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Bioinformatics (Oxford, England)|December 20, 2008
Prediction of RNA secondary structure using generalized centroid estimatorsMichiaki Hamada, Hisanori Kiryu, Kengo Sato, et al.Bioinformatics (Oxford, England)|May 30, 2009
Predictions of RNA secondary structure by combining homologous sequence informationMichiaki Hamada, Kengo Sato, Hisanori Kiryu, et al.Mobile DNA|April 4, 2025
REPrise: de novo interspersed repeat detection using inexact seedingAtsushi Takeda, Daisuke Nonaka, Yuta Imazu, et al.Bioinformatics (Oxford, England)|August 16, 2006
Mining frequent stem patterns from unaligned RNA sequencesMichiaki Hamada, Koji Tsuda, Taku Kudo, et al.Bioinformatics (Oxford, England)|October 8, 2009
CentroidAlign: fast and accurate aligner for structured RNAs by maximizing expected sum-of-pairs scoreMichiaki Hamada, Kengo Sato, Hisanori Kiryu, et al.Bioinformatics (Oxford, England)|June 21, 2011
IPknot: fast and accurate prediction of RNA secondary structures with pseudoknots using integer programmingKengo Sato, Yuki Kato, Michiaki Hamada, et al.BMC Genomics|January 29, 2016
Comprehensive prediction of lncRNA-RNA interactions in human transcriptomeGoro Terai, Junichi Iwakiri, Tomoshi Kameda, et al.Nature Computational Science|January 4, 2024
Generative aptamer discovery using RaptGenNatsuki Iwano, Tatsuo Adachi, Kazuteru Aoki, et al.Microbiome|June 25, 2020
Revealing the microbial assemblage structure in the human gut microbiome using latent Dirichlet allocationShion Hosoda, Suguru Nishijima, Tsukasa Fukunaga, et al.RSC Chemical Biology|October 27, 2025
Screening and machine learning-based prediction of translation-enhancing peptides that reduce ribosomal stalling in <i>Escherichia coli</i>Teruyo Ojima-Kato, Gentaro Yokoyama, Hideo Nakano, et al.Pageof 13