Pseudoknots

Direct inference of base-pairing probabilities with neural networks improves prediction of RNA secondary structures with pseudoknots
Existing approaches to predicting RNA secondary structures depend on how the secondary structure is decomposed into substructures, that …
Manato Akiyama, Yasubumi Sakakibara, Kengo Sato
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Prediction of RNA secondary structure including pseudoknots for long sequences
RNA structural elements called pseudoknots are involved in various biological phenomena including ribosomal frameshifts. Because it is …
Kengo Sato, Yuki Kato
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IPknot: fast and accurate prediction of RNA secondary structures with pseudoknots using integer programming
MOTIVATION: Pseudoknots found in secondary structures of a number of functional RNAs play various roles in biological processes. Recent …
Kengo Sato, Yuki Kato, Michiaki Hamada, Tatsuya Akutsu, Kiyoshi Asai
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