GroupTracker: Video tracking system for multiple animals under severe occlusion. - Tsukasa Fukunaga; Shoko Kubota; Shoji Oda; Wataru Iwasaki 001 (Comput. Biol. Chem., 2015)

Rtools: a web server for various secondary structural analyses on single RNA sequences. - Michiaki Hamada; Yukiteru Ono; Hisanori Kiryu; Kengo Sato; Yuki Kato; Tsukasa Fukunaga; Ryota Mori; Kiyoshi Asai (Nucleic Acids Res., 2016)

RIblast: an ultrafast RNA-RNA interaction prediction system based on a seed-and-extension approach. - Tsukasa Fukunaga; Michiaki Hamada (Bioinform., 2017)

Inactivity periods and postural change speed can explain atypical postural change patterns of Caenorhabditis elegans mutants. - Tsukasa Fukunaga; Wataru Iwasaki 001 (BMC Bioinform., 2017)

A Novel Method for Assessing the Statistical Significance of RNA-RNA Interactions Between Two Long RNAs. - Tsukasa Fukunaga; Michiaki Hamada (J. Comput. Biol., 2018)

Discovering novel mutation signatures by latent Dirichlet allocation with variational Bayes inference. - Taro Matsutani; Yuki Ueno; Tsukasa Fukunaga; Michiaki Hamada (Bioinform., 2019)

MotiMul: A significant discriminative sequence motif discovery algorithm with multiple testing correction. - Koichi Mori; Haruka Ozaki; Tsukasa Fukunaga (BIBM, 2020)

Umibato: estimation of time-varying microbial interaction using continuous-time regression hidden Markov model. - Shion Hosoda; Tsukasa Fukunaga; Michiaki Hamada (Bioinform., 2021)

Mirage 2.0: fast and memory-efficient reconstruction of gene-content evolution considering heterogeneous evolutionary patterns among gene families. - Tsukasa Fukunaga; Wataru Iwasaki 001 (Bioinform., 2022)

DeepRaccess: high-speed RNA accessibility prediction using deep learning. - Kaisei Hara; Natsuki Iwano; Tsukasa Fukunaga; Michiaki Hamada (Frontiers Bioinform., 2023)