K. Qu

Comparative analysis of methodologies for detecting extrachromosomal circular DNA

This study compares 7 analysis pipelines and 7 experimental methods for detecting extrachromosomal circular DNA, identifying the most effective approaches for short-read and long-read sequencing data.

Molecular dynamics simulations of HIV-1 matrix-membrane interactions at different stages of viral maturation

This study uses molecular dynamics simulations to analyze how HIV-1 matrix protein interactions with lipids change during viral maturation, identifying altered binding modes of PIP2 lipids.

Structure of the NuA4 acetyltransferase complex bound to the nucleosome

This study reports the cryo-EM structure of the NuA4 complex bound to a nucleosome, revealing its mechanism of nucleosome recognition and transcription coactivation.

FCHO controls AP2's critical endocytic roles through a PtdIns4,5P2 membrane-dependent switch

The paper shows FCHO primes AP2 for clathrin-coated vesicle incorporation, triggering FCHO release to enable further AP2 activation and recruitment.

A Bayesian approach to single-particle electron cryo-tomography in RELION-4.0

The paper introduces a Bayesian method for improving cryo-ET data analysis in RELION-4.0, enabling higher-resolution structure determination from multiple particles.

Maturation of the matrix and viral membrane of HIV-1

This study determines the structure of HIV-1 matrix (MA) in immature and mature virions, revealing a hexameric lattice formed during maturation that repurposes the membrane for viral entry.

The noncoding RNA PRANCR regulates splicing of Fibronectin-1 to control keratinocyte proliferation and migration

This study identifies PRANCR as a lncRNA that regulates alternative splicing of FN1 to control keratinocyte proliferation and migration.

Engineered disulfide reveals structural dynamics of locked SARS-CoV-2 spike

This study engineers a SARS-CoV-2 spike protein with a disulfide bond to stabilize the locked conformation, revealing structural dynamics and the role of domain D in conformational changes and viral fitness.

Rapid detection of cytochrome cd1-containing nitrite reductase encoding gene nirS with loop-mediated isothermal amplification assay

This paper develops a LAMP assay for rapid detection of the nirS gene in denitrifying bacteria, showing high specificity and sensitivity compared to conventional PCR.

Structures, conformations and distributions of SARS-CoV-2 spike protein trimers on intact virions

This study uses cryo-electron microscopy to determine the structure, conformational flexibility, and distribution of SARS-CoV-2 spike protein trimers on intact virions.

The native structure of the full-length, assembled influenza A virus matrix protein, M1.

This study determines the structure of assembled influenza A virus matrix protein M1 and reveals how it oligomerizes to mediate virion assembly and disassembly.

A thermostable, closed, SARS-CoV-2 spike protein trimer.

This paper designs a thermostable, closed SARS-CoV-2 spike protein trimer that remains in the pre-fusion state and can be used in serological assays.

Functional classification of noncoding RNAs associated with distinct histone modifications by PIRCh-seq

The paper introduces PIRCh-seq to profile chromatin-associated RNAs with histone modifications, identifying functional groups of lncRNAs and allele-specific interactions.

CryoEM structures of MDA5-dsRNA filaments at different stages of ATP hydrolysis

This paper determines cryoEM structures of MDA5-dsRNA filaments at different ATP hydrolysis stages, revealing how ATPase activity influences filament twist, RNA binding, and signaling.