Fig. 2: A reusable DNA catalyst.
From: Heat-rechargeable computation in DNA logic circuits and neural networks
a, Reaction pathway. The thickness of the arrows indicates the relative forward and backward rates for each reversible reaction step; thicker arrows indicate faster rates. b, Reactions and simulation of reset. Reactions in black and grey indicate the desired and undesired reactions, respectively. c,d, Total concentrations of fluorescent molecules after heating and cooling (c) and 90% reaction completion times with 1× input (d) for eight distinct designs predicted by simulations and measured by experiments. Bar labels 0, 6 and 7 indicate the size of the loop toehold and its matching reporter toehold, whereas 6:7 indicates a 6-nt loop toehold and 7-nt reporter toehold. The bar charts are on the basis of the data in Supplementary Figs. 13–16. Error bars indicate the standard deviation for four sets of repeated experiments. e, Key design choices. T′ indicates T with a nucleotide deletion at the 3′-end. f, Simulations and fluorescence kinetics experiments of a reusable DNA catalyst. Here and in the following figures, the standard concentration 1× denotes 100 nM. The solid and dotted trajectories represent simulations and experiments, respectively. The hairpin gate (GY), fuel (F) and reporter (RQ) are at 1×, 2× and 2×, respectively. A full list of the DNA sequences is provided in Supplementary Table 2.
