H. Nguyen

Worldwide study of the taste of bitter medicines and their modifiers

This study examines bitterness perception of medicines and modifiers across diverse ancestries, finding ancestry-related differences in bitterness ratings and genetic associations with taste sensitivity.

BET inhibitors as a therapeutic intervention in gastrointestinal gene signature-positive castration-resistant prostate cancer.

This study identifies BET inhibitors as effective against GI transcriptome-positive CRPC by targeting HNF1A and HNF4G, improving outcomes in preclinical models.

Epigenetic Control of Adaptive or Homeostatic Splicing of Alternative Exons and Prolactin Gene Expression During Interval-Training Activities of Pituitary Cells

This study shows that interval-training depolarization of pituitary cells triggers adaptive or homeostatic splicing of alternative exons, regulated by DNA methylation and MeCP2, while maintaining steady Prolactin gene expression.

CRM1 regulates androgen receptor stability and impacts DNA repair pathways in prostate cancer, independent of the androgen receptor.

This study shows CRM1 regulates androgen receptor stability and DNA repair in prostate cancer, suggesting combination therapy with CRM1 and DNA repair inhibitors could be effective.

REL2 overexpression in the Anopheles gambiae midgut causes major transcriptional changes but fails to induce an immune response

This study overexpresses REL2 in Anopheles gambiae midgut and finds it causes transcriptional changes but does not induce a strong immune response against Plasmodium falciparum.

aMI-domain of Integrin Mac-1 Binds the Cytokine Pleiotrophin Using Multiple Mechanisms

The paper investigates how the MI-domain of Integrin Mac-1 binds the cytokine pleiotrophin using multiple mechanisms, showing both metal-independent and metal-dependent interactions.

Longitudinal profiling of the microbiome at four body sites reveals core stability and individualized dynamics during health and disease

This study tracks microbiome changes across four body sites in 86 participants over six years, revealing site-specific stability, individualized dynamics, and altered patterns in insulin-resistant individuals.

Biochemical characterization of the Escherichia coli surfaceome: A focus on type I fimbriae and flagella.

This study characterizes the glycosylation of surface proteins in E. coli, focusing on type I fimbriae and flagella, revealing chemically resistant glycans and unexpected glycan structures.

Invasion of glioma cells through confined space requires membrane tension regulation and mechano-electrical coupling via Plexin-B2

This study shows GBM cells use Plexin-B2 to regulate membrane tension and mechano-electrical coupling for migration through confined spaces.

Pyruvate Oxidation Sustains B Cell Antigen-Specific Activation to Exacerbate MASH

This study shows that B cell pyruvate oxidation supports antigen-specific activation, driving inflammation and fibrosis in MASH.

Small-molecule binding and sensing with a designed protein family

This paper designs a protein family that binds and senses small molecules using deep learning and physics-based methods, achieving nanomolar sensitivity for cortisol.

Direct measures of liking and intensity of taste, smell, and chemesthetic stimuli are similar between young people reporting they did or did not have COVID-19

This study finds no difference in taste and smell intensity or liking between young people with and without a history of COVID-19.

Competition between stacking and divalent cation mediated electrostatic interactions determines the conformations of short DNA sequences

The paper develops a computational model to study ion-DNA interactions and shows it accurately predicts experimental results without parameter tuning.

Cryo-EM structures of human SID-1 transmembrane family proteins and implications for their low-pH-dependent RNA transport activity

The paper presents cryo-EM structures of human SIDT1 and SIDT2, revealing their dimeric architecture and demonstrating low-pH-dependent RNA binding and oligomerization.

Thiazolidinediones are partially effective bitter blockers

This study evaluates the effectiveness of thiazolidinediones (TZDs) as bitter blockers by testing their ability to reduce bitterness of TAF and PRAZ in two taste panels.

Rapid and automated design of two-component protein nanomaterials using ProteinMPNN

This study benchmarks ProteinMPNN against Rosetta in designing two-component protein nanomaterials, showing comparable success with significantly reduced computation and no manual refinement.

5-ASA can functionally replace Clostridia to prevent a post-antibiotic bloom of Candida albicans by maintaining epithelial hypoxia

This study shows that 5-ASA can replace Clostridia to prevent Candida albicans overgrowth by restoring epithelial hypoxia after antibiotic treatment.

Binding of SARS-CoV-2 non-structured protein 1 to 40S ribosome inhibits mRNA translation

The paper uses molecular dynamics simulations to show that SARS-CoV-2 NSP1 increases mRNA binding to 40S ribosomes, inhibiting translation by stabilizing the complex through electrostatic interactions and water molecules.

Design of stimulus-responsive two-state hinge proteins

This paper designs two-state hinge proteins that switch between structural states in response to ligands, demonstrating atomic-level accuracy and tunable kinetics and thermodynamics.

Characterizing the microbiome of patients with myeloproliferative neoplasms during a Mediterranean diet intervention

This study investigates the impact of a Mediterranean diet on the gut microbiome and inflammation in MPN patients, finding stable microbiome composition but associations between bacterial taxa and cytokine levels.

De novo designed ice-binding proteins from twist-constrained helices

This paper designs ice-binding proteins with controlled under-twisting of alpha-helices to enhance ice recrystallization inhibition.

The microbial community dynamics of cocaine sensitization in two behaviorally divergent strains of collaborative cross mice

This study examines how gut microbiome composition and changes in response to cocaine affect behavioral sensitization in two divergent Collaborative Cross mouse strains.

Precisely patterned nanofibers made from extendable protein multiplexes

The paper designs extendable protein multiplexes with symmetric architectures to create precisely patterned nanofibers through controlled repeat propagation and hydrophilic patch placement.

Therapeutic modulation of the blood-brain barrier and ischemic stroke by a bioengineered FZD4-selective WNT surrogate

This study develops a bioengineered FZD4-selective WNT surrogate that improves BBB function and reduces ischemic stroke damage in mice.

Hallucinating protein assemblies

Deep network-based protein design generates symmetric homo-oligomers with high structural accuracy, demonstrating the potential for creating novel nanomachines and biomaterials.

Crystal structure of monkeypox H1 phosphatase, an Antiviral Drug Target

The paper determines the crystal structure of monkeypox H1 phosphatase, revealing its dimeric form and active site, which informs antiviral drug development.

Curation of the Deep Green list of unannotated green lineage proteins to enable structural and functional characterization

The paper identifies and characterizes unannotated proteins in green lineage species, finding many with novel structures and potential plastid functions.

Multi-lingual multi-platform investigations of online trade in jaguar parts

The paper investigates online trade in jaguar parts across multiple languages and platforms, identifying 230 posts and 125 jaguar parts, with teeth being the most common item.

Improving the secretion of designed protein assemblies through negative design of cryptic transmembrane domains

This study identifies cryptic transmembrane domains in designed protein nanoparticles that hinder secretion and introduces a computational tool, Degreaser, to remove them while maintaining stability, improving secretion efficiency.

Robust deep learning based protein sequence design using ProteinMPNN

A deep learning method for protein sequence design shows high performance in both simulations and experiments, applicable to various design challenges.