Transformation of sequence data into geometric symbols.
To overcome the monotony of identifying specific patterns in a sequence or mutations in their alignment, transformation of sequence data into geometric symbols was previously suggested. I suggest a simple, improved method for accomplishing this transformation using the search and replace function available with word processing programs. This strategy a) enables facile transformation and back-transformation of the preexisting sequence and alignment data, which eliminates the manual entry of sequence, b) can be efficiently applied to amino acid sequences and their alignment data to identify the presence of specific motifs or repeat units and c) allows the use of any ASCII character for a given transformation, thus providing the flexibility to focus on a given unit of the sequence. A WordPerfect macro function has been provided along with the explanation of strategy for use with other programs.
Shankarappa
B
B
Department of Pathology, University of Pittsburgh School of Medicine, PA 15261.
D000595:Amino Acid Sequence; D001483:Base Sequence; D008969:Molecular Sequence Data; D012984:Software