Representation of amino acids as five-bit or three-bit patterns for filtering protein databases

@article{Coghlan2001RepresentationOA,
  title={Representation of amino acids as five-bit or three-bit patterns for filtering protein databases},
  author={Avril Coghlan and D{\'o}nall A. Mac D{\'o}naill and Nigel H. Buttimore},
  journal={Bioinformatics},
  year={2001},
  volume={17 8},
  pages={676-85}
}
MOTIVATION We propose representing amino acids by bit-patterns so they may be used in a filter algorithm for similarity searches over protein databases, to rapidly eliminate non-homologous regions of database sequences. The filter algorithm would be based on dynamic programming optimization. It would have the advantage over previous filter algorithms that… CONTINUE READING