Talk:The future of Biomatics and Biology

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 Is this all there is to Biomatics? Is it just Turing computation with proteins etc as gates? What about the differences in protein interaction due to the stochastic nature of the interactions between active areas in interacting proteins (see the work of F.T. Hong), or the continual movelement of protein elements (see Nature March 10, 2011: http://www.nature.com/news/2011/110309/pdf/471151a.pdf).  Can these underlying differences right at the lowest level make  difference at higher levels? Or see http://inbiosa.eu for the beginnings of a project with a slightly more radical view.

 

Biomatics is all about mathematical "structures" as they naturally occur in biological systems. Turing and Von Neumann (http://en.wikipedia.org/wiki/Von_Neumann_architecture) computing being the dominant current paradigm naturally inspires many comparisons, but biological systems, no doubt, are much more complex, even at the level of quantum mechanics Protein Based Computing. The entire wiki is an attempt to chronicle the possibilities wherever they may occur, and to explore the possible applications.

 

Regarding “Breaking the Protein Rules” by Chouard, this is a great example of the need to expand Biology curricula to include computational studies. Biologists in general have little to no knowledge of computer science and computationally related mathematics. Where biologist may see “disorder” and stochastic processes, there may in fact be highly structured yet dynamic computational  structures e.g. Boolean algebras and algorithmic processes.
 
Chouard asks “if dogma dictates that proteins need a structure to function, then why do so many of them live in a state of disorder?” See Smart molecules for one possible answer, also The Histone Code , The Amino Acid Code, and The Telomere Code.

Perry Moncznik 4-6-2011

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