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. 2006 Jan 31;34(2):564–574. doi: 10.1093/nar/gkj454

Figure 2.

Figure 2

Effect of ambient conditions on PAGE of nicked (open circles) and gapped (closed circles) molecules. Relative mobilities of AA/F and G2/F fragments are measured (a) at different temperatures, PAGE conditions: 1× TBE, 2.3 M urea; (b) as a function of ionic strength, PAGE conditions: 37°C, 3.5 M urea, 1× TBE appended with NaCl (total concentration of sodium assuming 1× TBE to be equivalent to 15 mM Na+ is indicated, see Figure 4); (c) in the presence of urea, PAGE conditions: 37°C, 1× TBE. (d) Effect of denaturant concentration on stacking parameters of AA/F calculated from mobility data using Equations 1 and 2. PAGE was carried out in 1× TBE at 42°C in the presence of varying concentrations of urea (closed diamonds), DMF (open diamonds) or in the absence of the denaturant (dotted diamond).