Alexis N. Williams

TileBac: A Benchmark CryoEM Dataset of Bacteria in Ultralow-Dose Montage Tiles

TileBac provides a benchmark dataset for segmenting bacterial cell envelopes in ultralow-dose cryoEM images, showing foundation models outperform convolutional neural networks.

Top Model Decision Tree: Selecting Segmentation Models for Reliable Quantitative Analysis in Low- and Ultralow-Dose CryoEM

This paper evaluates segmentation models for low- and ultralow-dose cryoEM images, finding that model choice significantly affects downstream quantitative measurements.

Facility-Scale Workflows for Data Acquisition, Standardization, Machine Learning Analysis, and Reproducible Science

The paper develops a facility-scale infrastructure to standardize and analyze large-scale microscopy datasets for machine learning, enabling reproducible and scalable workflows.

The redefined role of PhaG and CoA ligases in medium-chain-length 3-hydroxy acid and polyhydroxyalkanoate production in Pseudomonas putida

This paper redefines the role of PhaG and CoA ligases in PHA biosynthesis in Pseudomonas putida and demonstrates engineered production of 3-hydroxyacids.

Leveraging CryoEM and AI-Driven Morphological Feature Analysis for Insights on Bacterial Structures

This paper develops an AI-driven workflow for automated analysis of bacterial ultrastructure in cryoEM data, enabling rapid and accurate quantification of membrane thickness, flagella length, and bacterial arrangement.

Identification and characterization of substrate- and product-selective nylon hydrolases

The paper identifies and characterizes diverse nylon hydrolases, showing that 40% of tested enzymes have significant activity, with some showing substrate selectivity for Nylon 6,6 over Nylon 6.