Xinying Ren

Flux-species sampling enables holistic exploration of biocircuit behavior

This paper introduces flux-species sampling (FSS) to explore biocircuit behavior by directly sampling steady-state species and fluxes, improving the identification of regulatory modes and behavior-realizing regimes.

Evaluating valid parameter regimes for biocircuits

The paper evaluates parameter regimes for biocircuits using the Realizability Index (R-index) to quantify valid regions and demonstrates its application to kinetic models.

The Interplay Between Cell-cell Signaling and Negative Feedback Reduces Population Noise While Enhancing Single-cell Variability

This study examines how negative feedback and cell-cell signaling interact to regulate noise at single-cell and population levels in a quorum sensing system.

Bistable State Switch Enables Ultrasensitive Feedback Control in Heterogeneous Microbial Populations

The paper demonstrates how bistable switches and quorum sensing can enable ultrasensitive feedback control in microbial populations while avoiding cellular burden.

Bacterial Controller Aided Wound Healing: A Case Study in Dynamical Population Controller Design

The paper develops a dynamical population model and type-1 IFFL controller to simulate and improve wound healing dynamics.

Layered Feedback Control Improves Robust Functionality across Heterogeneous Cell Populations

This paper introduces a layered feedback control system using quorum sensing and internal signaling to maintain homeostasis in heterogeneous cell populations, showing improved robustness against cell heterogeneity.

Cooperation Enhances Robustness of Coexistence in Spatially Structured Consortia

This study shows cooperative interactions enhance robustness of coexistence in spatially structured microbial consortia, while competition leads to spatial heterogeneity and fragile coexistence.

Role of interaction network topology in controlling microbial population in consortia

The paper models microbial consortia using network topology to show how communication structure affects population control and proposes strategies for robust consortium engineering.

Population regulation in microbial consortia using dual feedback control

This paper designs a synthetic control circuit to regulate population size and strain ratio in microbial consortia using dual feedback control.