Genome analysis: A new approach for visualization of sequence organization in genomes |
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Authors: | Pradeep Kumar Burma Alok Raj Jayant K Deb Samir K Brahmachari |
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Institution: | (1) Molecular Biophysics Unit, Indian Institute of Science, 560 012 Bangalore, India;(2) Department of Computer Engineering, Birla Institute of Technology, Mesra, 835 215 Ranchi |
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Abstract: | In this article we describe and demonstrate the versatility of a computer program, GENOME MAPPING, that uses interactive graphics
and runs on an IRIS workstation. The program helps to visualize as well as analyse global and local patterns of genomic DNA
sequences. It was developed keeping in mind the requirements of the human genome sequencing programme, which requires rapid
analysis of the data. Using GENOME MAPPING one can discern signature patterns of different kinds of sequences and analyse
such patterns for repetitive as well as rare sequence strings. Further, one can visualize the extent of global homology between
different genomic sequences. An application of our method to the published yeast mitochondrial genome data shows similar sequence
organizations in the entire sequence and in smaller subsequences |
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Keywords: | Genome mapping DNA sequence analysis fractal chaos game representation mitochondrial genomes Mycobacterium nucleotide sequences |
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