Y. Lee

NetCrafter: Ontology-derived gene network modeling and interpretation

NetCrafter constructs context-specific gene networks using ontology-weighted similarity, enabling functional interpretation and identification of interaction hotspots.

A high-resolution model of gene expression during Gossypium hirsutum (cotton) fiber development

This study presents a high-resolution transcriptomic analysis of cotton fiber development, identifying key gene expression shifts and regulatory networks during secondary wall synthesis.

The intestinal microbiota contributes to the development of immune-mediated cardiovascular inflammation and vasculitis in mice.

This study shows that gut microbiota depletion reduces cardiovascular inflammation in a mouse model of Kawasaki disease, and specific bacteria or their metabolites can alleviate vasculitis by improving gut barrier function.

SspA is a transcriptional regulator of CRISPR adaptation in E. coli

This study identifies SspA as a transcriptional regulator of CRISPR adaptation in E. coli using a CRISPRi-based screen and proposes a model of independent cellular control of adaptation and interference by SspA.

Human hypothalamic neural stem cells transplantation ameliorates age-associated dysfunction through SNS/eNAMPT axis activation in aged mice

Transplanting human hypothalamic neural stem cells into aged mice improves metabolic, physical, and cognitive function via the SNS/eNAMPT axis.

Maximizing photon utilization in spectroscopic single-molecule localization microscopy using symmetrically dispersed dual-wedge prisms

This paper introduces a symmetrically dispersed dual-wedge prism design for spectroscopic single-molecule localization microscopy, improving lateral and spectral precision.

Daily glycome and transcriptome profiling reveals polysaccharide structures and glycosyltransferases critical for cotton fiber growth

This study profiles the glycome and transcriptome of cotton fibers daily to identify polysaccharide structures and glycosyltransferases critical for fiber growth and quality.

Mosaic display of stable hemagglutinin monomers induces broad immune responses

This study develops a nanoparticle vaccine displaying conserved influenza HA epitopes, inducing broad neutralizing antibodies against multiple viral subtypes.

Inactivation of a non-canonical gp130 signaling arm attenuates chronic systemic inflammation and multimorbidity induced by a high-fat diet.

This study shows that inhibiting a non-canonical gp130 signaling pathway reduces chronic inflammation and multimorbidity in a high-fat diet model.

Kinetic model for the desensitization of G protein-coupled receptor

The paper develops a kinetic model to understand GPCR desensitization by integrating biochemical steps from ligand binding to receptor internalization, identifying three downregulation regimes based on phosphorylation, dephosphorylation, and beta-arrestin levels.

Activity of zebrafish THAP9 transposase and zebrafish P element-like transposons

This study identifies an active zebrafish THAP9 transposase that can excise its own Pdre elements and Drosophila P elements, but not transpose them, revealing distinct DNA binding preferences.

Mammalian SWI/SNF complex activity regulates POU2F3 and constitutes a targetable dependency in small cell lung cancer

This study identifies mSWI/SNF complex activity as a targetable dependency in POU2F3-positive small cell lung cancer, showing that inhibiting mSWI/SNF or BRD9 reduces tumor growth and improves survival.

DNDesign: Enhancing Physical Understanding of Protein Inverse Folding Model via Denoising

DNDesign improves protein inverse folding by integrating denoising training to better capture the energy landscape, enhancing performance across multiple models.

Structural basis of anticancer drug recognition and amino acid transport by LAT1

This study reports six LAT1 structures bound with ligands, revealing substrate recognition and inhibition mechanisms, including the role of JPH203 as an anticancer drug.

ShapeProt: Top-down Protein Design with 3D Protein Shape Generative Model

ShapeProt generates protein sequences from 3D shape contexts using a surface-based generative model, overcoming limitations of existing sequence and structure-focused approaches.

High radiosensitivity in the conifer Norway spruce (Picea abies) due to lesscomprehensive mobilisation of protection and repair responses compared to the radiotolerant Arabidopsis thaliana

This study compares radiosensitivity between Norway spruce and Arabidopsis thaliana, finding that Norway spruce has less comprehensive mobilization of protection and repair responses to gamma radiation.

Spiral NeuroString: High-Density Soft Bioelectronic Fibers for Multimodal Sensing and Stimulation

This paper introduces Spiral NeuroString, high-density soft bioelectronic fibers for multimodal sensing and stimulation, demonstrating their use in GI motility mapping, serotonin sensing, and brain recordings.

1.7 GHz long-term evolution radiofrequency electromagnetic field with efficient thermal control has no effect on the proliferation of different human cell types

The study examines the effect of 1.7 GHz LTE RF-EMF on cell proliferation, finding no significant effect when thermal control is maintained, but increased proliferation when thermal control is disabled.

Bi-directional communication between monocytes and trophoblasts under hypoxia and hypoxia-reperfusion conditions

This study examines how hypoxia and hypoxia-reperfusion conditions in placental cells affect trophoblast-monocyte interactions and monocyte function.

Stereotypic persistent B cell receptor clonotypes in Alzheimer's Disease

The paper identifies stereotypic BCR clonotypes in Alzheimer's Disease patients that persist over time and are not found in healthy controls, suggesting potential diagnostic signatures.

Molecular insight into how the position of an abasic site and its sequence environment influence DNA duplex stability and dynamics

The paper examines how the position and sequence environment of an abasic site affect DNA duplex stability and dynamics using spectroscopy and simulations.

Periodontitis promotes bacterial extracellular vesicle-induced neuroinflammation in the brain and trigeminal ganglion

This study shows that periodontitis promotes neuroinflammation via bacterial extracellular vesicles that cross the blood-brain barrier and activate TLR4/TLR8 signaling in the brain and trigeminal ganglion.

Nanoparticle endocytosis is driven by monocyte phenotype rather than nanoparticle size under high shear flow conditions

This study shows that monocyte nanoparticle endocytosis under high shear flow depends on monocyte phenotype rather than nanoparticle size, with ACE2-deficient cells preferring 100nm particles in atherosclerotic conditions.

Interhelical E@g-N@a Interactions Modulate Coiled Coil Stability within a De Novo Set of Orthogonal Peptide Heterodimers

This study designs orthogonal coiled coil peptides and shows that interhelical E@g-N@a interactions enhance thermal stability through hydrogen bonding networks.

Direct monitoring of the thermodynamics and kinetics of DNA and RNA dinucleotide dehybridization from gaps and overhangs

This study measures the thermodynamics and kinetics of DNA and RNA dinucleotide dehybridization using infrared spectroscopy and simulations, revealing stabilization through stacking interactions and structural dynamics.

Analysis of spike protein variants evolved in a novel mouse model of persistent SARS-CoV-2 infection

The paper establishes a novel mouse model of persistent SARS-CoV-2 infection using Calu-3 xenografts and identifies spike protein mutations that enhance viral replication and host adaptation.

An ancestral vaccine induces anti-Omicron antibodies by hypermutation

This study shows that repeated mRNA vaccination leads to BCR hypermutation, enabling antibodies to neutralize Omicron variants.

STORM imaging buffer with refractive index matched to standard immersion oil

This paper introduces a STORM imaging buffer with refractive index matched to standard immersion oil, improving imaging depth and resolution for thick tissues.

Machine Learning Investigation Of Gene Expression Datasets Reveals TP53 Mutant-like AML With Wild Type TP53 And Poor Prognosis

This study uses machine learning to identify a TP53 mutant-like AML subtype with poor prognosis in TP53 wild-type cases, characterized by distinct gene expression and drug sensitivity profiles.

Lumbar endplate microfracture injury induces Modic-like changes, intervertebral disc degeneration and spinal cord sensitization-An In Vivo Rat Model