Citation

BibTex format

@article{Endres:6424:10.1038/s41467-021-26577-1,
author = {Endres, R and Cavanagh, H and Mosbach, A and Scalliet, G and Lind, R},
doi = {10.1038/s41467-021-26577-1},
journal = {Nature Communications},
pages = {1--8},
title = {Physics-informed deep learning characterizes morphodynamics of Asian soybean rust disease},
url = {http://dx.doi.org/10.1038/s41467-021-26577-1},
volume = {12},
year = {6424}
}

RIS format (EndNote, RefMan)

TY  - JOUR
AB - Medicines and agricultural biocides are often discovered using large phenotypic screens across hundreds of compounds, where visible effects of whole organisms are compared to gauge efficacy and possible modes of action. However, such analysis is often limited to human-defined and static features. Here, we introduce a novel framework that can characterize shape changes (morphodynamics) for cell-drug interactions directly from images, and use it to interpret perturbed development of Phakopsora pachyrhizi, the Asian soybean rust crop pathogen. We describe population development over a 2D space of shapes (morphospace) using two models with condition-dependent parameters: a top-down Fokker-Planck model of diffusive development over Waddington-type landscapes, and a bottom-up model of tip growth. We discover a variety of landscapes, describing phenotype transitions during growth, and identify possible perturbations in the tip growth machinery that cause this variation. This demonstrates a widely-applicable integration of unsupervised learning and biophysical modeling.
AU - Endres,R
AU - Cavanagh,H
AU - Mosbach,A
AU - Scalliet,G
AU - Lind,R
DO - 10.1038/s41467-021-26577-1
EP - 8
PY - 6424///
SN - 2041-1723
SP - 1
TI - Physics-informed deep learning characterizes morphodynamics of Asian soybean rust disease
T2 - Nature Communications
UR - http://dx.doi.org/10.1038/s41467-021-26577-1
UR - https://www.nature.com/articles/s41467-021-26577-1
UR - http://hdl.handle.net/10044/1/92711
VL - 12
ER -