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Introduction
What is BLAST?
Query Sequence in FASTA Format
What does BLAST tell you?
Choices
BLAST Programs: Which One to Use?
BLAST Databases: Which One to Search?
Examples
Nucleotide-Nucleotide BLAST (blastn)
(Demo: dinosaur sequence 1)
Request ID: RID
Search Results: Understanding the Output
Biotechniques
Publication
In The Next Book...
How Did BLAST Work?
Query Parsing for Nucleotide-Nucleotide Searches
Scoring System for Nucleotide Sequence Pairwise Alignments
Another Book, Another Sequence...
(Demo: dinosaur sequence 2)
Protein-Protein BLAST (blastp)
Translated BLAST (blastx)
Using Translated BLAST
(Demo: also using dinosaur sequence 2)
How Did BLAST Work?
Query Parsing for Protein-Protein Searches
Scoring System for Protein Sequence Pairwise Alignments
includes a
Sample Substitution Matrix
Getting Serious - A Real Example: Human Colon Cancer Gene
(Demo BLAST search with MLH1 RefSeq protein against Swiss-Prot database)
Options
Alignment Views
Modifying BLAST Search Parameters
Additional BLAST programs
More Similarity Programs
Other Ways to Retrieve Similar Sequences
Conserved Domain Search (CD-Search)
(demo with with MLH1 RefSeq protein sequence)
Hands-On
Mastery Exercises
Identify the Gene Involved in a Sleep Disorder
Compare the Normal vs. Disease Gene
Animation: PER Protein in Normal vs. Early Wake Sleep Patterns
User Questions
More...
References
Slide List for This Module
BLAST
Revised 11/05/2007
