An improved general amino acid replacement matrix.

  title={An improved general amino acid replacement matrix.},
  author={Si Quang Le and Olivier Gascuel},
  journal={Molecular biology and evolution},
  volume={25 7},
Amino acid replacement matrices are an essential basis of protein phylogenetics. They are used to compute substitution probabilities along phylogeny branches and thus the likelihood of the data. They are also essential in protein alignment. A number of replacement matrices and methods to estimate these matrices from protein alignments have been proposed since the seminal work of Dayhoff et al. (1972). An important advance was achieved by Whelan and Goldman (2001) and their WAG matrix, thanks to… CONTINUE READING
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