27 citations · 40 across the 5 of their papers we have counts for
5 papers
A protein structural alphabet and its substitution matrix CLESUM
Wei-Mou Zheng, Xin Liu
By using a mixture model for the density distribution of the three pseudobond angles formed by atoms of four consecutive residues, the local structural states are discretized…
Amino acid substitution matrices for protein conformation identification
Xin Liu, Wei-Mou Zheng
Methods for alignment of protein sequences typically measure similarity by using substitution matrix with scores for all possible exchanges of one amino acid with another. Although…
Prediction of protein secondary structure based on residue pairs
Xin Liu, Li-mei Zhang, Wei-Mou Zheng
The GOR program for predicting protein secondary structure is extended to include triple correlation. A score system for a residue pair to be at certain conformation state is deriv…
Simplified amino acid alphabets based on deviation of conditional probability from random background
Xin Liu, Di Liu, Ji Qi +1
The primitive data for deducing the Miyazawa-Jernigan contact energy or BLOSUM score matrix consists of pair frequency counts. Each amino acid corresponds to a conditional probabil…
Distances and classification of amino acids for different protein secondary structures
Xin Liu, Li-mei Zhang, Shan Guan +1
Window profiles of amino acids in protein sequences are taken as a description of the amino acid environment. The relative entropy or Kullback-Leibler distance derived from profile…