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Viruses|October 29, 2025
Elucidating Alterations in Viral and Human Gene Expression Due to Human Papillomavirus Integration by Using Multimodal RNA SequencingKana Tamai, Sonoko Kinjo, Ayumi Taguchi, et al.
BMC Bioinformatics|February 11, 2010
Parameters for accurate genome alignmentMartin C Frith, Michiaki Hamada, Paul Horton
NAR Genomics and Bioinformatics|July 8, 2021
Binding patterns of RNA-binding proteins to repeat-derived RNA sequences reveal putative functional RNA elementsMasahiro Onoguchi, Chao Zeng, Ayako Matsumaru, et al.
Bioinformatics (Oxford, England)|April 18, 2019
Discovering novel mutation signatures by latent Dirichlet allocation with variational Bayes inferenceTaro Matsutani, Yuki Ueno, Tsukasa Fukunaga, et al.
Nucleic Acids Research|May 14, 2009
CENTROIDFOLD: a web server for RNA secondary structure predictionKengo Sato, Michiaki Hamada, Kiyoshi Asai, et al.
Bioinformatics (Oxford, England)|March 27, 2015
Learning chromatin states with factorized information criteriaMichiaki Hamada, Yukiteru Ono, Ryohei Fujimaki, et al.
IEEE/ACM Transactions on Computational Biology and Bioinformatics|July 12, 2018
Estimating Energy Parameters for RNA Secondary Structure Predictions Using Both Experimental and Computational DataShimpei Nishida, Shun Sakuraba, Kiyoshi Asai, et al.
Bioinformatics (Oxford, England)|May 31, 2014
Reference-free prediction of rearrangement breakpoint readsEdward Wijaya, Kana Shimizu, Kiyoshi Asai, et al.
Frontiers in Genetics|June 14, 2019
LncRRIsearch: A Web Server for lncRNA-RNA Interaction Prediction Integrated With Tissue-Specific Expression and Subcellular Localization DataTsukasa Fukunaga, Junichi Iwakiri, Yukiteru Ono, et al.
Frontiers in Bioinformatics|October 26, 2023
DeepRaccess: high-speed RNA accessibility prediction using deep learningKaisei Hara, Natsuki Iwano, Tsukasa Fukunaga, et al.
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