[Fis] [Fwd: Information And Locality, Addendum's]--Steven

Steven Ericsson-Zenith steven at iase.us
Fri Oct 2 22:50:43 CEST 2015

Dear Pedro,

I greet your response with thanks and a sigh of relief. At least someone is
paying attention. :-)

I understand your concern re. multiple parts and apparent complexity in the
full "life-cycle" as you speak of it.  I suspect that there underlie it all
a few very simple rules, and this is my premise.

Central to this view is this notion of locality.  In the organism
structure, no localized action is entirely isolated.  Even "... the very
different signaling capabilities/properties of one component, two
components, three components, and above all, the sigma factors ..." are
unified by it, and this is manifest in our own refined and coordinated
capacity to see, taste, hear, touch, smell the roses, feel pain, pleasure,
and move simultaneously.

We cannot apply the strict locality notions of computer engineering. There
is no isolated point-to-point signal.

So I do expect that the same hyperfunctor mathematics of closed structure
that I have described for cells applies across all (closed)
membrane structures and within.

Despite this, we, as an example of this messy complexity, are still able to
refine the action of habit to amazing precision and refine thought to
stunning exactitude.

This is clearly an article of faith on my part in Wigner's "unreasonable
effectiveness" of mathematics and the simplicity advocated by Einstein. Who
could have imagined a century ago that the apparent complexity of
 celestial mechanics would be tractable to a single theory such as

So because of this I am confident in my very simple approach and you will
see shortly, in a subsequent post, how the mathematics is simplified and
extends to the forces of physical science generally to produce a holistic
mathematical physics, including the effects of gravitation,
electromagnetism (chemistry), and sense.

I suspect that Darwinian evolution is itself messy, leaving behind it both
redundant and useless artifacts. Engineering-wise I believe that a
simplified genomics is both possible and ultimately programmable. Enabling
us to devise organisms with particular behaviors able to serve our
inevitable causes. And, of course, I return to those in large-scale
computation and to my grand-challenge to place life where it would not
otherwise occur.


On Fri, Oct 2, 2015 at 5:00 AM, Pedro C. Marijuan <pcmarijuan.iacs en aragon.es
> wrote:

> Dear Steven and FIS colleagues,
> Sorry about the problems with the server. Next messages, please, send them
> directly to me and I will re-enter.
> The approach to locality you have explained is interesting. In general it
> looks right, as biological information can be widely delocalized,
> relatively delocalized, but also strictly localized. Apart from your
> examples on allosterism and receptor synergistic action, the gradients of
> second messengers and the transmembrane transmission of signaling effects
> in other receptors may be instances of the relative class, and the base
> pairing of nucleotides would correspond to the localized class. If I am not
> wrong, it is quite difficult to shoehorn into a single category the bioinfo
> architectures of the cell. Therefore in general I use the "info flow"
> parlance, for the result of the cell's communication with the environment
> is quite often a Brownian flow or an "influence" (mostly of the delocalized
> class) that travels towards the action centers of the cell --the
> transcription factors that guide gene expression.
> Then, arriving at that instance, I have some disagreement in the way
> Guenther speaks about the syntactic-semantic-pragmatic rules applying to
> any sign-system of natural biocommunication language. Imagine, following
> with the previous paragraph, that we have just received (E. coli) a puff of
> cAMP signal from the environment. It has been trapped by some receptors of
> a two component system and some activated transcription factors  CRP type
> travel to express around 400 different genes. Of course, it previously
> depends on the dominant sigma factors (if sigma 70 dominates, it is OK,
> otherwise there might be problems with the previous sequence). Well, most
> of this narrative is fictitious, but the problem is how do you express in
> "rule-mediated" statements this type of half-known tremendous complexity?
> How do you handle the very different signaling capabilities/properties of
> one component systems, two components, three components, and above all, the
> sigma factors --that in my view are most of them essential for connecting
> with the life cycle; they represent the equivalent to our "moods" and
> "emotions". Otherwise I think he is quite right in the conflation of signs
> and sign-users at the sub-viral level. I consider it, potentially, a
> breakthrough complementing the symbiotic theory of Lynn Margulis with a new
> viral (sub-viral) branch, plus the well-known archeal and eubacterial ones.
> Unfortunately, the neglect of the life cycle is almost universal. Neither
> neuroscientists nor psychologists nor social scientists are sufficiently
> aware of this invisible "water" that permeates all living stuff. Echoing
> some old evolutionary statement, everything should made sense in relation
> with the advancement of the corresponding life cycle. Just the superficial
> observation of human exchanges in our societies, or in whatever historical
> epoch, the conversational small-talk topics, the way people greet each
> other, the gossip media... the condensates of the individuals' info cycles
> are everywhere. A new conceptualization of information as accompanying the
> development of human action for the sake of life cycles and subtending the
> cooperation structures of economic life could have wide multidisciplinary
> interest--I think. (Unfortunately, these adventures are discouraged: Mark
> is terribly right about the sorrow state of our collective brain
> reservoirs--poor universities! kingdoms of conventionalism and tunnel
> vision).
> To conclude, the emphasis on the generative also allows some connection
> with Howard's and Bob's  criticisms on the "dead"  approach to
> cosmological matters.  I do not venture to expose my own naive views,
> rather will repeat a wonderful sentence from Michael Conrad (1996): "When
> we look at a biological system we are looking at the face of the underlying
> physics of the universe."
> best--Pedro
> Pedro C. Marijuan wrote:
>> (From Steven)
>> -------- Original Message --------
>> Subject:     Information And Locality, Addendum's
>> Date:     Mon, 28 Sep 2015 16:46:41 -0700
>> From:     Steven Ericsson-Zenith <steven en iase.us>
>> To:     Foundations of Information Science Information Science <
>> fis en listas.unizar.es>
>> CC:     Pedro Marijuan <pcmarijuan.iacs en aragon.es>
>> Dear List,
>> Looking over my promises in this discussion I have two particular notes
>> to provide. These got put aside as I became distracted by both the server
>> issues and my health.
>> I promised to provide a historical statement (referencing Benjamin
>> Peirce, Einstein and Turing) and a brief mathematical statement.  I will
>> make these statements separately over the coming days.
>> Pedro, I note that server issues continue. Regards,
>> Steven
>> --
>>  Dr. Steven Ericsson-Zenith, Los Gatos, California. +1-650-308-8611
>>  http://iase.info
>> ---
>> _______________________________________________
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> --
> -------------------------------------------------
> Pedro C. Marijuán
> Grupo de Bioinformación / Bioinformation Group
> Instituto Aragonés de Ciencias de la Salud
> Centro de Investigación Biomédica de Aragón (CIBA)
> Avda. San Juan Bosco, 13, planta X
> 50009 Zaragoza, Spain
> Tfno. +34 976 71 3526 (& 6818)
> pcmarijuan.iacs en aragon.es
> http://sites.google.com/site/pedrocmarijuan/
> -------------------------------------------------
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