Fly with me

Test citation link1.Jelly fish structural genes1

Test citation link2.HOX at Wikipedia2

Drosophila Melanogaster is another widely studied model organism ( in the insect family ) like Arabidopsis Thaliana ( a plant ). It is actually a specific bred variety of the common fly.

Tonight, I am going through the history of the study of homeobox at the molecular and genetic level to reinforce and repair concepts learned in graduate molecular genetics. As always I will investigate with the intent to make new associations, clarify my understanding of the process and consider the quality of the conclusions and identify where ( if anywhere ) it needs to be clarified or related to other elements of the embryonic or stem cell process to make a complete consistent algorithm for my genotype to phenotype methods.

My goal is to solidify my understanding, correct any misconceptions that have been propagated, and determine if the existing data is coherent with what I have determined to be the chemical level of its action.

For starters it has been my habit to indicate that HOX and homeobox are synonymous, however this does not seem to be the case. HOX is a subset of homeobox and perhaps I will have a better idea of how these are classified by their methods when I am done. They are considered cascading regulators that bind to major and minor groove, but can bind in a double major groove. These are minor issues ( no pun intended ) , but the causal possibilities would certainly expose whether this is significant in any way.

There is a large base of information to process and I will probably incorporate this into daily studies until the subject is covered completely and I am able to make the associations between homeobox and stem cell if there is an overlap, which I assume there is.

5'-ATGCAAAT-3'

5'-CATCATCATCATCATRAT-3' (pun intended)

A further interest is to get a jump on the action of what is considered junk DNA and to develop a framework to test the hypothesis that I developed with respect to its effect.

I will add links here as they are discovered and deemed to be significant so that I can refer to them as reference links in a later expansion of this method as it applies to antfarmgl.

  1. Science News: Jellyfish body plan complexity.
  2. Wikipedia: HOX genes
  3. The homeobox page.
  4. The definition of "motif" in genetic context.

The conserved DNA motif is 180 Base pairs in length ( excluding introns ( non coders )) and translates at a 1:3 ratio of 60 Amino Acids to a sequence motif that binds to the folds of DNA in an area that would be a regulatory site or transcription factor for other elements. I will define the code that is the association to object-action pairing in terms of the parallel execution paths of the process. It is much easier to demonstrate this process and the function of the genetic interaction in the form of a .blend file that operates as a playable sequence that morphs and evolves the structure of a cube as it is dupliverted in the same way as the growth of an embryo. The code ( DNA and "c" parallel ) are shown as they act and the changes and metamorphosis of the embryonic duplication is rendered as the product of this process along with the visualization of the DNA transcription control and expression as Amino Acids, siRNA, RNA loops, self-replicating RNA, RNA helpers and RNA operands like methylation maintenance epigenitic factors.

The rendering and representation of the process is essential to the overall method of instantiating the DNA itself in a nanomachine and modifying the interaction of the simulated process which in turn regulates the physical process and by consistent association of model and product the successive approximation of the final conditions are reached.

These links will be updated from time to time and don't think I am not working on UML, XML, blender, ant body plans, neural arrays, light computers, CAM, liquid circuits, or HTML and CSS also. These are all ongoing activities and they are filled in as new information is correlated and associated.

An interesting aside in bioinformatics is this:
PATTERN::( which arises from the concept of motif )
N{P}[ST]{P}
where N = Asn, P = Pro, S = Ser, T = Thr;
"X" and "Y" are used here to substitute for anything and are implied to be used in the normal mathematical way as variables and not intended to represent a specific Amino Acids.
{X} means any amino acid except X
[XY] means either X or Y
The interesting thing about this is its similarity to the use of these same concepts in programs where I might use an exclusion, a set of possible substitutions and things which must be the start of the sequence or at some point within. It has a very distinct flavor of of FSA ( Finite State Automata ) or "Regular Expressions". Strangely, like "grepping" and "sedding" DNA.

These techniques are essential parts of the mitochondrial operating system which would be used to immortalize an organism.

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