Re: BioSystems - paper somewhat related to (M,R)-systems

[Ayten Aydin <***>]

Dear Tim,
I read the article you mentioned. I am of the same opinion that Rosennean theory is not applied to their work in terms modeling relations, as far as I understand,. There does not seem to follow causality-implication, thus decoding-encoding between the system and its model which is the main concept in the RR theory, I guess. In effect, their work does not go beyond the hybrid automata model which may not have required the fuller use of Rosen's M-R even it is there claimed that highly nonlinear dynamics and nondeterminism  can be captured in a formal setting. This setting may miss the requirements of the RR's M-R meant for the highly complex living systems. These are my impressions as non-expert (yet) on Rosennean Bio-theory, which I believe hide much more truth than revealed in this article. Perhaps it does not open a right door either. What do you think?
Regards,
Ayten

On May 11, 2005, at 4:47 AM, Tim Gwinn wrote:

> In the June 2005 issue of BioSystems, there is a paper entitled "A hybrid systems framework for cellular processes", by Cho, Johansson and Wolkenhauer. (see end of email) The paper invokes Rosen's (M,R)-system in its discussions. However, the paper is primarily about using "hybrid automata" for modeling of cellular dynamics.
>  
> I have only had a chance to skim the preprint of the paper, but it seems to me that the references to the (M,R)-system fail to appreciate its meaning and its implications. The paper seems to utilize Casti's interpretation of the (M,R)-system rather than Rosen's original intentions. The formalisms are those used by Casti, not those used by Rosen.
>  
> I may comment more when I've had more time to read it in depth. But I wanted to toss it out here to hear what others on the list think.
>  
> Regards,
> Tim
>  
> P.S - There looks to be a couple of other interesting papers in that issue, particularly the one on "live memory".
>  
> ==============================
>  
> BioSystems, vol 80, issue 3 (273-282):
>     doi:10.1016/j.biosystems.2004.12.002 
>  
> Preprint on Wolkenhauer's website:
> http://www.sbi.uni-rostock.de/docs/p_mr_paper.pdf
>  
>