Publications
📚 Peer-reviewed Papers
2026
- (To be updated)
2024
- Deciphering the origin of developmental stability: The role of intracellular expression variability in evolutionary conservation
Yui Uchida, Masato Tsutsumi, Shunsuke Ichii, Naoki Irie, Chikara Furusawa
Evolution & Development (March 2024) PDF | Code
2023
📃 Preprints
2026
- (To be updated)
2025
- Disentanglement of batch effects and biological signals across conditions in the single-cell transcriptome
Shunta Sakaguchi, Masato Tsutsumi, Kentaro Nishi, Naoki Honda
bioRxiv (April 16, 2025) PDF
2022
- A method for morphological feature extraction based on variational auto-encoder : an application to mandible shape
Masato Tsutsumi, Nen Saito, Daisuke Koyabu, Chikara Furusawa
Preprint (May 19, 2022)
🎤 Invited Talks
2026
- Towards quantification of diverse life phenomena: morphology, behavior, and psychology as information
Masato Tsutsumi
SSTB2026 - Spring School for Theoretical Biology 2026- (March 5, 2026) Invited
2024
- Development of quantitative analysis methods for biological morphology using deep learning
Japan Society for Industrial and Applied Mathematics Annual Meeting 2024 (September 16, 2024) - Development of quantitative analysis methods for biological morphology using deep learning
Online Seminar Series “Future of Evolutionary Biology with AI” (March 9, 2024) - Development of quantitative analysis methods for biological morphology using deep learning
8th Theoretical Immunology Workshop (February 14, 2024)
2022
- Quantification of various biological morphologies using machine learning
Hiroshima University Mathematical Life Sciences Program Seminar (November 10, 2022)
2021
- Quantification and application of biological morphology using machine learning: Focusing on primate mandibles
National Institute for Basic Biology Departmental Seminar (October 2021)
🗣️ Conference Presentations
2026
- Quantitative Analysis of Biological Morphology and Behavior Based on Deep Learning: Development of Morpho-VAE and DOLO
(Feb 20, 2026)
2025
- Development of a markerless multi-individual tracking system for controlling cannibalistic behavior in crickets
47th Annual Meeting of the Japanese Society for Comparative Physiology and Biochemistry (December 5, 2025) - Morphological quantification using deep learning: Morpho-VAE
99th Symposium on Science of Form “Shape that brings motion” (November 30, 2025) - Visualization of morphological variation using 3D Variational Autoencoder
34th Annual Meeting of the Japanese Society for Bioimaging - Behavioral analysis of double mutant Drosophila larvae using DOLO (Drosophila tracking with YOLO)
1st Systems Behavioral Science Workshop (May 30, 2025) - Estimation of psychological state transitions during/after emergency declarations using energy landscape analysis
SSTB2025 - Spring School for Theoretical Biology 2025- (February 20, 2025)
2024
- Proposal of morphological quantitative analysis methods using deep learning
Annual Meeting of the Japanese Society for Mathematical Biology 2024 (September 12, 2024) - Quantification of mouse behavior under social defeat stress using mathematical models
CPSY TOKYO 2024 (March 28, 2024) - Mathematical model of rumination in the brain using Bayesian inference
Spring School for Theoretical Biology 2024 (February 20, 2024) - Mathematical model of rumination in the brain using free energy principle
11th Annual Meeting of the Quantitative Biology Society (January 6, 2024)
2023
- Unveiling the enigmatic Middle Devonian vertebrate, Palaeospondylus
The 3rd Asia Evo Conference Symposium (December 16, 2023) - Development of a quantitative analysis method for biological morphology using deep learning
Statphys28 Satellite meeting Statistical Physics and Information-Processing in Living Systems (August 8, 2023)
2022
- Morphological feature extraction of primate mandibles using variational autoencoders
10th Annual Meeting of the Quantitative Biology Society (December 15, 2022) - A method for morphological feature extraction based on variational auto-encoder
60th Annual Meeting of the Biophysical Society of Japan (September 30, 2022) - A Deep learning approach for the shape analysis of the primates mandible
Euro Evo Devo 2022 (June 1, 2022)
📝 Other Achievements
Reviews & Commentary
- Characterization of biological morphology by using machine learning
Proceedings of the Physical Society of Japan 75.1 2878-2878 (2020)
Medical AI Related
- Verification of classification methods for 2D OCT images using two-stage networks
2nd Japanese Society for Medical AI Academic Conference (January 31, 2020)
Masahiko Takemura, ◯Masato Tsutsumi, Hiroki Kawai, Kazumi Hakamata, Hideyoshi Fuji