MICB 405 Bioinformatics MiniLab

1
MICB 405 BioinformaticsMini-Lab 2 - BLAST

• Dr. Joanne Fox
• joanne_at_msl.ubc.ca

2
Objectives

• By the end of todays tutorial
• You will use the web interface at the NCBI to run
  a BLAST search.
• You will investigate the graphical view, the
  BLAST hits list, and the pairwise alignments
  for the results of this BLAST search.
• You will view the taxonomy reports for this BLAST
  result.

3
Search Entrez for NP_644805.1
4
Retrieve FASTA sequence
5
Copy (and Paste) Sequence
6
(No Transcript)
7
(No Transcript)
8
(No Transcript)
9
(No Transcript)
10
(No Transcript)
11
(No Transcript)
12
A graphical view of your BLAST results
13
The BLAST hit list
14
BLAST local pairwise alignment
15
Distance tree of results
16
BLAST Tree View Widget
Stat 5A
Stat 5B
17
Taxonomy reports
18
Sorting BLAST results by Taxonomy
19
Formatting options
20
Limit Results by Organism
21
Links

• NCBI BLAST page
• http//www.ncbi.nlm.nih.gov/BLAST/
• The NCBI Query Tutorial
• http//www.ncbi.nlm.nih.gov/Education/BLASTinfo/qu
  ery_tutorial.html
• The NCBI BLAST Tutorial
• http//www.ncbi.nlm.nih.gov/Education/BLASTinfo/tu
  t1.html
• The NCBI BLAST Program Selection Guide.
• http//www.ncbi.nlm.nih.gov/blast/producttable.sht
  ml