An object oriented environment for artificial evolution of protein sequences: The example of rational design of transmembrane sequences
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A system is presented for generating peptide sequences with desirable properties, using combination of neural network and artificial evolution. The process is illustrated by an example of a practical problem of generating artificial transbilayer peptides. The peptides generated in the process of artificial evolution have the physico-chemical properties of transmembrane peptides, and forms stable transmembrane structures in testing Monte Carlo simulations. The artificial evolution system is designed to emulate natural evolution; therefore it is of both practical and theoretical interest, both in terms of rational design of protein sequences and modeling of natural evolution of proteins.