Abstract | Nonetheless, DNA hairpin stem structure that generally embraces B-form with canonical base pairs is poorly understood in the context of periodic noncanonical A. . |
Abstract | Transition from B-to-Z is due to the mechanistic effect that originates from its pronounced nonisostericity with flanking canonical base pairs facilitated by base extrusion, backbone and/or base flipping. |
Author Summary | Such DNA sequences tend to form unusual DNA structures comprising of base pairing schemes different from the canonical A. . |
Author Summary | .C base pairs . |
Author Summary | Influence of such unusual base pairing on the overall 3-dimensional structure of DNA and its impact on the pathogenesis of disorder is not well understood. |
Results | .A23 pair amidst canonical base pairs (Fig. |
Introduction | helix by measurements of the twist angle between consecutive base pairs , implementing the TwistFlex software previously developed [11] for the analysis of human fragile sites [3, 12] and its adaptation to fast long sequences analysis. |
StabFIex algorithm | The conformation of DNA and its sequence dependence are mainly determined by the chemical structures of the base pairs and their interactions. |
StabFIex algorithm | The computational model by Sarai et al [68] examines DNA flexibility on the basis of base pairs interactions and the results agree With available experimental observations. |
Supporting Information | logz distance in base pairs from 280, 1,476, and 86 significantly differentially used novel 3’SSs (82 File) to their associated canonical 3’SSs in (A) BRCA, (B) CLL, and (C) UM analyses respectively. |
Supporting Information | Inset shows base-by-base binning from zero to 50 base pairs upstream of canonical 3’SS. |
Supporting Information | The number in the upper corner of each plot is the distance in base pairs from the highest or sec-ond-highest scoring BP predicted for the associated canonical 3’SS to the cryptic 3’SS. |