Author: Alguwaizani, Saud; Park, Byungkyu; Zhou, Xiang; Huang, De-Shuang; Han, Kyungsook
Title: Predicting Interactions between Virus and Host Proteins Using Repeat Patterns and Composition of Amino Acids Document date: 2018_5_9
ID: 0dxrai3j_6
Snippet: Proteins are of different lengths and have different amino acid compositions. Many features of proteins have been used to predict PPIs from protein sequences. In this study, we represent a virus-host PPI by three features (F1, F2, and F3): F1: sum of squared length of single amino acid repeats (SARs) in the entire protein sequence F2: maximum of the sum of squared length of SARs in a window of 6 residues F3: composition of amino acids in 5 partit.....
Document: Proteins are of different lengths and have different amino acid compositions. Many features of proteins have been used to predict PPIs from protein sequences. In this study, we represent a virus-host PPI by three features (F1, F2, and F3): F1: sum of squared length of single amino acid repeats (SARs) in the entire protein sequence F2: maximum of the sum of squared length of SARs in a window of 6 residues F3: composition of amino acids in 5 partitions of the protein sequence F1, which is the sum of squared length of SARs in the protein sequence, is defined by (1). Since SAR of length 1 is also included in F1, the F1 score reflects global composition of amino acids as well as amino acid repeats. Figure 1 shows an example of how we compute F1.
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