Razan N. Alnahhas

Long-term homeostasis in microbial consortia via auxotrophic cross-feeding

This paper presents a method to control microbial consortium proportions using auxotrophic cross-feeding in continuous culture, demonstrating precise regulation through exogenous nutrient addition and mathematical modeling.

Evaluating the predictive power of combined gene expression dynamics from single cells on antibiotic survival

The paper uses Bayesian inference to predict antibiotic survival in E. coli by integrating gene expression and growth rate data from single cells.

Tunable dynamics in a multi-straintranscriptional pulse generator

This paper demonstrates how to tune gene circuit dynamics in a synthetic microbial consortium by adjusting strain fractions, creating a pulse generator with controllable amplitude.

Indirect enrichment of desirable, but less fit phenotypes, from a synthetic microbial community using microdroplet confinement

The paper demonstrates how microdroplet confinement can indirectly enrich a rare producer strain in a synthetic microbial community through spatial structure and metabolite diffusion.

Stochastic Neural Networks for Automatic Cell Tracking in Microscopy Image Sequences of Bacterial Colonies

This paper introduces a stochastic neural network method for tracking bacterial cell motion in microscopy sequences, achieving high registration accuracy in both simulated and experimental data.

DeLTA 2.0: A deep learning pipeline for quantifying single-cell spatial and temporal dynamics

DeLTA 2.0 is a deep learning tool for analyzing time-lapse microscopy data, enabling accurate segmentation and tracking of single cells in two-dimensional environments.

Spatiotemporal dynamics of synthetic microbial consortia in microfluidic devices

This study investigates how trap size in microfluidic devices affects the spatiotemporal dynamics of synthetic microbial consortia, revealing a trade-off between signaling effectiveness and strain proportion stability.

Boundary-Driven Emergent Spatiotemporal Order in Growing Microbial Colonies

The paper introduces a stochastic spatial Moran model to explain spatiotemporal patterns in growing bacterial colonies, showing how boundary effects and cell-cell interactions drive alignment changes.