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Sequence Similarity Searching
This workshop will introduce a variety of databases and tools, including:
- NCBI BLAST: set up and perform a search, decipher the output, analyze the results
- NCBI PSI-BLAST: used to identify wear/subtle homologies to annotated entries in the NCBI Entrez Protein database (Position Specific Iterated)
- BLink: displays the results of BLAST searches that have been done for every protein sequence in the Entrez Protein database
- EMBL-EBI: the European equivalent of NCBI, offering more sequence similarity searching tools
- Fasta: used for a fast protein comparison or a fast nucleotide comparison
- MPsrch: a biological sequence comparison tool
- ScanPS: a program for comparing a protein sequence to a database of protein sequences
- UCSC BLAT: a tool which performs rapid mRNA/DNA and protein alignments
Participants will learn how to answer questions like:
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Are there any sequences homologous to my sequence of interest?
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How do I determine the percent identity of two sequences?
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What is the domain architecture for my protein of interest?
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Are there any proteins that have similar domain architecture to my protein of interest?
This class is approved for AMA Category 2 CME credit.
If you have questions, contact the HSLS Molecular Biology Information Service:
Class PowerPoint Presentation
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Wednesday, November 18
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1 p.m. - 3:30 p.m.
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(Falk Library, Conference Room B)
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Instructor: Ansuman Chattopadhyay, PhD
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