The Genetic Coding Style of Digital Organisms

@inproceedings{citeulike:327183, abstract = {Recently, all the human genes were identified. But understanding the functions coded in the genes is of course a much harder problem. We are used to view DNA as some sort of a computer code, but there are striking differences. For example, by using entropy, it has been shown that the DNA code is much closer to random code than written text, which in turn is less ordered than ordinary computer code. Instead of saying that the DNA is badly written, using common programming standards, we might say that it is written in a different style − an evolutionary style. In this paper the coding style of creatures from the artificial life platform Avida has been studied. Avida creatures that have evolved under different size merit methods and mutation rates have been analysed using the notion of stylistic measures. The analysis has shown that the evolutionary coding style depends on the environment in which the code evolved, and that the choice of size merit method and mutation probabilities affect different stylistic properties of the genome. A better understanding of Avida’s coding style, might eventually lead to insights of evolutionary codes in general.}, author = {Gerlee, Philip and Lundh, Torbj\"{o}rn }, booktitle = {Advances in Artificial Life : 8th European Conference, ECAL 2005, Canterbury, UK, September 5-9, 2005, Proceedings}, citeulike-article-id = {327183}, comment = {from http://www.citeulike.org/user/eldan/article/326571 ---=note-separator=--- http://www.math.chalmers.se/~torbjrn/coding\_style/}, editor = {Capcarrere, Mathieu and Freitas, Alex A. and Bentley, Peter J. and Johnson, Colin G. and Timmis, Jon }, keywords = {evolution, genetics, modelling}, month = {September}, pages = {854--863}, posted-at = {2005-09-20 20:30:56}, priority = {3}, publisher = {Springer}, title = {The Genetic Coding Style of Digital Organisms}, year = {2005} }

TY - CONF ID - citeulike:327183 L3 - citeulike-article-id:327183 TI - The Genetic Coding Style of Digital Organisms T2 - Advances in Artificial Life : 8th European Conference, ECAL 2005, Canterbury, UK, September 5-9, 2005, Proceedings SP - 854 EP - 863 PB - Springer N2 - Recently, all the human genes were identified. But understanding the functions coded in the genes is of course a much harder problem. We are used to view DNA as some sort of a computer code, but there are striking differences. For example, by using entropy, it has been shown that the DNA code is much closer to random code than written text, which in turn is less ordered than ordinary computer code. Instead of saying that the DNA is badly written, using common programming standards, we might say that it is written in a different style − an evolutionary style. In this paper the coding style of creatures from the artificial life platform Avida has been studied. Avida creatures that have evolved under different size merit methods and mutation rates have been analysed using the notion of stylistic measures. The analysis has shown that the evolutionary coding style depends on the environment in which the code evolved, and that the choice of size merit method and mutation probabilities affect different stylistic properties of the genome. A better understanding of Avida’s coding style, might eventually lead to insights of evolutionary codes in general. KW - evolution KW - genetics KW - modelling N1 - from http://www.citeulike.org/user/eldan/article/326571 N1 - http://www.math.chalmers.se/~torbjrn/coding_style/ AU - Gerlee, Philip AU - Lundh, Torbjörn A2 - Capcarrere, Mathieu A2 - Freitas, Alex A2 - Bentley, Peter A2 - Johnson, Colin A2 - Timmis, Jon PY - 2005/09// ER -