Similarity analysis of position specific motif matrices using lacunarity for promoter sequences

Kouser and Lalitha Rangarajan (2014) Similarity analysis of position specific motif matrices using lacunarity for promoter sequences. In: International Conference on Interdisciplinary Advances in Applied Computing.

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Official URL: http://doi.org/10.1145/2660859.2660949

Abstract

Understanding the knowledge accumulated in a large sequence data has become an increasingly important research. The focus of this study is to create position specific scoring matrices (PSMM) for biological sequences called promoter sequences and apply fractal measure called 'lacunarity' to find the similarity existing between them. For the experiments, the promoter data created exclusively for this study using the NCBI database is used. The promoters of length 500bps of the enzyme pyruvate kinase from the glycolysis pathway in different organisms is considered because of its universal presence. The results show high similarity between the organisms belonging to the same family. From this study lacunarity analysis seems to be a very powerful measure to interpret the similarity between promoter sequences across the species.

Item Type: Conference or Workshop Item (Paper)
Uncontrolled Keywords: Enzymes, Fractals, Lacunarity, Matrix algebra, Motifs, Position specific motif matrices (PSMM), Promoters, Pyruvate kinase, Similarity analysis
Subjects: D Physical Science > Computer Science
Divisions: Department of > Computer Science
Depositing User: Arshiya Kousar
Date Deposited: 03 Sep 2019 10:56
Last Modified: 11 Sep 2019 06:29
URI: http://eprints.uni-mysore.ac.in/id/eprint/3675

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