Scalable big data analytics for protein bioinformatics : efficient computational solutions for protein structures /: efficient computational solutions for protein structures. (2018)

• Record Type: Book
• Further Information: Note: Dariusz Mrozek.
• Authors: Mrozek, Dariusz
• Contents: Intro; Foreword; Preface; Scope of the Book; Chapter Overview; Summary; Acknowledgements; Contents; Acronyms; Part I Background; 1 Formal Model of 3D Protein Structures for Functional Genomics, Comparative Bioinformatics, and Molecular Modeling; 1.1 Introduction; 1.2 General Definition of Protein Spatial Structure; 1.3 A Reference to Representation Levels; 1.3.1 Primary Structure; 1.3.2 Secondary Structure; 1.3.3 Tertiary Structure; 1.3.4 Quaternary Structure; 1.4 Relative Coordinates of Protein Structures; 1.5 Energy Properties of Protein Structures; 1.6 Summary; References. 2 Technological Roadmap2.1 Cloud Computing; 2.1.1 Cloud Service Models; 2.1.2 Cloud Deployment Models; 2.2 Big Data Challenge; 2.2.1 The 5V Model of Big Data; 2.2.2 Hadoop Platform; 2.3 Multi-threading and Multi-threaded Applications; 2.4 Graphics Processing Units and the CUDA; 2.4.1 Graphics Processing Units; 2.4.2 CUDA Architecture and Threads; 2.5 Relational Databases and SQL; 2.5.1 Relational Database Management Systems; 2.5.2 SQL For Manipulating Relational Data; 2.6 Scalability; 2.7 Summary; References; Part II Cloud Services for Scalable Computations; 3 Azure Cloud Services. 3.1 Microsoft Azure3.2 Virtual Machines, Series, and Sizes; 3.3 Cloud Services in Action; 3.4 Summary; References; 4 Scaling 3D Protein Structure Similarity Searching with Azure Cloud Services; 4.1 Introduction; 4.1.1 Why We Need Cloud Computing in Protein Structure Similarity Searching; 4.1.2 Algorithms for Protein Structure Similarity Searching; 4.1.3 Other Cloud-Based Solutions for Bioinformatics; 4.2 Cloud4PSi for 3D Protein Structure Alignment; 4.2.1 Use Case: Interaction with the Cloud4PSi; 4.2.2 Architecture and Processing Model of the Cloud4PSi; 4.2.3 Scaling Cloud4PSi. 4.3 Scalability of the Cloud4PSi4.3.1 Horizontal Scalability; 4.3.2 Vertical Scalability; 4.3.3 Influence of the Package Size; 4.3.4 Scaling Up or Scaling Out?; 4.4 Discussion; 4.5 Summary; References; 5 Cloud Services for Efficient Ab Initio Predictions of 3D Protein Structures; 5.1 Introduction; 5.1.1 Computational Approaches for 3D Protein Structure Prediction; 5.1.2 Cloud and Grid Computing in Protein Structure Determination; 5.2 Cloud4PSP for 3D Protein Structure Prediction; 5.2.1 Prediction Method; 5.2.2 Cloud4PSP Architecture; 5.2.3 Cloud4PSP Processing Model; 5.2.4 Extending Cloud4PSP. 5.2.5 Scaling the Cloud4PSP5.3 Performance of the Cloud4PSP; 5.3.1 Vertical Scalability; 5.3.2 Horizontal Scalability; 5.3.3 Influence of the Task Size; 5.3.4 Scale Up, Scale Out, or Combine?; 5.4 Discussion; 5.5 Summary; 5.6 Availability; References; Part III Big Data Analytics in Protein Bioinformatics; 6 Foundations of the Hadoop Ecosystem; 6.1 Big Data; 6.2 Hadoop; 6.2.1 Hadoop Distributed File System; 6.2.2 MapReduce Processing Model; 6.2.3 MapReduce 1.0 (MRv1); 6.2.4 MapReduce 2.0 (MRv2); 6.3 Apache Spark; 6.4 Hadoop Ecosystem; 6.5 Summary; References.
• Publisher Details: Cham : Springer
• Publication Date: 2018
• Extent: 1 online resource
• Subjects: 612/.01575; Computer science; Proteins -- Structure; MEDICAL -- Physiology; SCIENCE -- Life Sciences -- Human Anatomy & Physiology; Proteins -- Structure; Computers -- Hardware -- Network Hardware; Science -- Life Sciences -- Biochemistry; Science -- Life Sciences -- Anatomy & Physiology; Mathematics -- Applied; Network hardware; Proteins; Molecular biology; Maths for scientists; Bioinformatics; Computer Communication Networks; Biochemistry; Computers -- Computer Science; Life sciences: general issues; Electronic books
• Languages: English
• ISBNs: 9783319988399; 3319988395
• Related ISBNs: 9783319988382; 3319988387
• Notes: Note: Includes bibliographical references and index.; Note: Online resource; title from PDF title page (EBSCO, viewed October 3, 2018).
• Access Rights: Legal Deposit; Only available on premises controlled by the deposit library and to one user at any one time; The Legal Deposit Libraries (Non-Print Works) Regulations (UK).
• Access Usage: Restricted: Printing from this resource is governed by The Legal Deposit Libraries (Non-Print Works) Regulations (UK) and UK copyright law currently in force.