High Performance Computational Methods for Biological Sequence Analysis

High Performance Computational Methods for Biological Sequence Analysis by Tieng K. Yap, Ophir Frieder, Robert L. Martino.

High Performance Computational Methods for Biological Sequence Analysis presents biological sequence analysis using an interdisciplinary approach that integrates biological, mathematical and computational concepts. These concepts are presented so that computer scientists and biomedical scientists ca...

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Bibliographic Details
Main Authors: Yap, Tieng K. (Author), Frieder, Ophir (Author), Martino, Robert L. (Author)
Corporate Author: SpringerLink (Online service)
Format: eBook
Language:English
Published: New York, NY : Springer US : Imprint: Springer, 1996.
Edition:1st ed. 1996.
Series:Springer eBook Collection.
Subjects:
Computers.
Human genetics.
Biomathematics.
Microprocessors.
Electronic resources (E-books)
Online Access:Click to view e-book
Holy Cross Note:Loaded electronically.
Electronic access restricted to members of the Holy Cross Community.
Table of Contents:
  • 1 Introduction
  • 1.1 The Human Genome Project
  • 1.2 Informatics
  • 1.3 Summary
  • 2 Biological Background
  • 2.1 Introduction
  • 2.2 Types of biological sequences
  • 2.3 DNA extraction and amplification
  • 2.4 Sequencing technology
  • 2.5 Sequence databases
  • 2.6 Summary
  • 3 Sequence Analysis Algorithms
  • 3.1 Introduction
  • 3.2 Substitution score matrices
  • 3.3 Pairwise sequence alignment
  • 3.4 Multiple sequence alignment
  • 3.5 Sequence similarity searching
  • 3.6 Summary
  • 4 High Performance Computing Architectures and Techniques
  • 4.1 Introduction
  • 4.2 Parallelism: what and why?
  • 4.3 Types of computation
  • 4.4 Classification schemes
  • 4.5 Metrics
  • 4.6 Performance related factors
  • 4.7 Summary
  • 5 Multiprocessor Sequence Alignment
  • 5.1 Introduction
  • 5.2 Pairwise sequence alignment
  • 5.3 Multiple sequence alignment
  • 5.4 Summary
  • 6 Multiprocessor Sequence Similarity Searching
  • 6.1 Introduction
  • 6.2 Fine-grain approach
  • 6.3 Coarse-grain approach
  • 6.4 Summary
  • 7 Biological Sequence Resources on the Internet
  • 7.1 Introduction
  • 7.2 Accessing tools
  • 7.3 Search engines
  • 7.4 Summary
  • 8 Looking to the Future
  • References.

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