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October 10 & 12, 2017

DATABASE SIMILARITY SEARCHES



REFERENCES

Madden T. The BLAST Sequence Analysis Tool. 2013 Mar 15. In: The NCBI Handbook [Internet]. 2nd edition. Bethesda (MD): National Center for Biotechnology Information (US); 2013-. Available from: https://www.ncbi.nlm.nih.gov/books/NBK153387/

Schuler GD (1998) Sequence alignment and database searching In Baxevanis AD and Ouellette BFF. Eds. Bioinformatics: A practical guide to the analysis of genes and proteins. John Wiley, Toronto.

Setubal, J. and Meidanis, J. (1997) Introduction to Computational Molecular Biology. PWS Publishing Co., Toronto. Ch. 3 "Sequence Comparison and Database Search".

Wilbur, WJ and Lipman DJ (1983) Rapid similarity searches of nucleic acid and protein databanks. Proc. Natl. Acad. Sci. USA 80:726-730)

ASSIGNED READING

Pearson WR Flexible sequence similarity searching with the FASTA3 program package. In Misener S, Krawetz S. (1999) Bioinformatics Methods and Protocols, pp 185-219, Humana Press.


A. Sequence Databases

B. Database similarity searches

C. Tutorial - Database searches using FASTA

D. Tutorial: Running Large Jobs



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