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Title |
Schematic for efficient computation of GC, GC3, and AT3 bias spectra of genome |
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Authors |
Ahsan Z Rizvi, Venu Gopal T, C Bhattacharya* |
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Affiliation |
Department of Electronics Engineering, Defence Institute of Advanced Technology, Girinagar, Pune, 411025, India.
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cbhat0@diat.ac.in; *Corresponding author
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Article Type |
Prediction models
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Date |
Received December 16, 2011; Accepted January 07, 2012; Published February 03, 2012
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Abstract |
Selection of synonymous codons for an amino acid is biased in protein translation process. This biased selection causes repetition of synonymous codons in structural parts of genome that stands for high N/3 peaks in DNA spectrum. Period-3 spectral property is utilized here to produce a 3-phase network model based on polyphase filterbank concepts for derivation of codon bias spectra (CBS). Modification of parameters in this model can produce GC, GC3, and AT3 bias spectra. Complete schematic in LabVIEW platform is presented here for efficient and parallel computation of GC, GC3, and AT3 bias spectra of genomes alongwith results of CBS patterns. We have performed the correlation coefficient analysis of GC, GC3, and AT3 bias spectra with codon bias patterns of CBS for biological and statistical significance of this model.
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Citation |
Rizvi et al.
Bioinformation 8(3): 163-166 (2012) |
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Edited by |
P Kangueane
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ISSN |
0973-2063
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Publisher |
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License |
This is an Open Access article which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. This is distributed under the terms of the Creative Commons Attribution License. |