These substitution matrices are often meant to be used either when one knows the structure of one protein (the potential template, for instance) or when one has a predicted secondary structure (for the target), or both. That is, unlike BLOSUM matrices, the matrix used depends on the known ...
These matrices are used in Bioinformatics to compare amino acids in the alignment procedures. However, the methodology can be used in other applications to discover the intrinsic dimensionality of a wide class of symmetrical matrices. The discovery of the intrinsic dimensionality of substitutions ...
These matrices are used in Bioinformatics to compare amino acids in the alignment procedures. However, the methodology can be used in other applications to discover the intrinsic dimensionality of a wide class of symmetrical matrices. The discovery of the intrinsic dimensionality of substitutions ...
The BLOSUM matrices estimate the likelihood for one amino acid to be substituted with another, and are commonly used in sequence alignments. Each BLOSUM matrix is associated with a parameter x-the matrix elements are computed based on the diversity among sequences of no more than x% similar. ...