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Methods in Molecular Biology (Clifton, N.J.)|January 27, 2023
Fast RNA-RNA Interaction Prediction Methods for Interaction Analysis of Transcriptome-Scale Large DatasetsTsukasa Fukunaga, Michiaki HamadaNAR Genomics and Bioinformatics|April 2, 2021
Jonckheere-Terpstra-Kendall-based non-parametric analysis of temporal differential gene expressionHitoshi Iuchi, Michiaki HamadaJournal of Computational Biology : a Journal of Computational Molecular Cell Biology|July 3, 2018
A Novel Method for Assessing the Statistical Significance of RNA-RNA Interactions Between Two Long RNAsTsukasa Fukunaga, Michiaki HamadaBioinformatics (Oxford, England)|September 25, 2020
PBSIM2: a simulator for long-read sequencers with a novel generative model of quality scoresYukiteru Ono, Kiyoshi Asai, Michiaki HamadaNAR Genomics and Bioinformatics|December 5, 2022
PBSIM3: a simulator for all types of PacBio and ONT long readsYukiteru Ono, Michiaki Hamada, Kiyoshi AsaiBioinformatics (Oxford, England)|October 18, 2017
Beyond similarity assessment: selecting the optimal model for sequence alignment via the Factorized Asymptotic Bayesian algorithmTaikai Takeda, Michiaki Hamada, John HancockNucleic Acids Research|September 17, 2010
Improving the accuracy of predicting secondary structure for aligned RNA sequencesMichiaki Hamada, Kengo Sato, Kiyoshi AsaiBMC Genomics|January 7, 2015
Efficient calculation of exact probability distributions of integer features on RNA secondary structuresRyota Mori, Michiaki Hamada, Kiyoshi AsaiScientific Reports|October 7, 2024
Landscape of evolutionary arms races between transposable elements and KRAB-ZFP familyMasato Kosuge, Jumpei Ito, Michiaki HamadaCommunications Medicine|May 20, 2025
Hidden challenges in evaluating spillover risk of zoonotic viruses using machine learning modelsJunna Kawasaki, Tadaki Suzuki, Michiaki HamadaPageof 66