PMC:1459172 / 3548-4516 JSONTXT

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/1459172","sourcedb":"PMC","sourceid":"1459172","source_url":"https://www.ncbi.nlm.nih.gov/pmc/1459172","text":"From the computational point of view, this requires the extension of RNA folding algorithms to include intermolecular as well as intramolecular base pairs. Several approximations have been described in the literature: Rehmsmeier et al. [26] as well as Dimitrov and Zuker [27] introduced algorithms that consider exclusively intermolecular base pairs, leading to a drastic algorithmic simplification of the folding algorithms since multi-branch loops are by construction excluded in this case. Andronescu et al. [28], like the present contribution, consider all base pairs that can be formed in secondary structures in a concatenation of the two hybridizing molecules. This set in particular contains the complete structural ensemble of both partners in isolation. Mückstein et al. [29] recently considered an asymmetric model in which base pairing is unrestricted in a large target RNA, while the (short) interaction partner is restricted to intermolecular base pairs.","tracks":[{"project":"2_test","denotations":[{"id":"16722605-15383676-1692545","span":{"begin":237,"end":239},"obj":"15383676"},{"id":"16722605-15240459-1692546","span":{"begin":272,"end":274},"obj":"15240459"},{"id":"16722605-15644199-1692547","span":{"begin":512,"end":514},"obj":"15644199"}],"attributes":[{"subj":"16722605-15383676-1692545","pred":"source","obj":"2_test"},{"subj":"16722605-15240459-1692546","pred":"source","obj":"2_test"},{"subj":"16722605-15644199-1692547","pred":"source","obj":"2_test"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"2_test","color":"#ea93ec","default":true}]}]}}