Article ; Online: Probing the rules of cell coordination in live tissues by interpretable machine learning based on graph neural networks.
2022 Volume 18, Issue 9, Page(s) e1010477
Abstract: Robustness in developing and homeostatic tissues is supported by various types of spatiotemporal cell-to-cell interactions. Although live imaging and cell tracking are powerful in providing direct evidence of cell coordination rules, extracting and ... ...
| Abstract | Robustness in developing and homeostatic tissues is supported by various types of spatiotemporal cell-to-cell interactions. Although live imaging and cell tracking are powerful in providing direct evidence of cell coordination rules, extracting and comparing these rules across many tissues with potentially different length and timescales of coordination requires a versatile framework of analysis. Here we demonstrate that graph neural network (GNN) models are suited for this purpose, by showing how they can be applied to predict cell fate in tissues and utilized to infer the cell interactions governing the multicellular dynamics. Analyzing the live mammalian epidermis data, where spatiotemporal graphs constructed from cell tracks and cell contacts are given as inputs, GNN discovers distinct neighbor cell fate coordination rules that depend on the region of the body. This approach demonstrates how the GNN framework is powerful in inferring general cell interaction rules from live data without prior knowledge of the signaling involved. |
|---|---|
| MeSH term(s) | Animals ; Cell Tracking ; Machine Learning ; Mammals ; Neural Networks, Computer |
| Language | English |
| Publishing date | 2022-09-06 |
| Publishing country | United States |
| Document type | Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, N.I.H., Extramural |
| ZDB-ID | 2193340-6 |
| ISSN | 1553-7358 ; 1553-734X |
| ISSN (online) | 1553-7358 |
| ISSN | 1553-734X |
| DOI | 10.1371/journal.pcbi.1010477 |
| Database | MEDical Literature Analysis and Retrieval System OnLINE |
More links
Kategorien
Order via subito
This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.