Philip Sweet

RNA Binding Proteins KhpA and KhpB Interact with Small Regulatory RNAs and Affect Global Gene Expression in Deinococcus radiodurans

This study identifies and characterizes two sRNA-binding proteins, KhpA and KhpB, in Deinococcus radiodurans, showing their roles in sRNA stability, target interactions, and global gene regulation.

Predicting characterization of microbiome taxonomy from imaging using machine learning approaches

This paper uses machine learning on microscopy images to predict microbial community taxonomic diversity and dominant bacterial classes, achieving high accuracy and low error.

Optimized chemical labeling method for isolation of 8-oxoG-modified RNA, ChLoRox-Seq, identifies mRNAs enriched in oxidation and transcriptome-wide distribution biases of oxidation events post environmental stress

ChLoRox-Seq identifies 8-oxoG-modified RNA regions with high specificity and lower cost, revealing transcriptome-wide oxidation biases in stressed human cells.

TolRad: A model for predicting radiation tolerance using Pfam annotations identifies novel radiosensitive bacterial species from reference genomes and MAGs

Geometric changes in the nucleoids of Deinococcus radiodurans reveal involvement of new proteins in recovery from ionizing radiation.

This paper quantifies geometric changes in D. radiodurans nucleoids under ionizing radiation using a new high-throughput method, revealing sub-population shifts and roles of nucleic acid binding proteins in nucleoid condensation.