Guoping Zhao

This paper benchmarks confounder-aware differential abundance methods for microbiome studies, finding that covariate adjustment improves false discovery control but reduces sensitivity, with different strategies performing better under various conditions.

The paper reports a method using LIFT technology to obtain high-quality microbial single-cell genomes or transcriptomes from complex samples and demonstrates its application to study cell-fate commitment in sporulation.

This study investigates antibiotic resistance genes and bacteria in hadal trench sediments using cultivation and metagenomics, finding a pristine reservoir with distinct ARG dynamics and phylogenetic clusters.

DeepSeMS uses a large language model to predict chemical structures of secondary metabolites from microbial gene clusters, outperforming existing methods and discovering novel compounds in the ocean microbiome.

This study determines cryo-EM structures of PhoP-dependent transcription complexes in Mtb to elucidate its dual role as activator and repressor in stress adaptation.

This study shows that Cas12a activity is reversibly regulated by AcrVA5-mediated acetylation and CobB-mediated deacetylation, revealing a secondary safeguard for bacterial CRISPR defense systems.

The paper develops HOLMESv2, a one-step nucleic acid detection platform combining LAMP and Cas12b for convenient and efficient detection.

tmap provides a topological framework for analyzing population-scale microbiome data to identify driver species and host-microbiome associations.