A Bioinformatics Guide For Molecular Biologists

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A Bioinformatics Guide for Molecular Biologists

Marina Sirota
A Bioinformatics Guide for Molecular Biologists Book PDF

Author : Marina Sirota
Publisher : Unknown
Page : 0 pages
File Size : 41,5 Mb
Release : 2014
Category : Bioinformatics
ISBN : 1936113228

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A Bioinformatics Guide for Molecular Biologists by Marina Sirota Pdf

Informatics can vastly assist progress in research and development in cell and molecular biology and biomedicine. However, many investigators are either unaware of the ways in which informatics can improve their research or find it inaccessible due to a feeling of "informatics anxiety." This sense of apprehension results from improper communication of the principles behind these approaches and of the value of the many tools available. In fact, many researchers are inherently distrustful of these tools. A more complete understanding of bioinformatics offered in A Bioinformatics Guide for Molecular Biologists will allow the reader to become comfortable with these techniques, encouraging their use-thus helping to make sense of the vast accumulation of data. To make these concepts more accessible, the editors approach the field of bioinformatics from the viewpoint of a molecular biologist, (1) arming the biologist with a basic understanding of the fundamental concepts in the field, (2) presenting approaches for using the tools from the standpoint of the data for which they are created, and (3) showing how the field of informatics is quickly adapting to the advancements in biology and biomedical technologies. All concepts are paired with recommendations for the appropriate programming environment and tools best suited to solve the particular problem at hand. It is a must-read for those interested in learning informatics techniques required for successful research and development in the laboratory.

Bioinformatics Computing

Bryan P. Bergeron
Bioinformatics Computing Book PDF

Author : Bryan P. Bergeron
Publisher : Prentice Hall Professional
Page : 472 pages
File Size : 51,8 Mb
Release : 2003
Category : Computers
ISBN : 0131008250

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Bioinformatics Computing by Bryan P. Bergeron Pdf

Comprehensive and concise, this handbook has chapters on computing visualization, large database designs, advanced pattern matching and other key bioinformatics techniques. It is a practical guide to computing in the growing field of Bioinformatics--the study of how information is represented and transmitted in biological systems, starting at the molecular level.

Bioinformatics

Andreas D. Baxevanis,Gary D. Bader,David S. Wishart
Bioinformatics Book PDF

Author : Andreas D. Baxevanis,Gary D. Bader,David S. Wishart
Publisher : John Wiley & Sons
Page : 648 pages
File Size : 40,9 Mb
Release : 2020-02-12
Category : Science
ISBN : 9781119335962

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Bioinformatics by Andreas D. Baxevanis,Gary D. Bader,David S. Wishart Pdf

Praise for the third edition of Bioinformatics “This book is a gem to read and use in practice.” —Briefings in Bioinformatics "This volume has a distinctive, special value as it offers an unrivalled level of details and unique expert insights from the leading computational biologists, including the very creators of popular bioinformatics tools." —ChemBioChem “A valuable survey of this fascinating field. . . I found it to be the most useful book on bioinformatics that I have seen and recommend it very highly.” —American Society for Microbiology News “This should be on the bookshelf of every molecular biologist.” —The Quarterly Review of Biology The field of bioinformatics is advancing at a remarkable rate. With the development of new analytical techniques that make use of the latest advances in machine learning and data science, today’s biologists are gaining fantastic new insights into the natural world’s most complex systems. These rapidly progressing innovations can, however, be difficult to keep pace with. The expanded fourth edition of the best-selling Bioinformatics aims to remedy this by providing students and professionals alike with a comprehensive survey of the current field. Revised to reflect recent advances in computational biology, it offers practical instruction on the gathering, analysis, and interpretation of data, as well as explanations of the most powerful algorithms presently used for biological discovery. Bioinformatics, Fourth Edition offers the most readable, up-to-date, and thorough introduction to the field for biologists at all levels, covering both key concepts that have stood the test of time and the new and important developments driving this fast-moving discipline forwards. This new edition features: New chapters on metabolomics, population genetics, metagenomics and microbial community analysis, and translational bioinformatics A thorough treatment of statistical methods as applied to biological data Special topic boxes and appendices highlighting experimental strategies and advanced concepts Annotated reference lists, comprehensive lists of relevant web resources, and an extensive glossary of commonly used terms in bioinformatics, genomics, and proteomics Bioinformatics is an indispensable companion for researchers, instructors, and students of all levels in molecular biology and computational biology, as well as investigators involved in genomics, clinical research, proteomics, and related fields.

Bioinformatics

Andreas D. Baxevanis,B. F. Francis Ouellette
Bioinformatics Book PDF

Author : Andreas D. Baxevanis,B. F. Francis Ouellette
Publisher : Wiley-Interscience
Page : 394 pages
File Size : 42,6 Mb
Release : 1998-07-28
Category : Computers
ISBN : UVA:X004134834

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Bioinformatics by Andreas D. Baxevanis,B. F. Francis Ouellette Pdf

"A reference that should be in the personal library of any biologist who uses the Internet for the analysis of DNA and protein sequence data" --Science

Practical Bioinformatics

Janusz M. Bujnicki
Practical Bioinformatics Book PDF

Author : Janusz M. Bujnicki
Publisher : Springer
Page : 265 pages
File Size : 49,6 Mb
Release : 2007-09-12
Category : Science
ISBN : 9783540742685

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Practical Bioinformatics by Janusz M. Bujnicki Pdf

This book presents applications of bioinformatics tools that experimental research scientists use in "daily practice." Its interdisciplinary approach combines computational and experimental methods to solve scientific problems. The book begins with reviews of computational methods for protein sequence-structure-function analysis, followed by methods that use experimental data obtained in the laboratory to improve functional predictions.

Bioinformatics

Andreas D. Baxevanis,B. F. Francis Ouellette
Bioinformatics Book PDF

Author : Andreas D. Baxevanis,B. F. Francis Ouellette
Publisher : John Wiley & Sons
Page : 504 pages
File Size : 54,9 Mb
Release : 2004-03-24
Category : Computers
ISBN : 9780471461012

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Bioinformatics by Andreas D. Baxevanis,B. F. Francis Ouellette Pdf

"In this book, Andy Baxevanis and Francis Ouellette . . . haveundertaken the difficult task of organizing the knowledge in thisfield in a logical progression and presenting it in a digestibleform. And they have done an excellent job. This fine text will makea major impact on biological research and, in turn, on progress inbiomedicine. We are all in their debt." —Eric Lander from the Foreword Reviews from the First Edition "...provides a broad overview of the basic tools for sequenceanalysis ... For biologists approaching this subject for the firsttime, it will be a very useful handbook to keep on the shelf afterthe first reading, close to the computer." —Nature Structural Biology "...should be in the personal library of any biologist who usesthe Internet for the analysis of DNA and protein sequencedata." —Science "...a wonderful primer designed to navigate the novice throughthe intricacies of in scripto analysis ... The accomplished genesearcher will also find this book a useful addition to theirlibrary ... an excellent reference to the principles ofbioinformatics." —Trends in Biochemical Sciences This new edition of the highly successful Bioinformatics:A Practical Guide to the Analysis of Genes and Proteinsprovides a sound foundation of basic concepts, with practicaldiscussions and comparisons of both computational tools anddatabases relevant to biological research. Equipping biologists with the modern tools necessary to solvepractical problems in sequence data analysis, the Second Editioncovers the broad spectrum of topics in bioinformatics, ranging fromInternet concepts to predictive algorithms used on sequence,structure, and expression data. With chapters written by experts inthe field, this up-to-date reference thoroughly covers vitalconcepts and is appropriate for both the novice and the experiencedpractitioner. Written in clear, simple language, the book isaccessible to users without an advanced mathematical or computerscience background. This new edition includes: All new end-of-chapter Web resources, bibliographies, andproblem sets Accompanying Web site containing the answers to the problems,as well as links to relevant Web resources New coverage of comparative genomics, large-scale genomeanalysis, sequence assembly, and expressed sequence tags A glossary of commonly used terms in bioinformatics andgenomics Bioinformatics: A Practical Guide to the Analysis of Genesand Proteins, Second Edition is essential reading forresearchers, instructors, and students of all levels in molecularbiology and bioinformatics, as well as for investigators involvedin genomics, positional cloning, clinical research, andcomputational biology.

Introduction to Bioinformatics with R

Edward Curry
Introduction to Bioinformatics with R Book PDF

Author : Edward Curry
Publisher : CRC Press
Page : 311 pages
File Size : 44,8 Mb
Release : 2020-11-02
Category : Mathematics
ISBN : 9781351015301

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Introduction to Bioinformatics with R by Edward Curry Pdf

In biological research, the amount of data available to researchers has increased so much over recent years, it is becoming increasingly difficult to understand the current state of the art without some experience and understanding of data analytics and bioinformatics. An Introduction to Bioinformatics with R: A Practical Guide for Biologists leads the reader through the basics of computational analysis of data encountered in modern biological research. With no previous experience with statistics or programming required, readers will develop the ability to plan suitable analyses of biological datasets, and to use the R programming environment to perform these analyses. This is achieved through a series of case studies using R to answer research questions using molecular biology datasets. Broadly applicable statistical methods are explained, including linear and rank-based correlation, distance metrics and hierarchical clustering, hypothesis testing using linear regression, proportional hazards regression for survival data, and principal component analysis. These methods are then applied as appropriate throughout the case studies, illustrating how they can be used to answer research questions. Key Features: · Provides a practical course in computational data analysis suitable for students or researchers with no previous exposure to computer programming. · Describes in detail the theoretical basis for statistical analysis techniques used throughout the textbook, from basic principles · Presents walk-throughs of data analysis tasks using R and example datasets. All R commands are presented and explained in order to enable the reader to carry out these tasks themselves. · Uses outputs from a large range of molecular biology platforms including DNA methylation and genotyping microarrays; RNA-seq, genome sequencing, ChIP-seq and bisulphite sequencing; and high-throughput phenotypic screens. · Gives worked-out examples geared towards problems encountered in cancer research, which can also be applied across many areas of molecular biology and medical research. This book has been developed over years of training biological scientists and clinicians to analyse the large datasets available in their cancer research projects. It is appropriate for use as a textbook or as a practical book for biological scientists looking to gain bioinformatics skills.

Bioinformatics Methods and Protocols

Stephen Misener,Stephen A. Krawetz
Bioinformatics Methods and Protocols Book PDF

Author : Stephen Misener,Stephen A. Krawetz
Publisher : Springer Science & Business Media
Page : 495 pages
File Size : 41,8 Mb
Release : 2008-02-02
Category : Science
ISBN : 9781592591923

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Bioinformatics Methods and Protocols by Stephen Misener,Stephen A. Krawetz Pdf

Computers have become an essential component of modern biology. They help to manage the vast and increasing amount of biological data and continue to play an integral role in the discovery of new biological relationships. This in silico approach to biology has helped to reshape the modern biological sciences. With the biological revolution now among us, it is imperative that each scientist develop and hone today’s bioinformatics skills, if only at a rudimentary level. Bioinformatics Methods and Protocols was conceived as part of the Methods in Molecular Biology series to meet this challenge and to provide the experienced user with useful tips and an up-to-date overview of current developments. It builds upon the foundation that was provided in the two-volume set published in 1994 entitled Computer Analysis of Sequence Data. We divided Bioinformatics Methods and Protocols into five parts, including a thorough survey of the basic sequence analysis software packages that are available at most institutions, as well as the design and implemen- tion of an essential introductory Bioinformatics course. In addition, we included sections describing specialized noncommercial software, databases, and other resources available as part of the World Wide Web and a stimul- ing discussion of some of the computational challenges biologists now face and likely future solutions.

The Practical Bioinformatician

Limsoon Wong
The Practical Bioinformatician Book PDF

Author : Limsoon Wong
Publisher : World Scientific
Page : 540 pages
File Size : 47,5 Mb
Release : 2004-05-24
Category : Medical
ISBN : 9789814482622

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The Practical Bioinformatician by Limsoon Wong Pdf

Computer scientists have increasingly been enlisted as “bioinformaticians” to assist molecular biologists in their research. This book is a practical introduction to bioinformatics for these computer scientists. The chapters are in-depth discussions by expert bioinformaticians on both general techniques and specific approaches to a range of selected bioinformatics problems. The book is organized into clusters of chapters on the following topics: • Overview of modern molecular biology and a broad spectrum of techniques from computer science — data mining, machine learning, mathematical modeling, sequence alignment, data integration, workflow development, etc. • In-depth discussion of computational recognition of functional and regulatory sites in DNA sequences. • Incisive discussion of computational prediction of secondary structure of RNA sequences. • Overview of computational prediction of protein cellular localization, and selected discussions of inference of protein function. • Overview of methods for discovering protein–protein interactions. • Detailed discussion of approaches to gene expression analysis for the diagnosis of diseases, the treatment of diseases, and the understanding of gene functions. • Case studies on analysis of phylogenies, functional annotation of proteins, construction of purpose-built integrated biological databases, and development of workflows underlying the large-scale-effort gene discovery. Contents:Molecular Biology for the Practical BioinformaticianStrategy and Planning of Bioinformatics ExperimentsData Mining Techniques for the Practical BioinformaticianTechniques for Recognition of Translation Initiation SitesHow Neural Networks Find Promoters Using Recognition of Micro-Structural Promoter ComponentsNeural-Statistical Model of TATA-Box Motifs in EukaryotesTuning the Dragon Promoter Finder System for Human Promoter RecognitionRNA Secondary Structure PredictionProtein Localization PredictionHomology Search MethodsAnalysis of Phylogeny: A Case Study on SaururaceaeFunctional Annotation and Protein Families: From Theory to PracticeDiscovering Protein–Protein InteractionsTechniques for Analysis of Gene ExpressionGenome-Wide cDNA Oligo Probe Design and Its Applications in i>Schizosaccharomyces PombeMining New Motifs from cDNA Sequence DataTechnologies for Biological Data IntegrationConstruction of Biological Databases: A Case Study on the Protein Phosphatase DataBase (PPDB)A Family Classification Approach to Functional Annotation of ProteinsInformatics for Efficient EST-Based Gene Discovery in Normalized and Subtracted cDNA Libraries Readership: Computer scientists planning to be a bioinformatician; computer science undergraduates in their sophomore and/or senior years. Keywords:Regularotory Site Recognition;Sequence Homology Search;Gene Expression Analysis;Protein Functional Annotation;RNA Secondary Structure Prediction;Computational Gene Discovery;Bioinformatics;Data MiningKey Features:Written in a practical, in-depth tutorial styleCovers a broad range of bioinformatics topics and of techniques used in bioinformaticsComprehensive overviews of the development of various approaches in a number of selected topicsIn-depth exposition of a number of important topicsContributions by prominent researchers: Vladimir Bajic, Ming Li, Kenta Nakai, Limsoon Wong, Cathy Wu, etc.Extensive, integrated references to background literature

Bioinformatics for DNA Sequence Analysis

David Posada
Bioinformatics for DNA Sequence Analysis Book PDF

Author : David Posada
Publisher : Humana
Page : 0 pages
File Size : 46,8 Mb
Release : 2010-11-19
Category : Science
ISBN : 1617378399

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Bioinformatics for DNA Sequence Analysis by David Posada Pdf

The recent accumulation of information from genomes, including their sequences, has resultednotonlyinnewattemptstoansweroldquestionsandsolvelongstandingissues inbiology,butalsointheformulationofnovelhypothesesthatarisepreciselyfromthis wealth of data. The storage, processing, description, transmission, connection, and analysis of these data has prompted bioinformatics to become one the most relevant applied sciences for this new century, walking hand-in-hand with modern molecular biology and clearly impacting areas like biotechnology and biomedicine. Bioinformatics skills have now become essential for many scientists working with DNA sequences. With this idea in mind, this book aims to provide practical guidance andtroubleshootingadviceforthecomputationalanalysisofDNAsequences,covering a range of issues and methods that unveil the multitude of applications and relevance that Bioinformatics has today. The analysis of protein sequences has been purposely excludedtogainfocus.Individualbookchaptersareorientedtowardthedescriptionof theuseofspecificbioinformaticstools,accompaniedbypracticalexamples,adiscussion on the interpretation of results, and specific comments on strengths and limitations of the methods and tools. In a sense, chapters could be seen as enriched task-oriented manuals that will direct the reader in completing specific bioinformatics analyses. The target audience for this book is biochemists, and molecular and evolutionary biologiststhatwanttolearnhowtoanalyzeDNAsequencesinasimplebutmeaningful fashion. Readers do not need a special background in statistics, mathematics, or computer science, just a basic knowledge of molecular biology and genetics. All the tools described in the book are free and all of them can be downloaded or accessed throughtheweb.Mostchapterscouldbeusedforpracticaladvancedundergraduateor graduate-level courses in bioinformatics and molecular evolution.

Handbook of Computational Molecular Biology

Srinivas Aluru
Handbook of Computational Molecular Biology Book PDF

Author : Srinivas Aluru
Publisher : CRC Press
Page : 1108 pages
File Size : 53,5 Mb
Release : 2005-12-21
Category : Computers
ISBN : 9781420036275

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Handbook of Computational Molecular Biology by Srinivas Aluru Pdf

The enormous complexity of biological systems at the molecular level must be answered with powerful computational methods. Computational biology is a young field, but has seen rapid growth and advancement over the past few decades. Surveying the progress made in this multidisciplinary field, the Handbook of Computational Molecular Biology of

Database Annotation in Molecular Biology

Arthur M. Lesk
Database Annotation in Molecular Biology Book PDF

Author : Arthur M. Lesk
Publisher : John Wiley & Sons
Page : 266 pages
File Size : 50,6 Mb
Release : 2005-09-01
Category : Medical
ISBN : 9780470856857

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Database Annotation in Molecular Biology by Arthur M. Lesk Pdf

Two factors dominate current molecular biology: the amount of raw data is increasing very rapidly and successful applications in biomedical research require carefully curated and annotated databases. The quality of the experimental data -- especially nucleic acid sequences -- is satisfactory; however, annotations depend on features inferred from the data rather than measured directly, for instance the identification of genes in genome sequences. It is essential that these inferences are as accurate as possible and this requires human intervention. With the recognition of the importance of accurate database annotation and the requirement for individuals with particular constellations of skills to carry it out, annotators are emerging as specialists within the profession of bioinformatics. This book compiles information about annotation -- its current status, what is required to improve it, what skills must be brought to bear on database curation and hence what is the proper training for annotators. The book should be essential reading for all people working on biological databases, both biologists and computer scientists. It will also be of interest to all users of such databases, including molecular biologists, geneticists, protein chemists, clinicians and drug developers.

BIOINFORMATICS: A PRACTICAL GUIDE TO THE ANALYSIS OF GENES AND PROTEINS, 3RD ED

Andreas D. Baxevanis,Francis B. F. Ouellette
BIOINFORMATICS A PRACTICAL GUIDE TO THE ANALYSIS OF GENES AND PROTEINS 3RD ED Book PDF

Author : Andreas D. Baxevanis,Francis B. F. Ouellette
Publisher : Unknown
Page : 560 pages
File Size : 54,9 Mb
Release : 2009-07-01
Category : Bioinformatics
ISBN : 8126521929

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BIOINFORMATICS: A PRACTICAL GUIDE TO THE ANALYSIS OF GENES AND PROTEINS, 3RD ED by Andreas D. Baxevanis,Francis B. F. Ouellette Pdf

Market_Desc: This new edition is aimed at advanced undergraduate and graduate school students taking an introductory bioinformatics courses, as well as professionals in genomics, molecular biology, biochemistry, biophysics, and computational biology. According to a Science review of a previous edition, this book should be in the personal library of any biologist who uses the Internet for the analysis of DNA and protein sequence data and is invaluable to beginners and seasoned researchers alike. Special Features: · Complete, expert coverage of key principles as well as the state-of-the-art in bioinformatics· All new chapters on: Genome Annotation, Genomic Databases, Predictive Methods Using RNA Sequences, Protein Structure Prediction, and Protein-Protein Interactions· Fully redesigned, appealing design with full color throughout and larger trim size· Reorganization of chapters into five main sections following a clear, logical sequence· Inclusion of greatly expanded and more rigorous problem sets· Special boxes highlighting experimental strategies and limitations· More diagrams and flowcharts to reinforce the main text· Enhanced use of real examples· written by the top scientists in the field of bioinformatics, [this book] is the perfect choice for every molecular biology laboratory --Quarterly Review of Biology (2/e)· No background in computer science or mathematics assumed About The Book: This fully revised third edition to an already classic resource provides readers with a practical guide covering the full scope of key concepts in bioinformatics, from databases to predictive and comparative algorithms. With a new full-color, enlarged page design, this edition offers the most readable, up-to-date, and thorough introduction to the field for biologists. All new features include special boxes, enhanced use of real examples, and expanded problem sets with answers provided on the book's dedicated website (www.wiley.com/bioinformatics). A glossary and appendix of sample file formats rounds out the book's reader-friendly, 'hands-on' treatment.The chapters have been reorganized into a more logical flow, with five main sections and a concluding section offering a primer on the use of Perl. Following the editors' introduction and perspective on why bioinformatics is important.

Bioinformatics For Dummies

Jean-Michel Claverie,Cedric Notredame
Bioinformatics For Dummies Book PDF

Author : Jean-Michel Claverie,Cedric Notredame
Publisher : John Wiley & Sons
Page : 475 pages
File Size : 53,6 Mb
Release : 2011-02-10
Category : Science
ISBN : 9781118051108

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Bioinformatics For Dummies by Jean-Michel Claverie,Cedric Notredame Pdf

Were you always curious about biology but were afraid to sit through long hours of dense reading? Did you like the subject when you were in high school but had other plans after you graduated? Now you can explore the human genome and analyze DNA without ever leaving your desktop! Bioinformatics For Dummies is packed with valuable information that introduces you to this exciting new discipline. This easy-to-follow guide leads you step by step through every bioinformatics task that can be done over the Internet. Forget long equations, computer-geek gibberish, and installing bulky programs that slow down your computer. You’ll be amazed at all the things you can accomplish just by logging on and following these trusty directions. You get the tools you need to: Analyze all types of sequences Use all types of databases Work with DNA and protein sequences Conduct similarity searches Build a multiple sequence alignment Edit and publish alignments Visualize protein 3-D structures Construct phylogenetic trees This up-to-date second edition includes newly created and popular databases and Internet programs as well as multiple new genomes. It provides tips for using servers and places to seek resources to find out about what’s going on in the bioinformatics world. Bioinformatics For Dummies will show you how to get the most out of your PC and the right Web tools so you'll be searching databases and analyzing sequences like a pro!

Bioinformatics

Stuart M. Brown
Bioinformatics Book PDF

Author : Stuart M. Brown
Publisher : Eaton Publishing Company/Biotechniques Books
Page : 220 pages
File Size : 48,9 Mb
Release : 2000
Category : Computers
ISBN : UOM:39015053762822

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Bioinformatics by Stuart M. Brown Pdf

A practical overview of bioinformatics, for researchers. Enables the reader to evaluate and choose the appropriate software, databases, and/or Web sites to meet the needs of various tasks, as well as enabling them to select options within software packages. Also discusses and evaluated programs for PCs, the Internet, and mainframes.