RNA secondary structure

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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A max-margin model for predicting residue-base contacts in protein-RNA interactions
Protein-RNA interactions (PRIs) are essential for many biological processes, so understanding aspects of the sequences and structures …
Shunya Kashiwagi, Kengo Sato, Yasubumi Sakakibara
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Rtools: a web server for various secondary structural analyses on single RNA sequences
The secondary structures, as well as the nucleotide sequences, are the important features of RNA molecules to characterize their …
Michiaki Hamada, Yukiteru Ono, Hisanori Kiryu, Kengo Sato, Yuki Kato, Tsukasa Fukunaga, Ryota Mori, Kiyoshi Asai
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Using binding profiles to predict binding sites of target RNAs
Prediction of RNA-RNA interaction is a key to elucidating possible functions of small non-coding RNAs, and a number of computational …
Unyanee Poolsap, Yuki Kato, Kengo Sato, Tatsuya Akutsu
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