• Probing the rules of cell coordination in live tissues by interpretable machine learning based on graph neural networks

Link to codes: https://github.com/NoneqPhysLivingMatterLab/cell_interaction_gnn

Used in the following paper:

Takaki Yamamoto, Katie Cockburn, Valentina Greco, Kyogo Kawaguchi, "Probing the rules of cell coordination in live tissues by interpretable machine learning based on graph neural networks", PLOS Comp. Biol. 18(9): e1010477. bioRxiv, 2021.06.23.449559 (2021).

• Analysis of the 3D orientation of spindles

Link to codes: https://github.com/RIKEN-PHB/Morita-Paper-Spindle-Analysis

Used in the following paper:

Ritsuko Morita, Noriko Sanzen, Hiroko Sasaki, Tetsutaro Hayashi, Mana Umeda, Mika Yoshimura, Takaki Yamamoto, Tatsuo Shibata, Takaya Abe, Hiroshi Kiyonari, Yasuhide Furuta, Itoshi Nikaido, Hironobu Fujiwara, "Tracing the origin of hair follicle stem cells", Nature (2021).