I am happy to inform you that my research paper titled “Evolved cellular automata for protein secondary structure prediction imitate the determinants for folding observed in nature” has been published in the journal In Silico Biology.
The details of the publication are as following:
Paras Chopra and Andreas Bender. Evolved cellular automata for protein secondary structure prediction imitate the determinants for folding observed in nature. In Silico Biol. 7, 0007 (2006).
Abstract: We demonstrate the first application of cellular automata to the secondary structure predictions of proteins. Cellular automata use localized interactions to simulate global phenomena, which resembles the protein folding problem where individual residues interact locally to define the global protein conformation. The protein’s amino acid sequence was input into the cellular automaton and rules for updating states were evolved using a genetic algorithm. An optimized accuracy (Q3) for the RS126 and CB513 dataset of 58.21% and 56.51%, respectively, could be obtained. Thus, the current work demonstrates the applicability of a rather simple algorithm on a problem as complex as protein secondary structure prediction.
Full text link: http://www.bioinfo.de/isb/2006/07/0007/
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