Estimating Gene Networks from Expression Data and Binding Location Data via Boolean Networks. - Osamu Hirose; Naoki Nariai; Yoshinori Tamada; Hideo Bannai; Seiya Imoto; Satoru Miyano (ICCSA (3), 2005)

Anisotropic Potential Field Maximization Model for Subjective Contour from Line Figure. - Osamu Hirose; Tomoharu Nagao (ISVC (1), 2007)

Analyzing Time Course Gene Expression Data with Biological and Technical Replicates to Estimate Gene Networks by State Space Models. - Osamu Hirose; Ryo Yoshida; Rui Yamaguchi; Seiya Imoto; Tomoyuki Higuchi; Satoru Miyano (Asia International Conference on Modelling and Simulation, 2008)

Statistical inference of transcriptional module-based gene networks from time course gene expression profiles by using state space models. - Osamu Hirose; Ryo Yoshida; Seiya Imoto; Rui Yamaguchi; Tomoyuki Higuchi; Stephen D. Charnock-Jones; Cristin G. Print; Satoru Miyano (Bioinform., 2008)

A Self-organizing State Space Approach to Inferring Time-Varying Causalities between Regulatory Proteins. - Osamu Hirose; Kentaro Shimizu (ITBAM, 2010)

Prediction of Carbohydrate-Binding Proteins from Sequences Using Support Vector Machines. - Seizi Someya; Masanori Kakuta; Mizuki Morita; Kazuya Sumikoshi; Cao Wei; Ge Zhenyi; Osamu Hirose; Shugo Nakamura; Tohru Terada; Kentaro Shimizu (Adv. Bioinformatics, 2010)

SiGN-SSM: open source parallel software for estimating gene networks with state space models. - Yoshinori Tamada; Rui Yamaguchi; Seiya Imoto; Osamu Hirose; Ryo Yoshida; Masao Nagasaki; Satoru Miyano (Bioinform., 2011)

EpicCapo: epitope prediction using combined information of amino acid pairwise contact potentials and HLA-peptide contact site information. - Thammakorn Saethang; Osamu Hirose; Ingorn Kimkong; Vu Anh Tran; Xuan Tho Dang; Thi Lan Anh Nguyen; Thi Tu Kien Le; Mamoru Kubo; Yoichi Yamada; Kenji Satou (BMC Bioinform., 2012)

TIGAR: transcript isoform abundance estimation method with gapped alignment of RNA-Seq data by variational Bayesian inference. - Naoki Nariai; Osamu Hirose; Kaname Kojima; Masao Nagasaki (Bioinform., 2013)

Automated detection and tracking of many cells by using 4D live-cell imaging data. - Terumasa Tokunaga; Osamu Hirose; Shotaro Kawaguchi; Yu Toyoshima; Takayuki Teramoto; Hisaki Ikebata; Sayuri Kuge; Takeshi Ishihara; Yuichi Iino; Ryo Yoshida (Bioinform., 2014)

Inference of domain-domain interactions by matrix factorisation and domain-level features. - Thi Tu Kien Le; Osamu Hirose; Thi Lan Anh Nguyen; Thammakorn Saethang; Vu Anh Tran; Xuan Tho Dang; Duc Luu Ngo; Mamoru Kubo; Yoichi Yamada; Kenji Satou (Int. J. Funct. Informatics Pers. Medicine, 2014)

SPY: A Novel Resampling Method for Improving Classification Performance in Imbalanced Data. - Xuan Tho Dang; Dang Hung Tran; Osamu Hirose; Kenji Satou (KSE, 2015)

Accurate Automatic Detection of Densely Distributed Cell Nuclei in 3D Space. - Yu Toyoshima; Terumasa Tokunaga; Osamu Hirose; Manami Kanamori; Takayuki Teramoto; Moon Sun Jang; Sayuri Kuge; Takeshi Ishihara; Ryo Yoshida; Yuichi Iino (PLoS Comput. Biol., 2016)

Dependent landmark drift: robust point set registration based on the Gaussian mixture model with a statistical shape model. - Osamu Hirose (CoRR, 2017)

SPF-CellTracker: Tracking Multiple Cells with Strongly-Correlated Moves Using a Spatial Particle Filter. - Osamu Hirose; Shotaro Kawaguchi; Terumasa Tokunaga; Yu Toyoshima; Takayuki Teramoto; Sayuri Kuge; Takeshi Ishihara; Yuichi Iino; Ryo Yoshida (IEEE ACM Trans. Comput. Biol. Bioinform., 2018)

A Bayesian Formulation of Coherent Point Drift. - Osamu Hirose (IEEE Trans. Pattern Anal. Mach. Intell., 2021)

Acceleration of Non-Rigid Point Set Registration With Downsampling and Gaussian Process Regression. - Osamu Hirose (IEEE Trans. Pattern Anal. Mach. Intell., 2021)

Erratum to "A Bayesian Formulation of Coherent Point Drift". - Osamu Hirose (IEEE Trans. Pattern Anal. Mach. Intell., 2021)

Geodesic-Based Bayesian Coherent Point Drift. - Osamu Hirose (IEEE Trans. Pattern Anal. Mach. Intell., 2023)