Detecting protein homology using NCBI tools
Part 4. Bioinformatics
4.8. Modern Programming Paradigms in Biology
Published Online: 15 JAN 2005
Copyright © 2005 John Wiley & Sons, Ltd
Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics
How to Cite
Matten, W. T. and McGinnis, S. D. 2005. Detecting protein homology using NCBI tools. Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics. 4:4.8:93.
- Published Online: 15 JAN 2005
The National Center for Biotechnology Information (NCBI) processes more than 100 000 sequence similarity searches a day using the computer program, BLAST® – Basic Local Alignment Search Tool. A common use of BLAST is to locate sequences in the NCBI databases that are related to the query sequence. Various “flavors” of BLAST can also detect known conserved domains in the query sequence, find related sequences that contain a supplied pattern, and perform sensitive searches using automated construction of position-specific scoring matrices. The results of precomputed BLAST searches are available for nearly all protein sequences housed at the NCBI. Similarly, solved protein structures are compared to identify structurally related proteins using the Vector Alignment Search Tool (VAST).
- sequence similarity;