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Helix untwisting and bubble formation in circular DNA
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10.1063/1.4807381
/content/aip/journal/jcp/138/20/10.1063/1.4807381
http://aip.metastore.ingenta.com/content/aip/journal/jcp/138/20/10.1063/1.4807381
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Figures

Image of FIG. 1.
FIG. 1.

(a) Helicoidal model for circular DNA with bending planes. The blue filled circles are the pointlike bps stacked along the molecule backbone. In the ground state, all bps lie on the circumference with ray . The red-shaded areas are spanned by the fluctuational vectors whose amplitude is measured by | | for the . ϕ is the bending of the plane with respect to the (′, ′) plane, ′ being normal to the sheet plane. (b) Local reference system for the . θ measures the twisting around the molecule backbone. The z-axis is tangent to the ground state circle.

Image of FIG. 2.
FIG. 2.

Helical repeat for the sequence in Eq. (4) . (Inset) Entropy versus temperature computed via Eq. (3) .

Image of FIG. 3.
FIG. 3.

Number of consecutive base pairs whose stretchings are larger than ξ (in Å) with respect to the ground state (a)–(c). The bubble sizes are dependent. The symbols abscissas mark the central base pair in the bubbles.

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/content/aip/journal/jcp/138/20/10.1063/1.4807381
2013-05-28
2014-04-23
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752b84549af89a08dbdd7fdb8b9568b5 journal.articlezxybnytfddd
Scitation: Helix untwisting and bubble formation in circular DNA
http://aip.metastore.ingenta.com/content/aip/journal/jcp/138/20/10.1063/1.4807381
10.1063/1.4807381
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