Erik Kubaczka

The paper introduces the Yeast Logic Toolkit (YLT), which provides pre-assembled backbones and parts for constructing genetic circuits in yeast with reduced context-dependent effects.

The paper introduces the Coli Toolkit (CTK), a modular cloning system for E. coli, expanding on the Yeast Toolkit to enable efficient genetic circuit assembly.

This study designs hybrid riboswitches in yeast to emulate Boolean NAND logic using machine learning-based Bayesian optimization.

This paper introduces Energy Aware Technology Mapping to design genetic logic circuits with energy efficiency and functionality, showing energy efficiency improves by 37.2% over functionally optimized variants.

This work improves genetic design automation by incorporating context effects through thermodynamic models and branch-and-bound techniques, enhancing circuit prediction accuracy.

The paper introduces a method to design robust genetic circuits by adapting electronic design automation techniques to account for structural variants and parameter uncertainty in biological systems.