How much of a cell’s signaling history can we reconstruct?
IRIS response classification and reconstructed signaling histories: a threshold analysis of 130,000 predictions and a review of experimental validation.
Daiki Kumakura
I am a mathematical biologist and a bioinformatics researcher in the pharmaceutical industry. I received my Ph.D. in Life Science from Hokkaido University in March 2025.
I study biological dynamics using mathematical models and data analysis, with an interest in pharmacometrics and systems biology.
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Recent writing
Cancer cachexia episodes and the prediction clock
A cachexia episode-table audit, checked against the paper's text and code, distinguishes retrospective interval starts, nadir, and end, and shows why its blood analyses and risk models do not test lead time.
Reading an affinity-prediction R² of 0.43 against the measurement-noise ceiling
ChEMBL cross-document IC50 differences yield conditional R² ceiling scenarios, with duplicate handling, assay heterogeneity and calibration limitations.