CS 5124: Algorithms in Bioinformatics

Fall Semester, 2003
Resourses on Protein Scoring Matrices

Paper(s) on (Point Accepted Mutations) PAM Matrices

1. Dayhoff, M. O., Eck, R. V., and Park, C. M. (1972)
   A Model of Evolutionary Change in Proteins.
   Atlas of Protein Sequence and Structure, Volume 5, 89-99.

2. Dayhoff, M. O. (1974)
   Computer Analysis of Protein Sequences.
   Federation Proceedings, Volume 33, Number 12, 2314-2316.

3. Dayhoff, M. O. (1978)
   The Origin and Evolution of Protein Superfamilies.
   Federation Proceedings, Volume 35, Number 10, 2132-2138.

Paper(s) on (Blocks Substitution Matrix) BLOSUM Matrices

1. Steven Henikoff and Jorja G. Henikoff (1992)
   Amino acid substitution matrices from protein blocks
   Proc Natl Acad Sci U S A 89, pp. 10915-10919.

Internet Resources for PAM, BLOSUM, and Other Protein Scoring Matrices

• BLOSUM and PAM matrices from NCBI

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