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. 2012 Mar 14;2:315. doi: 10.1038/srep00315

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Copyright © 2012, Macmillan Publishers Limited. All rights reserved

This work is licensed under a Creative Commons Attribution-NonCommercial-No Derivative Works 3.0 Unported License. To view a copy of this license, visit http://creativecommons.org/licenses/by-nc-nd/3.0/

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Following Ref.12 the FA (dots) and DFA (squares) fluctuation plots are shown, normalized here by (Δn)^0.5 (top panel). Note the concave up curvature of the FA results, and the approximately flat DFA results. Karlin & Brendel model predictions (here recast into linear form, ) for λ-DNA (middle, lower panels) are close to the observed FA measured fluctuations (dots). A linear fit (grey line) indicates the Karlin & Brendal model is suitable; for two patch types an analytic prediction of fluctuations (grey squares) captures the observed λ-DNA fluctuations (black dots) surprisingly well, where the patch biases required for prediction are empirically estimated from the sequence. Some short-range structure, visible when inspecting the residual between the model and the data (bottom panel), is not accounted for by the two-type patch model, and is attributable to a notable short-range correlation in the DNA sequence, where base-pairs which are separated by two others are (positively) correlated.

Inline graphic — Following Ref.12 the FA (dots) and DFA (squares) fluctuation plots are shown, normalized here by (Δn)^0.5 (top panel). Note the concave up curvature of the FA results, and the approximately flat DFA results. Karlin & Brendel model predictions (here recast into linear form, ) for λ-DNA (middle, lower panels) are close to the observed FA measured fluctuations (dots). A linear fit (grey line) indicates the Karlin & Brendal model is suitable; for two patch types an analytic prediction of fluctuations (grey squares) captures the observed λ-DNA fluctuations (black dots) surprisingly well, where the patch biases required for prediction are empirically estimated from the sequence. Some short-range structure, visible when inspecting the residual between the model and the data (bottom panel), is not accounted for by the two-type patch model, and is attributable to a notable short-range correlation in the DNA sequence, where base-pairs which are separated by two others are (positively) correlated.