J. Y. Kim

ER-to-lysosome Ca2+ refilling followed by K+ efflux-coupled store-operated Ca2+ entry in inflammasome activation and metabolic inflammation

This study identifies a novel mechanism involving lysosomal Ca2+ release and K+ efflux through KCa3.1 channels in inflammasome activation and metabolic inflammation.

Genomic hypomethylation in cell-free DNA predicts responses to checkpoint blockade in lung and breast cancer

This study develops iMethyl, a method to estimate genomic hypomethylation from cell-free DNA to predict responses to immune checkpoint blockade in cancer patients.

Handling difficult cryo-ET samples: A study with primary neurons from Drosophila melanogaster

This study addresses challenges in preparing Drosophila melanogaster neurons for cryo-ET by optimizing substrate selection, micropatterning, data collection, and fixation.

Data-driven discovery of innate immunomodulators via machine learning-guided high throughput screening

This study uses machine learning to guide high-throughput screening and discovers small molecules that modulate innate immune pathways, with some showing up to 15-fold suppression of NF-κB activity.

Estimating Insulin Sensitivity and Beta-Cell Function from the Oral Glucose Tolerance Test: Validation of a new Insulin Sensitivity and Secretion (ISS) Model

The paper validates a new ISS model for estimating insulin sensitivity and beta-cell function from OGTTs, showing strong correlation with gold-standard methods across diverse populations.

Tubular Mitochondrial Pyruvate Carrier Disruption Elicits Redox Adaptations that Protect from Acute Kidney Injury

The paper shows that reducing mitochondrial pyruvate carrier activity in kidney tubular cells protects against acute kidney injury by enhancing redox defenses and survival.

Metabolic rewiring of mitochondria in senescence revealed by time-resolved analysis of the mitochondrial proteome

This study identifies metabolic rewiring in mitochondria during cellular senescence through time-resolved proteomic analysis in human fibroblasts.

Q-SHINE: a versatile sensor for glutamine measurement via ligand-induced dimerization

The paper introduces Q-SHINE, a sensor for measuring glutamine levels through ligand-induced dimerization, enabling accurate detection in bio-fluids and living cells.

Relative infectivity of the SARS-CoV-2 Omicron variant in human alveolar cells

This study compares the infectivity of SARS-CoV-2 variants in human alveolar cells, finding Omicron (BA.1) to be 3-5-fold more infectious than other variants at early infection.

Changes of Mutations and Copy-number and Enhanced Cell Migration during Breast Tumorigenesis

This study identifies mutations and copy-number variations in breast tumorigenic cells and shows that ECM-mimetic platforms enhance their migration.

OncoLoop: A network-based precision cancer medicine framework

OncoLoop predicts and validates drug sensitivity in tumors and their models by leveraging perturbational profiles of oncology drugs, showing success in prostate cancer models and patient cohorts.

Correlative cryogenic montage electron tomography for comprehensive in-situ whole-cell structural studies

This paper introduces tools for montage electron tomography to improve imaging of large fields of view in cryo-electron tomography while maintaining high-resolution structural information.

Genuine Selective Caspase-2 Inhibition with new Irreversible Small Peptidomimetics

This paper develops and tests new irreversible peptidomimetics that selectively inhibit Caspase-2, showing efficacy in preventing cell death and synapse loss in disease models.

In vitro validation of neoantigen prediction algorithm for developing personalized cancer vaccine therapy

The paper validates a neoantigen prediction algorithm, Neopepsee, by testing its immunogenicity using ELISpot assays on patient-derived samples and compares it to pVACseq.

Respiratory syncytial virus matrix protein assembles as a lattice with local and extended order that coordinates the position of the fusion glycoprotein

This study uses cryo-electron tomography to show RSV matrix protein forms a helical lattice that positions the fusion glycoprotein, providing insights into virion organization and potential vaccine targets.

Whole-cell cryo-electron tomography of cultured and primary eukaryotic cells on micropatterned TEM grids

This paper demonstrates the use of micropatterning to culture and adhere eukaryotic cells on TEM grids for whole-cell cryo-ET, enhancing studies of cellular structures and host-pathogen interactions.

Community Evaluation of Glycoproteomics Informatics Solutions Reveals High-Performance Search Strategies of Serum N- and O-Glycopeptide Data

This study evaluates glycoproteomics software performance using human serum datasets, identifies high-performance strategies, and provides recommendations for improved analysis.

Nephrotoxicity of the BRAF-kinase inhibitor Vemurafenib isdriven by off-target Ferrochelatase inhibition

This study identifies off-target ferrochelatase inhibition as a mechanism of vemurafenib-induced nephrotoxicity in renal tubular epithelial cells.

SOX9 promotes stress-responsive transcription of VGF nerve growth factor inducible gene in kidney epithelial cells

The paper identifies VGF as a stress-responsive protective gene in kidney epithelial cells, showing that SOX9 drives its transcription during injury.

Comparative microbiomes of three species of laboratory-reared Periplaneta cockroaches

This study compares the microbiomes of three Periplaneta cockroach species using 16S rRNA sequencing, finding similar but distinct bacterial compositions despite shared rearing conditions.

Longitudinal single cell profiling of regulatory T cells identifies IL-33 as a driver of tumor immunosuppression

The paper identifies IL-33 as a driver of tumor immunosuppression by analyzing longitudinal single-cell RNA-Seq data of regulatory T cells in a mouse model of lung adenocarcinoma.

Identification of peptide coatings that enhance diffusive transport of nanoparticles through the tumor microenvironment

The paper identifies a peptide coating that enhances nanoparticle diffusion through the tumor microenvironment by screening phage libraries and testing transport in vitro and ex vivo.