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An Efficient Algorithm and Schematic for Computation of GC, GC3, and AT3 Bias Spectra

Ahsan Z. Rizvi, C. Bhattacharya

Abstract



GC, GC3, AT3 bias spectra, and codon bias spectra (CBS) are generated through a 3-phase network model of genome. This model locates the regions in genome where distribution of nucleotide combinations and codons are non uniform and are biased towards protein translation. Correlation and regression analysis are performed here for estimating the preponderance of GC, GC3, AT3 bias at nucleotide positions of genome. Statistical analysis show higher correlation for synonymous codons with C or G being at the third position of codons (GC3). A complete LabVIEW schematic is presented here for efficient and parallel computation of GC, GC3, AT3 bias spectra along with CBS.

Keywords


Period-3, CBS, GC, GC3 and AT3 bias spectra, LabVIEW schematic.

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