Improving Free Energy Functions for RNA Folding. RNA Secondary Structure Prediction. Why RNA is Important. Machinery of protein construction Catalytic role in cells May be possible to destroy specific sequences of RNA (to interrupt protein production) RNase P (Cech/Altman c.1981).
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Improving Free Energy Functions for RNA Folding
RNA Secondary Structure Prediction
Zuker (1981) Nucleic Acids Research 9(1) 133-149
Hofacker et al. (1994) Monat. Chem. 125 167-188
See proposal for references
The free energy of a secondary structure equals the sum of the free energies of the loops and stacked pairs
Tinoco et al. (1971) Nature 230 362-367.
(23 52 3 3.2)
Fit stems of P2 into C1 or C2 randomly.
Placement must be conflict free.