Speakers
Description
Biochemical processes inside cells are fundamentally stochastic. Inferring parameters of stochastic models describing these processes from collected single-cell data poses mathematical and computational problems. This minisymposium brings together international speakers who will present recent methodological advances on modeling and inference with different types of single-cell data. Juan David Marmolejo-Lozano (Uni. of Edinburgh) will present a general stochastic framework showing how DNA replication–induced gene dosage changes shape the timing and variability of threshold-crossing events in transcriptional networks, with implications for single-cell inference. Hanna Wiederanders (MPI Dresden) will focus on time series microscopy data and show how Bayesian inference can be carried out based on a decomposition of the full system coupled to a Rao-Blackwellized particle filter. William Hilton (Imperial College London) will focus on inferring gene regulatory networks from single-cell RNA sequencing data by utilizing moment equations of interacting random telegraph models. Alexandra Loudieres (Paris-Saclay Uni.) will propose a model of phage mediated communication between bacteria that shows the importance of stochastic modeling for the design of bacterial communication systems \cite{c,d,e}.
Together, the talks address important challenges in learning stochastic models from single-cell data and propose innovative mathematical solutions to deal with the computational complexity of statistical inference problems.
Bibliography
@article{c,
title={Phage-mediated intercellular CRISPRi for biocomputation in bacterial consortia},
author={Pujar, Abhinav and Pathania, Amit and Hopper, Corbin and Pandi, Amir and Calder{\'o}n, Cristian Ruiz and F{\"u}gger, Matthias and Nowak, Thomas and Kushwaha, Manish},
journal={Nucleic Acids Research},
volume={53},
number={3},
pages={gkae1256},
year={2025},
publisher={Oxford University Press}
}
@article{d,
title={An M13 phagemid toolbox for engineering tuneable DNA communication in bacterial consortia},
author={Pujar, Abhinav and Sharma, Anchita and Jbara, Hadi and Kushwaha, Manish},
journal={bioRxiv},
pages={2025--06},
year={2025},
publisher={Cold Spring Harbor Laboratory}
}
@article{e,
title={Distributed computation with continual population growth},
author={Cho, Da-Jung and F{\"u}gger, Matthias and Hopper, Corbin and Kushwaha, Manish and Nowak, Thomas and Soubeyran, Quentin},
journal={Distributed Computing},
volume={35},
number={6},
pages={547--569},
year={2022},
publisher={Springer}
}
