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SOMAP: a novel interactive approach to multiple protein sequences alignment.

D J Parry-Smith¹, T K Attwood

¹Astbury Department of Biophysics, University of Leeds, UK.

Computer Applications in the Biosciences : CABIOS

|April 1, 1991

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This study introduces a new interactive tool for creating protein sequence alignments, offering unlimited sequence handling and flexible pattern matching for researchers.

Area of Science:

Bioinformatics
Computational Biology
Molecular Biology

Background:

Multiple protein sequence alignment is crucial for understanding protein function, evolution, and structure.
Existing alignment tools may have limitations in handling large datasets or complex patterns.

Purpose of the Study:

To present a novel interactive method for generating multiple protein sequence alignments.
To develop a program with no inherent limits on the number or length of sequences.

Main Methods:

Interactive manual sequence manipulation.
Symbolic displays of sequence identities and similarities.
Strict and 'fuzzy' pattern-matching capabilities.
Integration with automatic alignment systems and sequence analysis packages.

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Main Results:

The developed program accommodates an unlimited number and length of protein sequences.
Interactive manipulation is enhanced by visual aids and advanced pattern matching.
The system offers flexibility through interfaces with external bioinformatics tools.

Conclusions:

The novel interactive method provides a powerful and flexible solution for multiple protein sequence alignment.
This approach enhances the analysis of large and complex sequence datasets in bioinformatics.