MeSH ORA framework: R/Bioconductor packages to support MeSH over-representation analysis. - Koki Tsuyuzaki; Gota Morota; Manabu Ishii; Takeru Nakazato; Satoru Miyazaki; Itoshi Nikaido (BMC Bioinform., 2015)

Biological Systems as Heterogeneous Information Networks: A Mini-review and Perspectives. - Koki Tsuyuzaki; Itoshi Nikaido (CoRR, 2017)

iTensor: An R package for independent component analysis-based matrix/tensor decomposition. - Koki Tsuyuzaki (J. Open Source Softw., 2023)

nnTensor: An R package for non-negative matrix/tensor decomposition. - Koki Tsuyuzaki; Itoshi Nikaido (J. Open Source Softw., 2023)

Sctensor detects many-to-many cell-cell interactions from single cell RNA-sequencing data. - Koki Tsuyuzaki; Manabu Ishii; Itoshi Nikaido (BMC Bioinform., 2023)

WormTensor: a clustering method for time-series whole-brain activity data from C. elegans. - Koki Tsuyuzaki; Kentaro Yamamoto; Yu Toyoshima; Hirofumi Sato; Manami Kanamori; Takayuki Teramoto; Takeshi Ishihara; Yuichi Iino; Itoshi Nikaido (BMC Bioinform., 2023)