Multiple Alignments Hidden Markov Models And Svms
DOWNLOAD
Download Multiple Alignments Hidden Markov Models And Svms PDF/ePub or read online books in Mobi eBooks. Click Download or Read Online button to get Multiple Alignments Hidden Markov Models And Svms book now. This website allows unlimited access to, at the time of writing, more than 1.5 million titles, including hundreds of thousands of titles in various foreign languages. If the content not found or just blank you must refresh this page
Multiple Alignments Hidden Markov Models And Svms
DOWNLOAD
Author : Mohamad Firdaus Abdullah
language : en
Publisher: LAP Lambert Academic Publishing
Release Date : 2012
Multiple Alignments Hidden Markov Models And Svms written by Mohamad Firdaus Abdullah and has been published by LAP Lambert Academic Publishing this book supported file pdf, txt, epub, kindle and other format this book has been release on 2012 with categories.
Remote protein homology detection is a problem of detecting evolutionary relationship between proteins at low sequence similarity level. Among several problems in remote protein homology detection include the questions of determining which combination of multiple alignment and classification techniques is the best as well as the misalignment of protein sequences during the alignment process. Therefore, this study deals with remote protein homology detection via assessing the impact of using structural information on protein multiple alignments over sequence information. This study further presents the best combinations of multiple alignment and classification programs to be chosen. This study also improves the quality of the multiple alignments via integration of a refinement algorithm.
Protein Homology Detection Through Alignment Of Markov Random Fields
DOWNLOAD
Author : Jinbo Xu
language : en
Publisher: Springer
Release Date : 2015-01-22
Protein Homology Detection Through Alignment Of Markov Random Fields written by Jinbo Xu and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2015-01-22 with Computers categories.
This work covers sequence-based protein homology detection, a fundamental and challenging bioinformatics problem with a variety of real-world applications. The text first surveys a few popular homology detection methods, such as Position-Specific Scoring Matrix (PSSM) and Hidden Markov Model (HMM) based methods, and then describes a novel Markov Random Fields (MRF) based method developed by the authors. MRF-based methods are much more sensitive than HMM- and PSSM-based methods for remote homolog detection and fold recognition, as MRFs can model long-range residue-residue interaction. The text also describes the installation, usage and result interpretation of programs implementing the MRF-based method.
Multiple Biological Sequence Alignment
DOWNLOAD
Author : Ken Nguyen
language : en
Publisher: John Wiley & Sons
Release Date : 2016-06-10
Multiple Biological Sequence Alignment written by Ken Nguyen and has been published by John Wiley & Sons this book supported file pdf, txt, epub, kindle and other format this book has been release on 2016-06-10 with Science categories.
Covers the fundamentals and techniques of multiple biological sequence alignment and analysis, and shows readers how to choose the appropriate sequence analysis tools for their tasks This book describes the traditional and modern approaches in biological sequence alignment and homology search. This book contains 11 chapters, with Chapter 1 providing basic information on biological sequences. Next, Chapter 2 contains fundamentals in pair-wise sequence alignment, while Chapters 3 and 4 examine popular existing quantitative models and practical clustering techniques that have been used in multiple sequence alignment. Chapter 5 describes, characterizes and relates many multiple sequence alignment models. Chapter 6 describes how traditionally phylogenetic trees have been constructed, and available sequence knowledge bases can be used to improve the accuracy of reconstructing phylogeny trees. Chapter 7 covers the latest methods developed to improve the run-time efficiency of multiple sequence alignment. Next, Chapter 8 covers several popular existing multiple sequence alignment server and services, and Chapter 9 examines several multiple sequence alignment techniques that have been developed to handle short sequences (reads) produced by the Next Generation Sequencing technique (NSG). Chapter 10 describes a Bioinformatics application using multiple sequence alignment of short reads or whole genomes as input. Lastly, Chapter 11 provides a review of RNA and protein secondary structure prediction using the evolution information inferred from multiple sequence alignments. • Covers the full spectrum of the field, from alignment algorithms to scoring methods, practical techniques, and alignment tools and their evaluations • Describes theories and developments of scoring functions and scoring matrices •Examines phylogeny estimation and large-scale homology search Multiple Biological Sequence Alignment: Scoring Functions, Algorithms and Applications is a reference for researchers, engineers, graduate and post-graduate students in bioinformatics, and system biology and molecular biologists. Ken Nguyen, PhD, is an associate professor at Clayton State University, GA, USA. He received his PhD, MSc and BSc degrees in computer science all from Georgia State University. His research interests are in databases, parallel and distribute computing and bioinformatics. He was a Molecular Basis of Disease fellow at Georgia State and is the recipient of the highest graduate honor at Georgia State, the William M. Suttles Graduate Fellowship. Xuan Guo, PhD, is a postdoctoral associate at Oak Ridge National Lab, USA. He received his PhD degree in computer science from Georgia State University in 2015. His research interests are in bioinformatics, machine leaning, and cloud computing. He is an editorial assistant of International Journal of Bioinformatics Research and Applications. Yi Pan, PhD, is a Regents' Professor of Computer Science and an Interim Associate Dean and Chair of Biology at Georgia State University. He received his BE and ME in computer engineering from Tsinghua University in China and his PhD in computer science from the University of Pittsburgh. Dr. Pan's research interests include parallel and distributed computing, optical networks, wireless networks and bioinformatics. He has published more than 180 journal papers with about 60 papers published in various IEEE/ACM journals. He is co-editor along with Albert Y. Zomaya of the Wiley Series in Bioinformatics.
Hidden Markov Models
DOWNLOAD
Author : Przemyslaw Dymarski
language : en
Publisher: BoD – Books on Demand
Release Date : 2011-04-19
Hidden Markov Models written by Przemyslaw Dymarski and has been published by BoD – Books on Demand this book supported file pdf, txt, epub, kindle and other format this book has been release on 2011-04-19 with Computers categories.
Hidden Markov Models (HMMs), although known for decades, have made a big career nowadays and are still in state of development. This book presents theoretical issues and a variety of HMMs applications in speech recognition and synthesis, medicine, neurosciences, computational biology, bioinformatics, seismology, environment protection and engineering. I hope that the reader will find this book useful and helpful for their own research.
Inference In Hidden Markov Models
DOWNLOAD
Author : Olivier Cappé
language : en
Publisher: Springer Science & Business Media
Release Date : 2006-04-12
Inference In Hidden Markov Models written by Olivier Cappé and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2006-04-12 with Mathematics categories.
This book is a comprehensive treatment of inference for hidden Markov models, including both algorithms and statistical theory. Topics range from filtering and smoothing of the hidden Markov chain to parameter estimation, Bayesian methods and estimation of the number of states. In a unified way the book covers both models with finite state spaces and models with continuous state spaces (also called state-space models) requiring approximate simulation-based algorithms that are also described in detail. Many examples illustrate the algorithms and theory. This book builds on recent developments to present a self-contained view.
Parameter Advising For Multiple Sequence Alignment
DOWNLOAD
Author : Dan DeBlasio
language : en
Publisher: Springer
Release Date : 2018-01-04
Parameter Advising For Multiple Sequence Alignment written by Dan DeBlasio and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2018-01-04 with Computers categories.
This book develops a new approach called parameter advising for finding a parameter setting for a sequence aligner that yields a quality alignment of a given set of input sequences. In this framework, a parameter advisor is a procedure that automatically chooses a parameter setting for the input, and has two main ingredients: (a) the set of parameter choices considered by the advisor, and (b) an estimator of alignment accuracy used to rank alignments produced by the aligner. On coupling a parameter advisor with an aligner, once the advisor is trained in a learning phase, the user simply inputs sequences to align, and receives an output alignment from the aligner, where the advisor has automatically selected the parameter setting. The chapters first lay out the foundations of parameter advising, and then cover applications and extensions of advising. The content • examines formulations of parameter advising and their computational complexity, • develops methods for learning good accuracy estimators, • presents approximation algorithms for finding good sets of parameter choices, and • assesses software implementations of advising that perform well on real biological data. Also explored are applications of parameter advising to • adaptive local realignment, where advising is performed on local regions of the sequences to automatically adapt to varying mutation rates, and • ensemble alignment, where advising is applied to an ensemble of aligners to effectively yield a new aligner of higher quality than the individual aligners in the ensemble. The book concludes by offering future directions in advising research.
Bioinformatics Research And Applications
DOWNLOAD
Author : Ion Măndoiu
language : en
Publisher: Springer Science & Business Media
Release Date : 2007-04-26
Bioinformatics Research And Applications written by Ion Măndoiu and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2007-04-26 with Science categories.
This book constitutes the refereed proceedings of the Third International Symposium on Bioinformatics Research and Applications, ISBRA 2007, held in Atlanta, GA, USA in May 2007. The 55 revised full papers presented together with three invited talks cover a wide range of topics, including clustering and classification, gene expression analysis, gene networks, genome analysis, motif finding, pathways, protein structure prediction, protein domain interactions, phylogenetics, and software tools.
Knowledge Based Intelligent Information And Engineering Systems
DOWNLOAD
Author : Rajiv Khosla
language : en
Publisher: Springer
Release Date : 2005-08-25
Knowledge Based Intelligent Information And Engineering Systems written by Rajiv Khosla and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2005-08-25 with Computers categories.
Dear delegates,friendsand membersofthe growingKES professionalcommunity,w- come to the proceedings of the 9th International Conference on Knowledge-Based and IntelligentInformationandEngineeringSystemshostedbyLa TrobeUniversityin M- bourne Australia. The KES conference series has been established for almost a decade, and it cont- ues each year to attract participants from all geographical areas of the world, including Europe, the Americas, Australasia and the Paci?c Rim. The KES conferences cover a wide range of intelligent systems topics. The broad focus of the conference series is the theory and applications of intelligent systems. From a pure research ?eld, intel- gent systems have advanced to the point where their abilities have been incorporated into many business and engineering application areas. KES 2005 provided a valuable mechanism for delegates to obtain an extensive view of the latest research into a range of intelligent-systems algorithms, tools and techniques. The conference also gave de- gates the chance to come into contact with those applying intelligent systems in diverse commercial areas. The combination of theory and practice represented a unique opp- tunity to gain an appreciation of the full spectrum of leading-edge intelligent-systems activity. The papers for KES 2005 were either submitted to invited sessions, chaired and organized by respected experts in their ?elds, or to a general session, managed by an extensive International Program Committee, or to the Intelligent Information Hiding and Multimedia Signal Processing (IIHMSP) Workshop, managed by an International Workshop Technical Committee.
Computational Methods For Protein Structure Prediction And Modeling
DOWNLOAD
Author : Ying Xu
language : en
Publisher: Springer Science & Business Media
Release Date : 2010-05-05
Computational Methods For Protein Structure Prediction And Modeling written by Ying Xu and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2010-05-05 with Science categories.
Volume Two of this two-volume sequence presents a comprehensive overview of protein structure prediction methods and includes protein threading, De novo methods, applications to membrane proteins and protein complexes, structure-based drug design, as well as structure prediction as a systems problem. A series of appendices review the biological and chemical basics related to protein structure, computer science for structural informatics, and prerequisite mathematics and statistics.
Bioinformatics Research And Applications
DOWNLOAD
Author : Ion Mandoiu
language : en
Publisher: Springer
Release Date : 2009-04-29
Bioinformatics Research And Applications written by Ion Mandoiu and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2009-04-29 with Science categories.
This book constitutes the refereed proceedings of the 5th International Symposium on Bioinformatics Research and Applications, ISBRA 2009, held in Fort Lauderdale, FL, USA, in May 2009. The 26 revised full papers presented together four invited papers were carefully reviewed and selected from a total of 55 submissions. The papers cover a wide range of topics, including clustering and classification, gene expression analysis, gene networks, genome analysis, motif finding, pathways, protein structure prediction, protein domain interactions, phylogenetics, and software tools.