B. Kim

Rapid protein evolution by few-shot learning with a protein language model

This paper introduces EVOLVEpro, a few-shot learning framework using protein language models to rapidly improve protein activity with minimal experimental data.

3D in-situ characterization reveals the instability-induced auxetic behavior of collagen scaffolds for tissue engineering

This study uses 3D tomography to show collagen scaffolds exhibit auxetic behavior due to instability under compression, which affects their performance in tissue engineering.

HIF2α inhibits glutaminase clustering in mitochondria to sustain growth of clear cell Renal Cell Carcinoma

This study shows HIF2α prevents GLS1 clustering in mitochondria, protecting ccRCC cells from glutamine deprivation, and suggests targeting GLS1 clustering could enhance HIF2 therapy.

The structural and mechanistic bases for the viral resistance to allosteric HIV-1 integrase inhibitor pirmitegravir

This paper identifies the mechanism of resistance to the HIV-1 integrase inhibitor pirmitegravir and develops a more potent analog to overcome this resistance.

Innate Immune Activation and Mitochondrial ROS Invoke Persistent Cardiac Conduction System Dysfunction after COVID-19

This study shows that SARS-CoV-2 infection causes persistent cardiac conduction system dysfunction in hamsters, driven by innate immune activation and mitochondrial ROS, with potential implications for long COVID.

Gene editing of SAMHD1 in macrophage-like cells reveals complex relationships between SAMHD1 phospho-regulation, HIV-1 restriction and cellular dNTP levels

This study uses CRISPR/Cas9 to edit SAMHD1 in macrophage-like cells, revealing that T592 phosphorylation affects HIV-1 restriction and dNTP levels independently.

Enhanced functionalities of immune cells separated by microfludic lattice: assessment based on holotomography

This study compares microfluidic and centrifugation methods for isolating white blood cells, finding microfluidic separation better preserves cell functionality.

Correlation of two different devices for the evaluation of primary implant stability depending on dental implant length and bone density: an in vitro study

The paper compares implant stability measurements using RFA and DCA in different implant lengths and bone densities, finding correlations with bone density and length.

In vitro broad-spectrum antiviral activity of MIT-001, a mitochondria-targeted reactive oxygen species scavenger, against severe acute respiratory syndrome coronavirus 2 and multiple zoonotic viruses

This study evaluates MIT-001's antiviral activity against SARS-CoV-2 and zoonotic viruses in vitro, showing inhibition of viral replication and restoration of antioxidant gene expression.

Evolution of chemosensory and detoxification gene families across herbivorous Drosophilidae

This study examines gene family evolution in herbivorous Drosophila to understand dietary adaptation, finding higher gene turnover in herbivores but limited losses on the ancestral herbivore branch.

Cardiac Effects of a Novel pH-Insensitive Sodium-Calcium Exchanger Mouse

This study creates a pH-insensitive NCX1 mouse and finds it has reduced growth, accelerated cardiac repolarization, and is resistant to ischemia/reperfusion injury.

CRACD suppresses neuroendocrinal plasticity of lung adenocarcinoma

This study shows CRACD suppresses neuroendocrinal plasticity in lung adenocarcinoma by restricting cell de-differentiation and stemness-related pathways.

Measuring human cerebral blood flow and brain function with fiber-based speckle contrast optical spectroscopy system

This paper develops a fiber-based speckle contrast optical spectroscopy (SCOS) system for measuring cerebral blood flow and brain function with improved signal-to-noise ratio compared to traditional DCS.

Enriched zones of embedded ribonucleotides are associated with DNA replication and coding sequences in the human mitochondrial genome

The paper identifies rNMP-enriched zones in human mtDNA linked to replication and coding sequences using ribose-seq across six cell types.

The Ralstonia pseudosolanacearum effector RipE1 is recognized at the plasma membrane by NbPtr1, Nicotiana benthamiana homolog of Pseudomonas tomato race 1.

This study identifies NbPtr1 as the receptor recognizing the Ralstonia pseudosolanacearum effector RipE1 in Nicotiana benthamiana, showing membrane association and polymorphism in recognition.

Static and dynamic analysis of in-vivo imaging for early-detection of lymphedema via near-infrared fluorescence indocyanine green lymphangiography

This study uses NIRF-ICG lymphangiography to analyze static and dynamic lymphatic function in lymphedema models, showing that dynamic analysis detects contractile abnormalities more effectively than static analysis.

Tumor Niche Network-Defined Subtypes Predict Immunotherapy Response of Esophageal Squamous Cell Cancer

This study defines ESCC subtypes based on tumor microenvironment transcriptional networks and predicts immunotherapy response using single-cell transcriptomics.

Actin dysregulation induces neuroendocrine plasticity and immune evasion: a vulnerability of small cell lung cancer

This study shows that CRACD, an actin regulator, suppresses neuroendocrine plasticity and immune evasion in SCLC by modulating NOTCH1 and EZH2 pathways, suggesting EZH2 blockade as a potential therapy.

Three-dimensional genomic mapping of human pancreatic tissue reveals striking multifocality and genetic heterogeneity in precancerous lesions

This study uses 3D imaging and genomic analysis to show that human pancreatic precancerous lesions (PanINs) are highly multifocal and genetically heterogeneous.

Decoupled neoantigen cross-presentation in tumors with high intratumor heterogeneity reduces dendritic cell activation to limit anti-tumor immunity

This study shows that clonal neoantigen expression enhances dendritic cell activation and anti-tumor immunity, while subclonal expression reduces it in tumors with high intratumor heterogeneity.

Key Genetic Determinants Driving Esophageal Squamous Cell Carcinoma Initiation and Immune Evasion

This study identifies key genetic drivers of ESCC initiation and immune evasion using CRISPR/Cas9 in murine organoids and human scRNA-seq data.

PCLAF-DREAM Drives Alveolar Cell Plasticity for Lung Regeneration

This study identifies PCLAF-DREAM's role in alveolar cell plasticity during lung regeneration and shows a drug candidate can pharmacologically target this process to prevent fibrosis.

Aberrant DNA repair is a vulnerability in histone H3.3-mutant brain tumors

The paper identifies aberrant DNA repair as a vulnerability in H3.3-mutant brain tumors, showing that PNKP-mediated repair is specific to mutant cells and offers therapeutic potential.

Combination therapy with nirmatrelvir and molnupiravir improves the survival of SARS-CoV-2 infected mice

This paper evaluates combination antiviral therapies in SARS-CoV-2 infected mice, finding that nirmatrelvir and molnupiravir together significantly improve survival compared to monotherapies.

Ptr1 and ZAR1 immune receptors confer overlapping and distinct bacterial pathogen effector specificities

The paper identifies effector recognition specificities of NbPtr1 and NbZAR1 in N. benthamiana and shows their distinct and overlapping roles in detecting bacterial effectors.

Identifying Proteasome 26S Subunit, ATPase (PSMC) Family Genes as the Prognostic Indicators and Therapeutic Targets in Lung Adenocarcinoma

This study identifies PSMC family genes as prognostic indicators and therapeutic targets in lung adenocarcinoma through differential expression, methylation, mutation, and survival analysis.

Long non-coding RNA G23Rik attenuates fasting-induced lipid accumulation in the liver

This study identifies G23Rik as a PPAR-regulated lncRNA that reduces hepatic lipid accumulation during fasting.

CRISPR/Cas9 knock-in strategy to evaluate phospho-regulation of SAMHD1

This study uses CRISPR/Cas9 knock-in to show that T592 dephosphorylation is required for SAMHD1's anti-viral activity, but not for dNTP depletion, suggesting uncoupling of these functions.

Batch Production of High-Quality Graphene Grids for Cryo-EM: Cryo-EM Structure of Methylococcus capsulatus Soluble Methane Monooxygenase Hydroxylase

The paper introduces a method to produce graphene-coated grids for cryo-EM and demonstrates their use in determining the structure of sMMOH at high resolution.

Senescent stroma induces nuclear deformations in cancer cells via the inhibition of RhoA/ROCK/myosin II-based cytoskeletal tension

This study shows senescent stroma reduces cancer cell nuclear tension via RhoA/ROCK/myosin II inhibition, leading to morphological changes linked to malignancy.