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Functional SNPs
__________________
The UNIVERSAL GENOMIC CODE
The MASTER CODE
Evidence of the FUNCTIONAL role
of the POSITION of SNPs
Dr J.C. Perez an old draft Bordeaux 21 June 2001
revisited in 2013
jeanclaudeperez2@gmail.com
http://fr.scribd.com/jean_claude_perez/documents
http://golden-ratio-in-dna.blogspot.fr/
http://www.amazon.co.uk/Codex-Biogenesis-harmonies-g%C3%A9nomelatome/dp/2874340448
.../... Fourth, we need to turn our new genomic information into an engine of pharmaceutical
discovery. Individuals human differ from one another by about one base pair per thousand.
These single nucleotide polymorphisms (SNPs) are markers that can allow epidemiologists
to uncover the genetic basis of many diseases..../...
Moreover, the analysis of SNPs will provide us with the power to uncover the genetic basis of
our individual capabilities such as mathematicability, memory, physical coordination, and
even, perhaps, creativity.
By Pr David BALTIMORE (NOBEL prize) in the historical Human Genome issue of
NATURE (15 February 2001, page 814: Our genome unveiled).
I - Highlights:
The MASTER CODE is partially described in the book CODEX
BIOGENESIS (chapter 20 and annexe):
http://www.amazon.co.uk/Codex-Biogenesis-harmonies-g
%C3%A9nome-latome/dp/2874340448
This discovery unifies the 3 languages of genetics: DNA, RNA and
Amino acids like sequences.
In http://file.scirp.org/Html/4-7401586_37457.htm
we demonstrated that the Human Reference Genome (HRG) is
tuned on specific numerical proportions at codon population level.
All the diference between personal genomes is located in SNPs.
Then we demonstrate here that the SNPs of the human genome
seems to be more important by their locations within the genome
unstead by their TCAG mutation values.
There is a kind of AMPLIFICATION perhaps a RESONANCE of the SNP then probably a new unknown FUNCTION of SNPs at
individual personal genomes. Here a DRAFT of unpublishe results
obtained 12 years ago...
II-About DIFFERENCIATION
-OVERVIEWS of the SNP data
meaning: FUNCTIONAL SNPs...
Summary:
Collection and the availability of thousands of SNPs of the human genome
(http://SNP.cshl.org et http://www.ncbi.nlm.nih.gov ) OPEN very great QUESTIONS like:
- Do SNPs have an influence at long distance in the genome (stability etc.)?
- Do SNPs play a crucial part promoters, modulation, tuning in the function and
expression of genes?
- Do the SNPs play on the contrary a local role and at very short distance?
- Etc
We studied this problem according to various points of view and starting from our two
fundamental discoveries to publish (see joint Draft A):
With the MASTER CODE :
-local short distance analysis (900 to 1000 bases available around each SNP in data
bases)
-Analysis of very large contigs multi-SNP: example of the study of 120000bases containing
16 SNPs which one changes overall swapping them on their extreme nucleotides values).
With the Universal GENOMIC Codes:
- research of the scope of effects of the SNP on the characteristic GENOMIC CODE of the
studied areas.
Curiously, it appeared the following facts:
- at the global level (Universal GENOMIC CODE and MASTER CODE) the SNP are
WITHOUT EFFECTS.
- at the local level, the SNP affects the MASTER CODES only at VERY SHORT
DISTANCE (study of about fifty bases).
But especially it appears TWO remarkable results: Universal GENOMIC Code seems
" conservative " and INVARIANT under the effect of the SNP!!!
And especially, finally, the following remarkable result:
SNPs ARE LOCATED in the very large majority of the cases in areas of the genome which
are POLES or remarkable SITES according to the MASTER CODE theory. In other
words, there is a very strong CORRELLATION between the site of the SNP and the character
" FUNCTIONAL SITE" (hollow minima or tops maxima) via the Genomics/Proteomics
analysis of the MASTER CODES.
However, although these areas are FUNCTIONNALLY STRATEGICS at very long distance,
the effect of the SNP is only, contradictorily, LOCAL only.
One thus sought " MEANING " to the information of SNPs following our double point of
view of the " MASTER CODES " (total Unification Genomics/Proteomics) and of
" Universal Genomic Code " (GLOBAL UNIFICATION and specific CODE characterizing
each chromosome or genome).
Chromosome1 region bands 1q31 1q32.1. The contig has 209216 bps without
undetermined...Etc...
So, various " points of sights " were studied based on this sample contig, meanwhile they are
not reported at this time in this draft report... focusing our attention on the following major
result:
We will retain here the point most remarkable:
Table
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Chromosome:
SNP
Golden Path
Contig
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Contig
Chrom (kb)
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Comments : we note that this SNP is located in a MASTER CODE FUNCTIONAL REGION
(characterized top classified positions or down classified positions). We must recall here that
extremum regions (global and local optimums, maximums and minimums) are linked with
FUNCTIONAL signification active sites in proteins, promoters in genomic contigs etc...).
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Comments : Here, we discover in the last zoom figure the typical teeth
characterize the Universal
of saw which
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Comments : we note here a transition from bottom status (12000 and 6000bps) to medium
status (3000bps) then, finally, to Top status (1500 and 750bps)...
6000bps
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750bps viewThen, finally, this local minimum appears to be a strong deep minimum...
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Finally, this minimum appear to be a real highly deep minimum in all embedded fractal
scales : long-range 12000bps and 6000bps, medium range 3000 and 1500bps, local shortrange 750bps...
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