Q. Cong

Essential and virulence-related protein interactions of pathogens revealed through deep learning

This study uses deep learning to predict protein-protein interactions in bacterial pathogens, identifying new complexes involving essential genes and virulence factors, with half of tested predictions validated.

COA8 is a COX10-binding protein involved in the early biogenesis of cytochrome c oxidase

This study identifies COA8 as a COX10-binding protein essential for COX10 stability and catalytic activity in human cytochrome c oxidase biogenesis.

Efficient and accurate prediction of protein structure using RoseTTAFold2

This paper introduces RoseTTAFold2, a protein structure prediction method that achieves AlphaFold2-level accuracy without using its key features, demonstrating the potential for diverse model architectures.

Genetic manipulation of candidate phyla radiation bacteria provides functional insights into microbial dark matter

The paper genetically manipulates Saccharibacteria from the CPR to study their role in epibiotic growth and develops bioinformatic resources for their analysis.

A tissue injury repair pathway distinct but parallel to host pathogen defense

This study identifies IL24 as a tissue repair pathway parallel to IFN-mediated host defense, showing its role in epithelial and mesenchymal regeneration after injury.

Assessing risk for butterflies in the context of climate change, demographic uncertainty, and heterogenous data sources

The paper assesses butterfly species risk in western US states using heterogeneous data, finding high risk in certain families and highlighting species with broad ranges needing conservation attention.

Co-Component Signal Transduction Systems: fast-evolving virulence regulation cassettes discovered in enteric bacteria

The paper identifies fast-evolving co-component signal transduction systems in enteric bacteria using domain organization and machine learning-based fold predictions.

Structures of core eukaryotic protein complexes

The paper uses coevolution analysis and deep learning to model core eukaryotic protein complexes in yeast, identifying 104 new assemblies and structurally characterizing 608 previously unknown complexes.

A covariation analysis reveals elements of selectivity in quorum sensing systems

The paper uses covariation analysis of AHL synthase and receptor sequences to identify selectivity elements in quorum sensing systems and demonstrates their role in signal specificity.

Influence of the large-Z effect during contact between butterfly sister species

The paper simulates hybrid incompatibility in butterfly populations and finds Z chromosome divergence matches observed patterns in Texas suture zone species.

Genomic determinants of speciation

This study identifies genomic criteria to distinguish species from populations using Z-linked genes in butterflies and applies them to humans, finding that all modern humans are one species.

Genomics reveals the origins of ancient specimens

This study uses genomics to determine the geographical origins of ancient butterfly specimens, resolving long-standing taxonomic disputes and demonstrating the utility of ancient DNA in species delineation.