Автор: Eberhard Voit Название: A First Course in Systems Biology ISBN: 0815345682 ISBN-13(EAN): 9780815345688 Издательство: Taylor&Francis Рейтинг: Цена: 13014.00 р. Наличие на складе: Есть у поставщика Поставка под заказ.
Описание:
A First Course in Systems Biology is an introduction for advanced undergraduate and graduate students to the growing field of systems biology. Its main focus is the development of computational models and their applications to diverse biological systems. The book begins with the fundamentals of modeling, then reviews features of the molecular inventories that bring biological systems to life and discusses case studies that represent some of the frontiers in systems biology and synthetic biology. In this way, it provides the reader with a comprehensive background and access to methods for executing standard systems biology tasks, understanding the modern literature, and launching into specialized courses or projects that address biological questions using theoretical and computational means.
New topics in this edition include: default modules for model design, limit cycles and chaos, parameter estimation in Excel, model representations of gene regulation through transcription factors, derivation of the Michaelis-Menten rate law from the original conceptual model, different types of inhibition, hysteresis, a model of differentiation, system adaptation to persistent signals, nonlinear nullclines, PBPK models, and elementary modes.
The format is a combination of instructional text and references to primary literature, complemented by sets of small-scale exercises that enable hands-on experience, and large-scale, often open-ended questions for further reflection.
Описание: This book takes the novel approach to cover both the sequence and structure analysis of proteins in one volume and from an algorithmic perspective. Key features of the book include:* Provides a comprehensive introduction to the analysis of protein sequence and structure analysis.
Автор: Cathy H. Wu; Cecilia N. Arighi; Karen E. Ross Название: Protein Bioinformatics ISBN: 1493967819 ISBN-13(EAN): 9781493967810 Издательство: Springer Рейтинг: Цена: 20962.00 р. Наличие на складе: Есть у поставщика Поставка под заказ.
Описание: This volume introduces bioinformatics research methods for proteins, with special focus on protein post-translational modifications (PTMs) and networks.
Автор: Krishna Mohan Poluri; Khushboo Gulati Название: Protein Engineering Techniques ISBN: 9811027315 ISBN-13(EAN): 9789811027314 Издательство: Springer Рейтинг: Цена: 8384.00 р. Наличие на складе: Есть у поставщика Поставка под заказ.
Описание: This brief provides a broad overview of protein-engineering research, offering a glimpse of the most common experimental methods. It also presents various computational programs with applications that are widely used in directed evolution, computational and de novo protein design. Further, it sheds light on the advantages and pitfalls of existing methodologies and future perspectives of protein engineering techniques.
Автор: Dariusz Mrozek Название: Scalable Big Data Analytics for Protein Bioinformatics ISBN: 3319988387 ISBN-13(EAN): 9783319988382 Издательство: Springer Рейтинг: Цена: 13974.00 р. Наличие на складе: Поставка под заказ.
Описание:
This book presents a focus on proteins and their structures. The text describes various scalable solutions for protein structure similarity searching, carried out at main representation levels and for prediction of 3D structures of proteins. Emphasis is placed on techniques that can be used to accelerate similarity searches and protein structure modeling processes.
The content of the book is divided into four parts. The first part provides background information on proteins and their representation levels, including a formal model of a 3D protein structure used in computational processes, and a brief overview of the technologies used in the solutions presented in the book. The second part of the book discusses Cloud services that are utilized in the development of scalable and reliable cloud applications for 3D protein structure similarity searching and protein structure prediction. The third part of the book shows the utilization of scalable Big Data computational frameworks, like Hadoop and Spark, in massive 3D protein structure alignments and identification of intrinsically disordered regions in protein structures. The fourth part of the book focuses on finding 3D protein structure similarities, accelerated with the use of GPUs and the use of multithreading and relational databases for efficient approximate searching on protein secondary structures.
The book introduces advanced techniques and computational architectures that benefit from recent achievements in the field of computing and parallelism. Recent developments in computer science have allowed algorithms previously considered too time-consuming to now be efficiently used for applications in bioinformatics and the life sciences. Given its depth of coverage, the book will be of interest to researchers and software developers working in the fields of structural bioinformatics and biomedical databases.
Автор: Florencio Pazos; M?nica Chagoyen Название: Practical Protein Bioinformatics ISBN: 3319127268 ISBN-13(EAN): 9783319127262 Издательство: Springer Рейтинг: Цена: 19564.00 р. Наличие на складе: Есть у поставщика Поставка под заказ.
Описание: This book describes more than 60 web-accessible computational tools for protein analysis and is totally practical, with detailed explanations on how to use these tools and interpret their results and minimal mentions to their theoretical basis (only when that is required for making a better use of them). It covers a wide range of tools for dealing with different aspects of proteins, from their sequences, to their three-dimensional structures, and the biological networks they are immersed in. The selection of tools is based on the experience of the authors that lead a protein bioinformatics facility in a large research centre, with the additional constraint that the tools should be accessible through standard web browsers without requiring the local installation of specific software, command-line tools, etc. The web tools covered include those aimed to retrieve protein information, look for similar proteins, generate pair-wise and multiple sequence alignments of protein sequences, work with protein domains and motifs, study the phylogeny of a family of proteins, retrieve, manipulate and visualize protein three-dimensional structures, predict protein structural features as well as whole three-dimensional structures, extract biological information from protein structures, summarize large protein sets, study protein interaction and metabolic networks, etc. The book is associated to a dynamic web site that will reflect changes in the web addresses of the tools, updates of these, etc. It also contains QR codes that can be scanned with any device to direct its browser to the tool web site. This monograph will be most valuable for researchers in experimental labs without specific knowledge on bioinformatics or computing.
Автор: Florencio Pazos; M?nica Chagoyen Название: Practical Protein Bioinformatics ISBN: 3319381849 ISBN-13(EAN): 9783319381848 Издательство: Springer Рейтинг: Цена: 14365.00 р. Наличие на складе: Есть у поставщика Поставка под заказ.
Описание:
INTRODUCTION
1. SEQUENCES - INTRODUCTION - REPRESENTING PROTEIN SEQUENCES IN THE COMPUTER Sequence file formats Sequence format conversion tools MAIN PROTEIN SEQUENCE DATABASES BASIC SEQUENCE-BASED CHARACTERISTICS COMPARE TWO PROTEIN SEQUENCES Types of pair-wise sequence alignments FINDING SIMILAR SEQUENCES IN A DATABASE (BASIC) Which sequence database to search? BLAST COMPARE MORE THAN TWO SEQUENCES Multiple Sequence Alignments: Formats and Conversion Alignment editing and representation Summarizing MSAs FINDING SIMILAR SEQUENCES IN A DATABASE (ADVANCED) Sequence profiles Iterative profile construction HMM profile search against a sequence database HMM profile search against a profile database PROTEIN MOTIFS, DOMAINS AND FAMILIES BASIC PHYLOGENY
2. STRUCTURES INTRODUCTION Storing protein structures - The PDB file format MAIN PROTEIN STRUCTURE DATABASES Classifications of structural domains STRUCTURE MANIPULATION, VISUALIZATION AND COMPARISON Structure Manipulation and Visualization Structure Comparison PREDICTION OF 1D STRUCTURAL FEATURES Secondary structure and solvent accessibility Transmembrane segments Coiled-coils Disordered regions Protein sorting signals PREDICTING PROTEIN 3D STRUCTURE Template-based (homology-based approaches) Template-based (fragment-based approaches) Model quality checks ANALYSIS OF PROTEIN STRUCTURE Mapping conservation Protein and ligand contacts Surface clefts, binding pockets, tunnels and internal cavities
3. SYSTEMS INTRODUCTION Protein/gene functional annotations ID conversions ANNOTATION ENRICHMENT ANALYSIS OF LARGE PROTEINS SETS PROTEIN INTERACTION NETWORKS METABOLIC NETWORKS Retrieve the metabolic-related information associated to a protein of interest Map a large set of proteins in the metabolome OTHER BIOLOGICAL NETWORKS
Описание: This work focuses on proteins and their structures, protein structure similarity searching at main representation levels and various techniques that can be used to accelerate similarity searches.
Автор: Taylor, William R. , Aszodi, Andras Название: Protein Geometry, Classification, Topology and Symmetry ISBN: 0367393786 ISBN-13(EAN): 9780367393786 Издательство: Taylor&Francis Рейтинг: Цена: 9492.00 р. Наличие на складе: Есть у поставщика Поставка под заказ.
Описание:
Using a geometric perspective, Protein Geometry, Classification, Topology, and Symmetry reviews and analyzes the structural principals of proteins with the goal of revealing the underlying regularities in their construction. It also reviews computer methods for structure analysis and the automatic comparison and classification of these structures with an analysis of the statistical significance of comparing different shapes. Following an analysis of the current state of protein classification, the authors explore more abstract geometric and topological representations, including the occurrence of knotted topologies. The book concludes with a consideration of the origin of higher-level symmetries in protein structure.
The authors focus on simple geometric methods that are deterministic rather than probabilistic and on the more abstract simplifications of protein structure that allow a better understanding of the overall fold of the structure. Most of the methods described in this book have corresponding computer programs. These can be found (as C source code) at the ftp site of the Division of Mathematical Biology at the National Institute for Medical Research. This collection of ideas contains pedagogical material that make it ideal for post-graduate courses as well as new ideas and results essential for researchers investigating protein structures.
Автор: Dariusz Mrozek Название: Scalable Big Data Analytics for Protein Bioinformatics ISBN: 3030075389 ISBN-13(EAN): 9783030075385 Издательство: Springer Рейтинг: Цена: 13974.00 р. Наличие на складе: Поставка под заказ.
Описание:
This book presents a focus on proteins and their structures. The text describes various scalable solutions for protein structure similarity searching, carried out at main representation levels and for prediction of 3D structures of proteins. Emphasis is placed on techniques that can be used to accelerate similarity searches and protein structure modeling processes.
The content of the book is divided into four parts. The first part provides background information on proteins and their representation levels, including a formal model of a 3D protein structure used in computational processes, and a brief overview of the technologies used in the solutions presented in the book. The second part of the book discusses Cloud services that are utilized in the development of scalable and reliable cloud applications for 3D protein structure similarity searching and protein structure prediction. The third part of the book shows the utilization of scalable Big Data computational frameworks, like Hadoop and Spark, in massive 3D protein structure alignments and identification of intrinsically disordered regions in protein structures. The fourth part of the book focuses on finding 3D protein structure similarities, accelerated with the use of GPUs and the use of multithreading and relational databases for efficient approximate searching on protein secondary structures.
The book introduces advanced techniques and computational architectures that benefit from recent achievements in the field of computing and parallelism. Recent developments in computer science have allowed algorithms previously considered too time-consuming to now be efficiently used for applications in bioinformatics and the life sciences. Given its depth of coverage, the book will be of interest to researchers and software developers working in the fields of structural bioinformatics and biomedical databases.
Автор: Gabriel Waksman Название: Proteomics and Protein-Protein Interactions ISBN: 1489996117 ISBN-13(EAN): 9781489996114 Издательство: Springer Рейтинг: Цена: 28732.00 р. Наличие на складе: Есть у поставщика Поставка под заказ.
Описание: Gabriel Waksman Institute of Structural Molecular Biology, Birkbeck and University College London, Malet Street, London WC1E 7HX, United Kingdom Address for correspondence: Professor Gabriel Waksman Institute of Structural Molecular Biology Birkbeck and University College London Malet Street London WC1E 7H United Kingdom Email: g.
Описание: This volume introduces bioinformatics research methods for proteins, with special focus on protein post-translational modifications (PTMs) and networks.
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