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Similarity/Dissimilarity Analysis of Protein Sequences by a New Graphical Representation.

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Mainly based on pKa (NH3+) values of amino acid, a novel graphical method without degeneracy for protein sequences has been proposed firstly, which assists in viewing, aligning and comparing multiple sequences visually. Then, a new algorithm to extract a 40-dimensional numerical vector from graphical curves has been presented to characterize protein sequences. The similar relationship among sequences is computed by Euclidean distance on corresponding numerical vectors. Finally, our method is applied for similarity analysis of protein sequences on two data sets. The results are in agreement with the acknowledged view proved by a great deal of evidence from anatomy and hence demonstrate the validity of this approach.
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Keywords: Graphical representation; numerical characterization; phylogenetic tree; protein sequence; similarity analysis

Document Type: Research Article

Publication date: November 1, 2013

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  • Current Bioinformatics aims to publish all the latest and outstanding developments in bioinformatics. Each issue contains a series of timely, in-depth reviews written by leaders in the field, covering a wide range of the integration of biology with computer and information science.

    The journal focuses on reviews on advances in computational molecular/structural biology, encompassing areas such as computing in biomedicine and genomics, computational proteomics and systems biology, and metabolic pathway engineering. Developments in these fields have direct implications on key issues related to health care, medicine, genetic disorders, development of agricultural products, renewable energy, environmental protection, etc.

    Current Bioinformatics is an essential journal for all academic and industrial researchers who want expert knowledge on all major advances in bioinformatics.
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