Fig. 4: Performance of machine learning directed aptamer length truncation. | Nature Communications

Fig. 4: Performance of machine learning directed aptamer length truncation.

From: Machine learning guided aptamer refinement and discovery

Fig. 4

a, b Box-plots and swarmplots showing model scores for candidate aptamers calculated across multiple sequence backgrounds. Each swarm/box plot corresponds to one core sequence: each point represents the core sequence in a different sequence background, each box represents the median, lower, and upper quartiles, and whiskers correspond to 1.5x the interquartile range. Sequence lengths with multiple swarm/box plots indicate cases where multiple different subsequences of the same length were tested experimentally. Particle display affinity level for a truncated sequence is shown by shade of green in the corresponding swarm. c, d KD curves showing the affinity of the full-length sequences (orange, purple) and 23 nt truncations (blue, teal) for G12 and G13, respectively. e, f Secondary structures of the full-length sequence and 23 nucleotide (nt) truncations for G12 and G13, respectively. Each nt is indicated by a small circle (A (maroon), C (blue), G (brown), T (green)). Covalent bonds in the phosphodiester backbone are shown in black and hydrogen bonds between bases are shown in magenta). The TGGATAG motif is outlined in blue.

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