhere and anytime. Compatible with any devices.

5th International Conference on Practical Applications of Computational Biology Bioinformatics

5th International Conference on Practical Applications of Computational Biology   Bioinformatics Book
Author : Miguel P. Rocha,Juan Manuel Corchado Rodríguez,Florentino Fdez Riverola,Alfonso Valencia
Publisher : Springer Science & Business Media
Release : 2011-03-09
ISBN : 3642199143
Language : En, Es, Fr & De

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Book Description :

The growth in the Bioinformatics and Computational Biology fields over the last few years has been remarkable and the trend is to increase its pace. In fact, the need for computational techniques that can efficiently handle the huge amounts of data produced by the new experimental techniques in Biology is still increasing driven by new advances in Next Generation Sequencing, several types of the so called omics data and image acquisition, just to name a few. The analysis of the datasets that produces and its integration call for new algorithms and approaches from fields such as Databases, Statistics, Data Mining, Machine Learning, Optimization, Computer Science and Artificial Intelligence. Within this scenario of increasing data availability, Systems Biology has also been emerging as an alternative to the reductionist view that dominated biological research in the last decades. Indeed, Biology is more and more a science of information requiring tools from the computational sciences. In the last few years, we have seen the surge of a new generation of interdisciplinary scientists that have 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 boosting the research efforts in the field and contributing to the education of a new generation of Bioinformatics scientists. PACBB‘11 hopes to contribute to this effort promoting this fruitful interaction. PACBB'11 technical program included 50 papers from a submission pool of 78 papers spanning many different sub-fields in Bioinformatics and Computational Biology. Therefore, the conference will certainly have promoted the interaction of scientists from diverse research groups and with a distinct background (computer scientists, mathematicians, biologists). The scientific content will certainly be challenging and will promote the improvement of the work that is being developed by each of the participants.

Algorithms in Bioinformatics

Algorithms in Bioinformatics Book
Author : Rita Casadio
Publisher : Springer Science & Business Media
Release : 2005-09-27
ISBN : 3540290087
Language : En, Es, Fr & De

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Book Description :

This book constitutes the refereed proceedings of the 5th International Workshop on Algorithms in Bioinformatics, WABI 2005, held in Mallorca, Spain, in September 2005 as part of the ALGO 2005 conference meetings. The 34 revised full papers presented were carefully reviewed and selected from 95 submissions. All current issues of algorithms in bioinformatics are addressed with special focus on statistical and probabilistic algorithms in the field of molecular and structural biology. The papers are organized in topical sections on expression (hybrid methods and time patterns), phylogeny (quartets, tree reconciliation, clades and haplotypes), networks, genome rearrangements (transposition model and other models), sequences (strings, multi-alignment and clustering, clustering and representation), and structure (threading and folding).

Biotechnology and Bioinformatics

Biotechnology and Bioinformatics Book
Author : Devarajan Thangadurai,Jeyabalan Sangeetha
Publisher : CRC Press
Release : 2014-07-01
ISBN : 1482239388
Language : En, Es, Fr & De

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Book Description :

Reflecting the interdisciplinary nature of biotechnology, this book covers the role of targeted delivery of polymeric nanodrugs to cancer cells, microbial detoxifying enzymes in bioremediation and bacterial plasmids in antimicrobial resistance. It addresses modern trends such as pharmacogenomics, evaluation of gene expression, recombinant proteins from methylotrophic yeast, identification of novel fermentation inhibitors of bioethanol production, and polyhydroxyalkanoate based biomaterials. The book highlights the practical utility of biotechnology and bioinformatics for bioenergy, production of high value biochemicals, modeling molecular interactions, drug discovery, and personalized medicine.

Bioinformatics Algorithms

Bioinformatics Algorithms Book
Author : Enno Ohlebusch
Publisher : Unknown
Release : 2013
ISBN : 9783000413162
Language : En, Es, Fr & De

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Book Description :

Download Bioinformatics Algorithms book written by Enno Ohlebusch, available in PDF, EPUB, and Kindle, or read full book online anywhere and anytime. Compatible with any devices.

Bioinformatics

Bioinformatics Book
Author : Bertil Schmidt
Publisher : CRC Press
Release : 2010-07-15
ISBN : 1439814899
Language : En, Es, Fr & De

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Book Description :

New sequencing technologies have broken many experimental barriers to genome scale sequencing, leading to the extraction of huge quantities of sequence data. This expansion of biological databases established the need for new ways to harness and apply the astounding amount of available genomic information and convert it into substantive biological

Exploring Bioinformatics

Exploring Bioinformatics Book
Author : Caroline St. Clair,Jonathan E. Visick
Publisher : Jones & Bartlett Publishers
Release : 2013-12-01
ISBN : 128402346X
Language : En, Es, Fr & De

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Book Description :

Thoroughly revised and updated, Exploring Bioinformatics: A Project-Based Approach, Second Edition is intended for an introductory course in bioinformatics at the undergraduate level. Through hands-on projects, students are introduced to current biological problems and then explore and develop bioinformatic solutions to these issues. Each chapter presents a key problem, provides basic biological concepts, introduces computational techniques to address the problem, and guides students through the use of existing web-based tools and software solutions. This progression prepares students to tackle the On-Your-Own Project, where they develop their own software solutions. Topics such as antibiotic resistance, genetic disease, and genome sequencing provide context and relevance to capture student interest.

Bioinformatics Algorithms

Bioinformatics Algorithms Book
Author : Source Wikipedia,Books Llc
Publisher : Books LLC, Wiki Series
Release : 2010
ISBN : 9781156652954
Language : En, Es, Fr & De

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Book Description :

Please note that the content of this book primarily consists of articles available from Wikipedia or other free sources online. Pages: 51. Chapters: Genetic algorithms, Genetic programming, Mutation, BLAST, Pseudo amino acid composition, Smith-Waterman algorithm, Weasel program, Microarray analysis techniques, List of genetic algorithm applications, Needleman-Wunsch algorithm, Neighbor-joining, Neuroevolution of augmenting topologies, Quality control and genetic algorithms, Hirschberg's algorithm, Crossover, Genetic algorithm scheduling, Edge recombination operator, Population-based incremental learning, Fitness approximation, Cultural algorithm, HyperNEAT, Kabsch algorithm, Promoter based genetic algorithm, Clonal Selection Algorithm, Genetic fuzzy systems, Genetic algorithms in economics, Robinson-Foulds metric, Baum-Welch algorithm, Holland's schema theorem, Fitness function, Fitness proportionate selection, Velvet assembler, Quartet distance, Chromosome, Stochastic universal sampling, Tournament selection, Premature convergence, Ukkonen's algorithm, Speciation, Genetic operator, PSI Protein Classifier, Defining length, Genetic memory, Truncation selection, Evolver, Inheritance. Excerpt: In artificial intelligence, genetic programming (GP) is an evolutionary algorithm-based methodology inspired by biological evolution to find computer programs that perform a user-defined task. It is a specialization of genetic algorithms (GA) where each individual is a computer program. It is a machine learning technique used to optimize a population of computer programs according to a fitness landscape determined by a program's ability to perform a given computational task. The goal of having computers automatically solve problems is central to artificial intelligence (AI) machine learning (ML), and the broad area encompassed by what Turing called "machine intelligence" (Turing, 1948). Machine learning pioneer Arthur Samuel, in his 1983 talk entitled "AI: Where It Has Been a...

Algorithms in Bioinformatics

Algorithms in Bioinformatics Book
Author : Paul A. Gagniuc
Publisher : John Wiley & Sons
Release : 2021-08-10
ISBN : 1119697964
Language : En, Es, Fr & De

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Book Description :

ALGORITHMS IN BIOINFORMATICS Explore a comprehensive and insightful treatment of the practical application of bioinformatic algorithms in a variety of fields Algorithms in Bioinformatics: Theory and Implementation delivers a fulsome treatment of some of the main algorithms used to explain biological functions and relationships. It introduces readers to the art of algorithms in a practical manner which is linked with biological theory and interpretation. The book covers many key areas of bioinformatics, including global and local sequence alignment, forced alignment, detection of motifs, Sequence logos, Markov chains or information entropy. Other novel approaches are also described, such as Self-Sequence alignment, Objective Digital Stains (ODSs) or Spectral Forecast and the Discrete Probability Detector (DPD) algorithm. The text incorporates graphical illustrations to highlight and emphasize the technical details of computational algorithms found within, to further the reader’s understanding and retention of the material. Throughout, the book is written in an accessible and practical manner, showing how algorithms can be implemented and used in JavaScript on Internet Browsers. The author has included more than 120 open-source implementations of the material, as well as 33 ready-to-use presentations. The book contains original material that has been class-tested by the author and numerous cases are examined in a biological and medical context. Readers will also benefit from the inclusion of: A thorough introduction to biological evolution, including the emergence of life, classifications and some known theories and molecular mechanisms A detailed presentation of new methods, such as Self-sequence alignment, Objective Digital Stains and Spectral Forecast A treatment of sequence alignment, including local sequence alignment, global sequence alignment and forced sequence alignment with full implementations Discussions of position-specific weight matrices, including the count, weight, relative frequencies, and log-likelihoods matrices A detailed presentation of the methods related to Markov Chains as well as a description of their implementation in Bioinformatics and adjacent fields An examination of information and entropy, including sequence logos and explanations related to their meaning An exploration of the current state of bioinformatics, including what is known and what issues are usually avoided in the field A chapter on philosophical transactions that allows the reader a broader view of the prediction process Native computer implementations in the context of the field of Bioinformatics Extensive worked examples with detailed case studies that point out the meaning of different results Perfect for professionals and researchers in biology, medicine, engineering, and information technology, as well as upper level undergraduate students in these fields, Algorithms in Bioinformatics: Theory and Implementation will also earn a place in the libraries of software engineers who wish to understand how to implement bioinformatic algorithms in their products.

Issues in Bioengineering and Bioinformatics 2011 Edition

Issues in Bioengineering and Bioinformatics  2011 Edition Book
Author : Anonim
Publisher : ScholarlyEditions
Release : 2012-01-09
ISBN : 1464964173
Language : En, Es, Fr & De

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Book Description :

Issues in Bioengineering and Bioinformatics: 2011 Edition is a ScholarlyEditions™ eBook that delivers timely, authoritative, and comprehensive information about Bioengineering and Bioinformatics. The editors have built Issues in Bioengineering and Bioinformatics: 2011 Edition on the vast information databases of ScholarlyNews.™ You can expect the information about Bioengineering and Bioinformatics in this eBook to be deeper than what you can access anywhere else, as well as consistently reliable, authoritative, informed, and relevant. The content of Issues in Bioengineering and Bioinformatics: 2011 Edition has been produced by the world’s leading scientists, engineers, analysts, research institutions, and companies. All of the content is from peer-reviewed sources, and all of it is written, assembled, and edited by the editors at ScholarlyEditions™ and available exclusively from us. You now have a source you can cite with authority, confidence, and credibility. More information is available at http://www.ScholarlyEditions.com/.

WALCOM Algorithms and Computation

WALCOM  Algorithms and Computation Book
Author : Shin-ichi Nakano,Md. Saidur Rahman
Publisher : Springer Science & Business Media
Release : 2008-01-23
ISBN : 354077890X
Language : En, Es, Fr & De

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Book Description :

This book constitutes the refereed proceedings of the Second International Workshop on Algorithms and Computation, WALCOM 2008. It covers bioinformatics algorithms, computational geometry and graph drawing, graph algorithms, and algorithm engineering.