Distribution of amino-acids coding genetic information in yeast ORFs

• Autorzy: Bartkowiak A. , Szustalewicz A.
• Języki publikacji: EN

Abstrakty

EN

The genetic code of living organisms is inscribed into so called Open Reading Frames (ORFs) positioned in chromosomes. The code uses 20 amino-acids as building blocks of the inscribed information. We consider in details the 7th yeast chromosome containing together 593 ORFs and account how many times each of the 20 amino-acids appears in subsequent ORFs. It is found that the counts follow the negative binomial (NB) distribution with a surprisingly good fit. This is shown (i) graphically, (ii) applying (with some restrictions) the non-parametric Kolmogorov test, (iii) establishing critical levels by simulations.

Słowa kluczowe

EN

Negative binomial distribution; Frequency of amino-acids in genetic code

• Wydawca: Komisja Informatyki Polskiej Akademii Nauk, Oddział w Gdańsku
• Czasopismo: Metody Informatyki Stosowanej
• Rocznik: 2008
• Tom: nr 3 (Tom 16)
• Strony: 33--39
• Opis fizyczny: Bibliogr. 13 poz., rys., tab.

Twórcy

autor

Bartkowiak A.

• University of Wrocław, Institute of Computer Science

autor

Szustalewicz A.

• University of Wrocław, Institute of Computer Science
• Wrocław High School of Applied Informatics

Bibliografia

• [1] Bartkowiak A., Szustalewicz A. Intrinsic dimensionality of data and of their representatives. A case study of amino-acid distribution in ORFs. In: V. Snasel et al. (Eds), IEEE Proceedings, CISIM 2008, 177-182. IEEE Computer Society, Los Alamitos, CA. 2008.
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• [8] Karlis D., Xekalaki E. Mixed Poisson distributions. International Statistical Review 73, Nb. 1, April, 35-58, 2005.
• [9] Luo L., Li H., Zhang L. ORF organization and gene recognition in the yeast genome. Comparative and Functional Genomics 4, 318-328, 2003.
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• [11] Meintanis S. G. Transform methods for testing the negative binomial hypothesis. Statistica 65 (no. 3), 293-300, 2005.
• [12] Nikopoulos A. K., Karlis D. On modelling count data: a comparison of some wellknown discrete distributions. Journal of Statistical Computation and Simulation 78(3), March, 437-457, 2008.
• [13] Wikipedia (en), 2008. http://en.wikipedia.org/wiki/Negative binomial distribution, http://en.wikipedia.org/wiki/Amino acid.