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Notes on NCBI's Basic Local Alignment Search Tool ([http://blast.ncbi.nlm.nih.gov/Blast.cgi# BLAST]) software suite: | |||
=Algorithms= | |||
==Nucleotide blast== | |||
blastn: | |||
megablast | |||
==Protein blast== | |||
BLASTp | |||
Psi-BLAST | |||
Delta-BLAST | |||
==Other== | |||
blastx: blastx is used to search a protein database using a translated nucleotide sequence query. | |||
tblastn: tblastn is used to search a translated nucleotide database using a protein sequence query. | |||
tblastx: tblastx is used to search a translated nucleotide database using a translated nucleotide sequence query. | |||
Primer-BLAST | |||
Bibliography: | |||
Ian Korf: BLAST: http://www.amazon.com/dp/0596002998/ref=rdr_ext_tmb | |||
=Tips= | |||
Selecting a different algorith may be the difference between a hit and a "no significant similarity found" result. If no significant similarity is found at first attempt, try several algorithms. | |||
=Bibliography= | |||
http://www.nature.com/scitable/topicpage/basic-local-alignment-search-tool-blast-29096 | |||
Latest revision as of 08:46, 25 May 2013
Notes on NCBI's Basic Local Alignment Search Tool (BLAST) software suite:
Algorithms
Nucleotide blast
blastn:
megablast
Protein blast
BLASTp
Psi-BLAST
Delta-BLAST
Other
blastx: blastx is used to search a protein database using a translated nucleotide sequence query.
tblastn: tblastn is used to search a translated nucleotide database using a protein sequence query.
tblastx: tblastx is used to search a translated nucleotide database using a translated nucleotide sequence query.
Primer-BLAST
Bibliography:
Ian Korf: BLAST: http://www.amazon.com/dp/0596002998/ref=rdr_ext_tmb
Tips
Selecting a different algorith may be the difference between a hit and a "no significant similarity found" result. If no significant similarity is found at first attempt, try several algorithms.
Bibliography
http://www.nature.com/scitable/topicpage/basic-local-alignment-search-tool-blast-29096
