Cell Language Theory, The: Connecting Mind And Matter

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“6x9” b2861 The Cell Language Theory: Connecting Mind and Matter

Figure 3.44 Mechanical strains of DNA localized at sequence-specific sites within circu-

lar DNA duplexes. The x-axis records the nucleotide positions along the DNA duplex and

the y-axis records the Gibbs free energy required to separate the base pairs located at posi-

tion x along the DNA duplex chain. Notice that the base pairs located near the 3′-end (i.e.,

the right-hand end of the arrow) of some genes are already completely separated (see

position 138.7 in (a) and 3.8 in (b)), hence storing SDDS or conformons therein.

3.4.3 Stress-Induced Duplex Destabilizations as Conformons

In the early 1990s, C. Benham developed a statistical mechanical formal-

ism to describe the dynamics of the mechanical strains introduced in cir-

cular DNA duplexes [79, 80, 226]. His computational results indicated

that the so-called “stress-induced duplex destabilizations” (SIDDs)

(equivalent to a in Table 3.19) were not randomly distributed along the

circular DNA duplex but were confined predominantly in the 5′ and 3′

ends of RNA coding regions. Three examples of SIDDs are shown in

Figure 3.44 (see the directed arrows), where the downward deflections

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