Dichotomic Classes, Correlations, and Entropy Optimization in Protein Coding Sequences

• Activity Number: 391
• Type: Contributed
• Date/Time: Tuesday, August 5, 2014 : 2:00 PM to 3:50 PM
• Sponsor: Korean International Statistical Society
• Author(s): Simone Giannerini*+
• Companies: University of Bologna
• Keywords: Cross Entropy ; DNA ; coding sequences ; Correlation

Abstract

In this talk we introduce and study dichotomic classes, motivated by the mathematical model of the genetic code studied in Gonzalez (2008), Giannerini et al.(2012). Dichotomic classes can be defined as nonlinear functions of the information contained in a dinucleotide and represent precise biochemical interactions. We use the dichotomic classes as a coding scheme for DNA sequences and study their mutual dependence. We obtain meaningful tests by using an entropy based measure possessing many desirable properties together with suitable resampling techniques. We find universal correlation structures that might be related to the mechanisms of error correction and entropy optimization in the management of genetic information.

REFERENCES

D. L. Gonzalez. The mathematical structure of the genetic code. In M. Barbieri and J. Hoffmeyer, editors, The Codes of Life: The Rules of Macroevolution, vol 1 of Biosemiotics, chapter 8, pages 111-152. Springer Netherlands, 2008.

S. Giannerini, D. L. Gonzalez, and R. Rosa. DNA, frame synchronization and dichotomic classes: a quasicrystal framework. Phylosophical Transactions of the Royal Society, Series A, Vol. 370, Number 1969, 2987-3006, 2012.