Advanced BLAST Searching

  1. Jonathan Pevsner

Published Online: 28 JAN 2005

DOI: 10.1002/047145916X.ch5

Book Title

Bioinformatics and Functional Genomics

Bioinformatics and Functional Genomics

Additional Information

How to Cite

Pevsner, J. (2005) Advanced BLAST Searching, in Bioinformatics and Functional Genomics, John Wiley & Sons, Inc., Hoboken, NJ, USA. doi: 10.1002/047145916X.ch5

Publication History

  1. Published Online: 28 JAN 2005
  2. Published Print: 18 JUN 2004

ISBN Information

Print ISBN: 9780471210047

Online ISBN: 9780471459163

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CHAPTER TOOLS

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Keywords:

  • gene expression;
  • mRNA;
  • cDNA;
  • microarrays;
  • genomic analysis

Summary

This chapter includes the following topics:

  • Introduction

  • Specialized BLAST Sites

  • BLAST-Like Alignment Tools to Search Genomic DNA Rapidly

  • Finding Distantly Related Proteins: Position-Specific Iterated BLAST (PSI-BLAST)

  • Pattern-Hit Initiated BLAST (PHI-BLAST)

  • Using BLAST for Gene Discovery

  • Perspective

  • Pitfalls

  • Web Resources

  • Discussion Questions

  • Problems

  • Self-Test Quiz

  • Suggested Reading

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