Combinatorial Computational Biology Of Rna

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Combinatorial Computational Biology of RNA

Christian Reidys
Combinatorial Computational Biology of RNA Book PDF

Author : Christian Reidys
Publisher : Springer Science & Business Media
Page : 262 pages
File Size : 53,5 Mb
Release : 2010-10-29
Category : Mathematics
ISBN : 9780387767314

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Combinatorial Computational Biology of RNA by Christian Reidys Pdf

In this monograph, new combinatorial and computational approaches in the study of RNA structures are presented which enhance both mathematics and computational biology. It begins with an introductory chapter, which motivates and sets the background of this research. In the following chapter, all the concepts are systematically developed. The reader will find * integration of more than forty research papers covering topics like, RSK-algorithm, reflection principle, singularity analysis and random graph theory * systematic presentation of the theory of pseudo-knotted RNA structures including their generating function, uniform generation as well as central and discrete limit theorems * computational biology of pseudo-knotted RNA structures, including dynamic programming paradigms and a new folding algorithm * analysis of neutral networks of pseudo knotted RNA structures and their random graph theory, including neutral paths, giant components and connectivity All algorithms presented are freely available through springer.com and implemented in C. A proofs section at the end contains the necessary technicalities. This book will serve graduate students and researchers in the fields of discrete mathematics, mathematical and computational biology. It is suitable as a textbook for a graduate course in mathematical and computational biology.

Algebraic and Combinatorial Computational Biology

Raina Robeva,Matthew Macauley
Algebraic and Combinatorial Computational Biology Book PDF

Author : Raina Robeva,Matthew Macauley
Publisher : Academic Press
Page : 434 pages
File Size : 51,8 Mb
Release : 2018-10-08
Category : Mathematics
ISBN : 9780128140697

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Algebraic and Combinatorial Computational Biology by Raina Robeva,Matthew Macauley Pdf

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

Combinatorial Computational Biology of RNA

Harald Ibach,Hans Lüth
Combinatorial Computational Biology of RNA Book PDF

Author : Harald Ibach,Hans Lüth
Publisher : Springer
Page : 364 pages
File Size : 42,6 Mb
Release : 1993
Category : Computers
ISBN : UOM:39015053977941

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Combinatorial Computational Biology of RNA by Harald Ibach,Hans Lüth Pdf

This introduction to solid-state physics emphasizes both experimental and theoretical aspects of materials science. Three important areas of modern research are treated in particular detail: magnetism, superconductivity, and semiconductor physics. Experimental aspects with examples taken from research areas of current interest are presented in the form of separate panels. This novel format, highly praised by readers of earlier editions, should help to relate the theoretical concepts described in the text to important practical applications. Students will benefit significantly from working through the problems related to each chapter. In many cases these lead into areas outside the scope of the main text and are designed to stimulate further study.

Combinatorial Pattern Matching Algorithms in Computational Biology Using Perl and R

Gabriel Valiente
Combinatorial Pattern Matching Algorithms in Computational Biology Using Perl and R Book PDF

Author : Gabriel Valiente
Publisher : CRC Press
Page : 370 pages
File Size : 54,6 Mb
Release : 2009-04-08
Category : Computers
ISBN : 9781420069747

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Combinatorial Pattern Matching Algorithms in Computational Biology Using Perl and R by Gabriel Valiente Pdf

Emphasizing the search for patterns within and between biological sequences, trees, and graphs, Combinatorial Pattern Matching Algorithms in Computational Biology Using Perl and R shows how combinatorial pattern matching algorithms can solve computational biology problems that arise in the analysis of genomic, transcriptomic, proteomic, metabolomic

Computational Biology

Olivier Gascuel,Marie-France Sagot
Computational Biology Book PDF

Author : Olivier Gascuel,Marie-France Sagot
Publisher : Springer
Page : 170 pages
File Size : 46,9 Mb
Release : 2003-05-15
Category : Computers
ISBN : 9783540457275

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Computational Biology by Olivier Gascuel,Marie-France Sagot Pdf

This book presents a selection of revised full papers accepted for presentation at the First International Conference on Biology, Informatics, and Mathematics, JOBIM 2000, held in Montpellier, France, in May 2000. The 13 papers included in the book were selected after two rounds of reviewing and revision from a total of 67 submissions. Among the topics addressed are algorithms, comparative genomics, evolution, phylogeny, databases, knowledge processing, genome anotation, graph theory, combinatorial mathematics, macromolecular structures, RNA and proteins, metabolic pathways and regulatory networks, and statistics and classification.

Introduction to Computational Biology

Michael S. Waterman
Introduction to Computational Biology Book PDF

Author : Michael S. Waterman
Publisher : CRC Press
Page : 448 pages
File Size : 52,8 Mb
Release : 2018-05-02
Category : Mathematics
ISBN : 9781351437097

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Introduction to Computational Biology by Michael S. Waterman Pdf

Biology is in the midst of a era yielding many significant discoveries and promising many more. Unique to this era is the exponential growth in the size of information-packed databases. Inspired by a pressing need to analyze that data, Introduction to Computational Biology explores a new area of expertise that emerged from this fertile field- the combination of biological and information sciences. This introduction describes the mathematical structure of biological data, especially from sequences and chromosomes. After a brief survey of molecular biology, it studies restriction maps of DNA, rough landmark maps of the underlying sequences, and clones and clone maps. It examines problems associated with reading DNA sequences and comparing sequences to finding common patterns. The author then considers that statistics of pattern counts in sequences, RNA secondary structure, and the inference of evolutionary history of related sequences. Introduction to Computational Biology exposes the reader to the fascinating structure of biological data and explains how to treat related combinatorial and statistical problems. Written to describe mathematical formulation and development, this book helps set the stage for even more, truly interdisciplinary work in biology.

Handbook of Discrete and Combinatorial Mathematics

Kenneth H. Rosen
Handbook of Discrete and Combinatorial Mathematics Book PDF

Author : Kenneth H. Rosen
Publisher : CRC Press
Page : 1612 pages
File Size : 52,9 Mb
Release : 2017-10-19
Category : Mathematics
ISBN : 9781584887812

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Handbook of Discrete and Combinatorial Mathematics by Kenneth H. Rosen Pdf

Handbook of Discrete and Combinatorial Mathematics provides a comprehensive reference volume for mathematicians, computer scientists, engineers, as well as students and reference librarians. The material is presented so that key information can be located and used quickly and easily. Each chapter includes a glossary. Individual topics are covered in sections and subsections within chapters, each of which is organized into clearly identifiable parts: definitions, facts, and examples. Examples are provided to illustrate some of the key definitions, facts, and algorithms. Some curious and entertaining facts and puzzles are also included. Readers will also find an extensive collection of biographies. This second edition is a major revision. It includes extensive additions and updates. Since the first edition appeared in 1999, many new discoveries have been made and new areas have grown in importance, which are covered in this edition.

A Primer in Combinatorics

Alexander Kheyfits
A Primer in Combinatorics Book PDF

Author : Alexander Kheyfits
Publisher : Walter de Gruyter GmbH & Co KG
Page : 348 pages
File Size : 46,7 Mb
Release : 2021-09-07
Category : Mathematics
ISBN : 9783110751246

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A Primer in Combinatorics by Alexander Kheyfits Pdf

The second edition of this well-received textbook is devoted to Combinatorics and Graph Theory, which are cornerstones of Discrete Mathematics. Every section begins with simple model problems. Following their detailed analysis, the reader is led through the derivation of definitions, concepts, and methods for solving typical problems. Theorems then are formulated, proved, and illustrated by more problems of increasing difficulty.

Bioinformatics and RNA

Dolly Sharma,Shailendra Singh,Mamta Mittal
Bioinformatics and RNA Book PDF

Author : Dolly Sharma,Shailendra Singh,Mamta Mittal
Publisher : CRC Press
Page : 149 pages
File Size : 43,8 Mb
Release : 2021-08-17
Category : Mathematics
ISBN : 9781000428339

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Bioinformatics and RNA by Dolly Sharma,Shailendra Singh,Mamta Mittal Pdf

This book offers a unique balance between a basic introductory knowledge of bioinformatics and a detailed study of algorithmic techniques. Bioinformatics and RNA: A Practice-Based Approach is a complete guide on the fundamental concepts, applications, algorithms, protocols, new trends, challenges, and research results in the area of bioinformatics and RNA. The book offers a broad introduction to the explosively growing new discipline of bioinformatics. It covers theoretical topics along with computational algorithms. It explores RNA bioinformatics, which contribute to therapeutics and drug discovery. Implementation of algorithms in a DotNet Framework with code and complete insight on the state-of-the-art and recent advancements are presented in detail. The book targets both novice readers as well as practitioners in the field. FEATURES Offers a broad introduction to the explosively growing new discipline of bioinformatics Covers theoretical topics and computational algorithms Explores RNA bioinformatics to unleash the potential from therapeutics to drug discovery Discusses implementation of algorithms in DotNet Frameworks with code Presents insights into the state of the art and recent advancements in bioinformatics The book is useful to undergraduate students with engineering, science, mathematics, or biology backgrounds. Researchers will be equally interested.

Combinatorial Pattern Matching

Moshe Lewenstein,Gabriel Valiente
Combinatorial Pattern Matching Book PDF

Author : Moshe Lewenstein,Gabriel Valiente
Publisher : Springer
Page : 420 pages
File Size : 55,9 Mb
Release : 2006-07-01
Category : Computers
ISBN : 9783540354611

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Combinatorial Pattern Matching by Moshe Lewenstein,Gabriel Valiente Pdf

This book constitutes the refereed proceedings of the 17th Annual Symposium on Combinatorial Pattern Matching, CPM 2006, held in Barcelona, Spain, July 2006. The book presents 33 revised full papers together with 3 invited talks, organized in topical sections on data structures, indexing data structures, probabilistic and algebraic techniques, applications in molecular biology, string matching, data compression, and dynamic programming.

A Project-Based Guide to Undergraduate Research in Mathematics

Pamela E. Harris,Erik Insko,Aaron Wootton
A Project Based Guide to Undergraduate Research in Mathematics Book PDF

Author : Pamela E. Harris,Erik Insko,Aaron Wootton
Publisher : Springer Nature
Page : 324 pages
File Size : 51,7 Mb
Release : 2020-04-17
Category : Mathematics
ISBN : 9783030378530

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A Project-Based Guide to Undergraduate Research in Mathematics by Pamela E. Harris,Erik Insko,Aaron Wootton Pdf

This volume provides accessible and self-contained research problems designed for undergraduate student projects, and simultaneously promotes the development of sustainable undergraduate research programs. The chapters in this work span a variety of topical areas of pure and applied mathematics and mathematics education. Each chapter gives a self-contained introduction on a research topic with an emphasis on the specific tools and knowledge needed to create and maintain fruitful research programs for undergraduates. Some of the topics discussed include:• Disease modeling• Tropical curves and surfaces• Numerical semigroups• Mathematics EducationThis volume will primarily appeal to undergraduate students interested in pursuing research projects and faculty members seeking to mentor them. It may also aid students and faculty participating in independent studies and capstone projects.

Algebraic and Discrete Mathematical Methods for Modern Biology

Raina Robeva
Algebraic and Discrete Mathematical Methods for Modern Biology Book PDF

Author : Raina Robeva
Publisher : Academic Press
Page : 382 pages
File Size : 41,6 Mb
Release : 2015-05-09
Category : Mathematics
ISBN : 9780128012710

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Algebraic and Discrete Mathematical Methods for Modern Biology by Raina Robeva Pdf

Written by experts in both mathematics and biology, Algebraic and Discrete Mathematical Methods for Modern Biology offers a bridge between math and biology, providing a framework for simulating, analyzing, predicting, and modulating the behavior of complex biological systems. Each chapter begins with a question from modern biology, followed by the description of certain mathematical methods and theory appropriate in the search of answers. Every topic provides a fast-track pathway through the problem by presenting the biological foundation, covering the relevant mathematical theory, and highlighting connections between them. Many of the projects and exercises embedded in each chapter utilize specialized software, providing students with much-needed familiarity and experience with computing applications, critical components of the "modern biology" skill set. This book is appropriate for mathematics courses such as finite mathematics, discrete structures, linear algebra, abstract/modern algebra, graph theory, probability, bioinformatics, statistics, biostatistics, and modeling, as well as for biology courses such as genetics, cell and molecular biology, biochemistry, ecology, and evolution. Examines significant questions in modern biology and their mathematical treatments Presents important mathematical concepts and tools in the context of essential biology Features material of interest to students in both mathematics and biology Presents chapters in modular format so coverage need not follow the Table of Contents Introduces projects appropriate for undergraduate research Utilizes freely accessible software for visualization, simulation, and analysis in modern biology Requires no calculus as a prerequisite Provides a complete Solutions Manual Features a companion website with supplementary resources

Computational Biology

Olivier Gascuel,Marie-France Sagot
Computational Biology Book PDF

Author : Olivier Gascuel,Marie-France Sagot
Publisher : Springer
Page : 170 pages
File Size : 44,7 Mb
Release : 2001-05-25
Category : Computers
ISBN : 3540422420

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Computational Biology by Olivier Gascuel,Marie-France Sagot Pdf

This book presents a selection of revised full papers accepted for presentation at the First International Conference on Biology, Informatics, and Mathematics, JOBIM 2000, held in Montpellier, France, in May 2000. The 13 papers included in the book were selected after two rounds of reviewing and revision from a total of 67 submissions. Among the topics addressed are algorithms, comparative genomics, evolution, phylogeny, databases, knowledge processing, genome anotation, graph theory, combinatorial mathematics, macromolecular structures, RNA and proteins, metabolic pathways and regulatory networks, and statistics and classification.

Discrete and Topological Models in Molecular Biology

Nataša Jonoska,Masahico Saito
Discrete and Topological Models in Molecular Biology Book PDF

Author : Nataša Jonoska,Masahico Saito
Publisher : Springer Science & Business Media
Page : 522 pages
File Size : 46,5 Mb
Release : 2013-12-23
Category : Computers
ISBN : 9783642401930

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Discrete and Topological Models in Molecular Biology by Nataša Jonoska,Masahico Saito Pdf

Theoretical tools and insights from discrete mathematics, theoretical computer science, and topology now play essential roles in our understanding of vital biomolecular processes. The related methods are now employed in various fields of mathematical biology as instruments to "zoom in" on processes at a molecular level. This book contains expository chapters on how contemporary models from discrete mathematics – in domains such as algebra, combinatorics, and graph and knot theories – can provide perspective on biomolecular problems ranging from data analysis, molecular and gene arrangements and structures, and knotted DNA embeddings via spatial graph models to the dynamics and kinetics of molecular interactions. The contributing authors are among the leading scientists in this field and the book is a reference for researchers in mathematics and theoretical computer science who are engaged with modeling molecular and biological phenomena using discrete methods. It may also serve as a guide and supplement for graduate courses in mathematical biology or bioinformatics, introducing nontraditional aspects of mathematical biology.

Combinatorial Pattern Matching

Juha Kärkkäinen,Jens Stoye
Combinatorial Pattern Matching Book PDF

Author : Juha Kärkkäinen,Jens Stoye
Publisher : Springer
Page : 466 pages
File Size : 45,9 Mb
Release : 2012-06-13
Category : Computers
ISBN : 9783642312656

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Combinatorial Pattern Matching by Juha Kärkkäinen,Jens Stoye Pdf

This book constitutes the refereed proceedings of the 23rd Annual Symposium on Combinatorial Pattern Matching, CPM 2012, held in Helsinki, Finland, in July 2012. The 33 revised full papers presented together with 2 invited talks were carefully reviewed and selected from 60 submissions. The papers address issues of searching and matching strings and more complicated patterns such as trees, regular expressions, graphs, point sets, and arrays. The goal is to derive non-trivial combinatorial properties of such structures and to exploit these properties in order to either achieve superior performance for the corresponding computational problems or pinpoint conditions under which searches cannot be performed efficiently. The meeting also deals with problems in computational biology, data compression and data mining, coding, information retrieval, natural language processing, and pattern recognition.