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A new formalism for calculation of the partition function of single stranded nucleic acids
[article]
2005
arXiv
pre-print
A new formalism for calculation of the partition function of single stranded nucleic acids is presented. Secondary structures and the topology of structure elements are the level of resolution that is used. The folding model deals with matches, mismatches, symmetric and asymmetric interior loops, stacked pairs in loop and dangling end regions, multi-branched loops, bulges and single base stacking that might exist at duplex ends or at the ends of helices. Calculations on short and long sequences
arXiv:q-bio/0510011v1
fatcat:6nkj735v7jhdpc46gqjwwjjuky