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Fixed-Parameter Tractable Sampling for RNA Design with Multiple Target Structures

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Academic year: 2021

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Fig. 1. General outline of RNARedPrint for base pair-based energy models. From a set of target secondary struc- struc-tures (i), base-pairs are merged (ii) into a (base pair) dependency graph (iii) and transformed into a tree  decom-position (iv)
Fig. 2. Targeting specific energies using multi-dimensional Boltzmann sampling. (A) Turner energy distributions for three target structures (right) while targeting (−40, −40, −20) and (−20, −20, −20) free energy vectors
Table 1. Comparison of the multi-stable design objective function ( Eq. (2) of sequences sampled by RNARedPrint vs
Fig. 3. Treewidths for multi-target RNA design instances of different complexity. Distributions of treewidths shown as boxplots for the base pair (left) and stacking model (right).
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