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In bioinformatics and evolutionary biology, a substitution matrix describes the frequency at which a character in a nucleotide sequence or a protein sequence changes to other character states over evolutionary time. The information is often in the form of log odds of finding two specific character states aligned and depends on the assumed number of evolutionary changes or sequence dissimilarity between compared sequences. It is an application of a stochastic matrix. Substitution matrices are usually seen in the context of amino acid or DNA sequence alignments, where they are used to calculate similarity scores between the aligned sequences.
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References
- ↑ "HENIKOFF LAB". research.fhcrc.org.
- ↑ "Steven Henikoff".
- ↑ "Steven Henikoff - Fred Hutchinson Cancer Research Center Researcher Profiles Arnold Library and Shared Resources". sharedresources.fredhutch.org.
- ↑ Henikoff, S.; Henikoff, J.G. (1992). "Amino Acid Substitution Matrices from Protein Blocks". PNAS. 89 (22): 10915–10919. Bibcode:1992PNAS...8910915H. doi: 10.1073/pnas.89.22.10915 . PMC 50453 . PMID 1438297.
- ↑ Azar, B. (2007). "Profile of Steven Henikoff". PNAS. 104 (50): 19665–19667. Bibcode:2007PNAS..10419665A. doi: 10.1073/pnas.0710322104 . PMC 2148353 . PMID 18077398.
- ↑ "Steve Henikoff, geneticist and inventor". Fred Hutch. Archived from the original on 2018-12-24. Retrieved 2016-11-21.
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