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Complexity Digest 2009.17 - 09
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2009/08/14

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Editor-in-Chief: Carlos Gershenson
Founding Editor: Gottfried Mayer

Quantitative measure of randomness and order for complete genomes, Phys. Rev. E
 









Abstract: We propose an order index, phi, which gives a quantitative measure of
randomness and order of complete genomic sequences. It maps genomes to a number
from 0 (random and of infinite length) to 1 (fully ordered) and applies
regardless of sequence length. The 786 complete genomic sequences in GenBank
were found to have phi values in a very narrow range, phig=0.031-0.015+0.028. We
show this implies that genomes are halfway toward being completely random, or,
at the “edge of chaos.” We further show that artificial “genomes”
converted from literary classics have phi's that almost exactly coincide with
phig, but sequences of low information content do not. We infer that phig
represents a high information-capacity “fixed point” in sequence space, and
that genomes are driven to it by the dynamics of a robust growth and evolution
process. We show that a growth process characterized by random segmental
duplication can robustly drive genomes to the fixed point.
Source: Quantitative measure of randomness and order for complete genomes[
http://dx.doi.org/10.1103/PhysRevE.79.061911 ], Sing-Guan Kong, Wen-Lang Fan,
Hong-Da Chen, Jan Wigger, Andrew E. Torda, H. C. Lee, DOI:
10.1103/PhysRevE.79.061911, Phys. Rev. E 79, 061911, 2009/06/09

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