Prediction of Cellular Identities from Trajectory and Cell Fate Information

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arXiv. 2024 Jan 11;. doi: 10.48550/arXiv.2401.06182

Prediction of Cellular Identities from Trajectory and Cell Fate Information Shroff Lab

Dai Baiyang, Yang Jiamin, Shroff Hari, La Riviere Patrick

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Abstract

Determining cell identities in imaging sequences is an important yet challenging task. The conventional method for cell identification is via cell tracking, which is complex and can be time-consuming. In this study, we propose an innovative approach to cell identification during early C. elegans embryogenesis using machine learning. We employed random forest, MLP, and LSTM models, and tested cell classification accuracy on 3D time-lapse confocal datasets spanning the first 4 hours of embryogenesis. By leveraging a small number of spatial-temporal features of individual cells, including cell trajectory and cell fate information, our models achieve an accuracy of over 90%, even with limited data. We also determine the most important feature contributions and can interpret these features in the context of biological knowledge. Our research demonstrates the success of predicting cell identities in 4D imaging sequences directly from simple spatio-temporal features.

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arXiv Preprint https://doi.org/10.48550/arXiv.2401.06182

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Prediction of Cellular Identities from Trajectory and Cell Fate Information

Abstract

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