Yu‐Yu Cheng

Programming bacteria to sense environmental DNA for multiplexed pathogen detection

This paper develops DNA sensors in Bacillus subtilis to detect environmental DNA from multiple pathogens with high specificity and sensitivity, using fluorescent reporters for multiplexed detection.

Shaping human gut community assembly and butyrate production by controlling the arginine dihydrolase pathway

This study shows that controlling the arginine dihydrolase pathway in E. coli affects gut community assembly and butyrate production in vitro and in mice.

Inferring delays in partially observed gene regulatory networks

The paper develops a Bayesian MCMC method to infer gene regulatory network parameters from partial observations, demonstrating its ability to estimate delays and kinetic parameters in a two-step activation model.

Efficient plasmid transfer via natural competence in a synthetic microbial community

The paper quantifies HGT efficiency in a synthetic microbial community and identifies factors influencing plasmid transfer via natural competence.

Bayesian inference of distributed time delay in transcriptional and translational regulation

The paper introduces a Bayesian framework to infer reaction rates and delay distributions in biochemical networks using single-cell data, showing robust parameter estimation with limited measurements.