Correlation of the methylation of BRCA1 and RASSF1A in EOC tissues (3)

BRCA and RASSF1A bio code

BRCA and RASSF1A bio code is an area of bio-macromolecules and processes in biochemistry (chemical engineering, bioprocess engineering, information technology, biorobotics) that treats signals as stochastic processes, dealing with their biosignal properties (e.g., frequences, mean, covariance, etc.).

In this context, biocodes are modeled as functions consisting of both deterministic and stochastic components. A simple example and also a common model of many bio systems is a signal Bio(t) that consists of a deterministic part x(t) as white Bio code. (Figure 2)

Bio(t) = [X1,2,3,n(t) – X1,2,3,n(t)]

X(t) = Biocode 1,2,3,n

(A,B,C) –(B,C,D) = Biocode 1;

(B,C,D – C,D,E) = Biocode 2;

(D,E,F – E,F,G) = Biocode 3;

etc.

where A,B,C,n represent the connection of groups nucleotides position, 1,2,3,n

Example:

BRCA

Atomic numbers:

G	G	T	T	A	A
78	78	66	66	70	70
1	2	3	4	5	6

Bio(t) = (G,G,T) – (T,A,A) > [(78,78,66) – (66,70,70)]

I

(787866-667070) = 120796;

Figure 2. Fragment of primer sequences of BRCA₁

Notes: The connection of the groups of these nucleotides gives us number 120796 as a result. That was the code that represent one of the quantitative characteristics of the given genetic information. Thys, the union of these nucleotides generates the number 120796, which is a code representing one of the quantitative characteristics of the given genetic information.

In a similar way we can calculate biocodes for other groups of nucleotides, which are connected by various biocodes and analog codes, as well as other quantitative features.

Connection is one of numerical expressions that connects various corresponding features in biochemistry. It has a very prominent place in our mathematical understanding of all processes in biochemistry. This is a recently discovered phenomenon the role and significance of which will hopefully be clarified in the future. Those bioprocess are well correlated, and the autocorrelation function is a biocode:

BioI = (X1,2,3,n(t) – X1,2,3,n(t)) = [(-)Y n (+)Y]

[(-)Y = (+)Y]

where Y represent result of function biocode.

Results

BRCA₁

Mathematical evidence is provided here to prove that in the biochemistry of BRCA₁ there really is programmatic and cybernetic algorithm in which it is „recorded“, in the language of mathematics, how the molecule will be built and what will be the quantitative characteristics of the given genetic information.

Bio(BRCA₁) = [X1,2,3,n(t) – X1,2,3,n(t)]

Where

X(t) = Bio codes 1,2,3,n

Bio(BRCA₁) = (A,B,C) –(B,C,D);

Examples are presented in Figure 3.

Bio(BRCA₁)1

G	G	T
78	78	66
1	2	3

I

(78,78,66) > 787866;

G	T	T
78	66	66
2	3	4

I

(78,66,66)>786666;

(787866-786666) = 1.200;

Bio(BRCA₁)1 = 1.200;

Bio(BRCA₁)2

G	T	T
78	66	66
2	3	4

I

(78,66,66)>786666;

T	T	A
66	66	70
3	4	5

I

(66,66,70)> 666670;

(786666 – 666670) = 119.996;

Bio(BRCA₁)2 = 119.996;

etc.

Figure 3. Examples of biocodes

These biocodes presented in Figure 3 are calculated using the relationship between corresponding groups of nucleotides. These are groups with different numbers of nucleotides. There are different ways and methods of selecting these groups of nucleotides, which method is most efficient. Some bio codes have a positive numeric value and some have a negative one. Table 1 gives these codes.

Table 2. Bio(BRCA₁)^3’

Bio codes 1,2,3,n	Bio codes 1,2,3,n	(1-2) (-)	(1-2) (+)
1	2	3	4
GGT>787866	GTT>786666	0	1200
GTT>786666	TTA>666670	0	119996
TTA>666670	TAA>667070	-400	0
TAA>667070	AAT>707066	-39996	0
AAT>707066	ATT>706666	0	400
ATT>706666	TTT>666666	0	40000
TTT>666666	TTA>666670	-4	0
TTA>666670	TAG>667078	-408	0
TAG>667078	AGA>707870	-40792	0
AGA>707870	GAG>787078	-79208	0
GAG>787078	AGT>707866	0	79212
AGT>707866	GTT>786666	-78800	0
GTT>786666	TTT>666666	0	120000
TTT>666666	TTT>666666	0	0
TTT>666666	TTG>666678	-12	0
TTG>666678	TGA>667870	-1192	0
TGA>667870	GAG>787078	-119208	0
GAG>787078	AGA>707870	0	79208
AGA>707870	GAG>787078	-79208	0
GAG>787078	AGA>707870	0	79208
AGA>707870	GAT>787066	-79196	0
GAT>787066	ATG>706678	0	80388
ATG>706678	GGT>787866	-81188	0
SUM		(-)599612	(+)599612

Table 2. Overview of positive and negative values of biocodes for BRCA₁ showing some of the

quantitative characteristc of the BRCA₁ and the exact mathematical balance between its

components, Shematic representation of the biocode processing (I)

Table 3. Bio(BRCA₁)^5’

Bio codes 1,2,3,n	Bio codes 1,2,3,n	(1-2) (-)	(1-2) (+)
1	2	3	4
GGTTA>7878666670	GTTAA>7866667070	0	11999600
GTTAA>7866667070	TTAAT>6666707066	0	1199960004
TTAAT>6666707066	TAATT>6670706666	-3999600	0
TAATT>6670706666	AATTT>7070666666	-399960000	0
AATTT>7070666666	ATTTA>7066666670	0	3999996
ATTTA>7066666670	TTTAG>6666667078	0	399999592
TTTAG>6666667078	TTAGA>6666707870	-40792	0
TTAGA>6666707870	TAGAG>6670787078	-4079208	0
TAGAG>6670787078	AGAGT>7078707866	-407920788	0
AGAGT>7078707866	GAGTT>7870786666	-792078800	0
GAGTT>7870786666	AGTTT>7078666666	0	792120000
AGTTT>7078666666	GTTTT>7866666666	-788000000	0
GTTTT>7866666666	TTTTG>6666666678	0	1199999988
TTTTG>6666666678	TTTGA>6666667870	-1192	0
TTTGA>6666667870	TTGAG>6666787078	-119208	0
TTGAG>6666787078	TGAGA>6678707870	-11920792	0
TGAGA>6678707870	GAGAG>7870787078	-1192079208	0
GAGAG>7870787078	AGAGA>7078707870	0	792079208
AGAGA>7078707870	GAGAT>7870787066	-792079196	0
GAGAT>7870787066	AGATG>7078706678	0	792080388
AGATG>7078706678	GGTTA>7878666670	-799959992	0
SUM		-5192238776	+5192238776

Table 3. Overview of positive and negative values of biocodes for BRCA_1. Shematic representation of the biocode processing