X. Zhang

TSNR: Protein-Specific Signals with Broad Molecular Context for Spatial Protein Prediction

The paper introduces TSNR, a method for spatial protein prediction that uses protein-specific signals and broad molecular context, achieving high correlation on a benchmark.

Heparan sulfate promotes autoactivation of pro-Cathepsin K by destabilizing the propeptide-catalytic domain interaction

This study shows heparan sulfate promotes pro-CtsK autoprocessing by disrupting an electrostatic interaction between the propeptide and catalytic domain.

Mitoregulin supports mitochondrial membrane integrity and protects against cardiac ischemia-reperfusion injury

This study shows that Mitoregulin (Mtln) protects mitochondrial membrane integrity and reduces cardiac ischemia-reperfusion injury by stabilizing cardiolipin and preventing membrane damage.

Single cell profiling of bone metastasis ecosystems from multiple cancer types reveals convergent and divergent mechanisms of bone colonization.

The paper analyzes bone metastases from six cancer types using single-cell RNA-seq to identify three immune archetypes and their mechanisms of bone colonization.

Cheese3D: Sensitive Detection and Analysis of Whole-Face Movement in Mice

Cheese3D detects and analyzes whole-face movements in mice with high precision, providing insights into physiological and neural states through 3D motion data.

Long-read transcriptomics of Ostreid herpesvirus 1 uncovers a conserved expression strategy for the capsid maturation module and pinpoints a mechanism for evasion of the ADAR-based antiviral defence

This study uses long-read transcriptomics to analyze OsHV-1, revealing conserved capsid maturation gene expression and a mechanism to evade ADAR-based antiviral defense.

Heparan sulfate selectively inhibits the collagenase activity of cathepsin K

This study shows heparan sulfate inhibits cathepsin K collagenase activity while preserving peptidase activity, revealing HS as a potential therapeutic target for bone resorption diseases.

Megabarcoding reveals a tale of two very different dark taxa along the same elevational gradient

The paper uses megabarcoding to show that two Diptera taxa have distinct spatio-temporal distributions along an elevational gradient in a temperate forest.

Towards Simulation Optimization: An Examination of the Impact of Scaling on Coalescent and Forward Simulations

This paper examines how scaling affects coalescent and forward simulations in human and Drosophila populations, finding that scaling impacts diversity estimates, runtime, and selection effects differently in each species.

Nanocluster-antibody-drug conjugates (NADC) as an intravesical precision theranostic agent for interstitial cystitis

This paper develops a nanocluster-antibody-drug conjugate (NADC) for interstitial cystitis, showing it targets NGF-overexpressing bladder lesions and reduces inflammation in rat models.

New role of cardiomyocyte Bmal1 in the regulation of sex-specific heart transcriptomes

This study shows that cardiomyocyte Bmal1 is essential for sex-specific gene expression in the adult mouse heart, as its loss reduces sex differences in circadian transcriptomes.

A New Large-Scale Extracellular Vesicle Production Strategy for Biomedical Drug Development

This paper introduces a novel large-scale EV production strategy with upstream fed-batch suspension cell culture and downstream chromatographic purification for clinical applications.

Quantitative RNA spatial profiling using single-molecule RNA FISH on plant tissue cryosections

This paper introduces an optimized smFISH protocol for plant tissue cryosections, enabling precise quantification of mRNA and validation of scRNA-seq data.

All-trans retinoic acid induces durable tumor immunity in IDH-mutant gliomas by rescuing transcriptional repression of the CRBP1-retinoic acid axis

This study shows that all-trans retinoic acid (ATRA) improves immune response in IDH-mutant gliomas by restoring the RA pathway, leading to tumor regression in mouse models and a clinical trial for human patients.

MicroRNAs and PFAS: A Pilot Study in Blood Collected from Firefighters

This study examines PFAS exposure in firefighters through miRNA sequencing of plasma exosomes and compares results to general population data, finding no significant overall PFAS difference but miRNA expression heterogeneity.

SwinCell: a transformer-based framework for dense 3D cellular segmentation

SwinCell is a 3D transformer-based framework that improves segmentation of dense cellular images by balancing local feature recognition and contextual understanding.

Onco-Circuit Addiction and Onco-Nutrient mTORC1 Signaling Vulnerability in a Model of Aggressive T Cell Malignancy

The paper shows that mTORC1 signaling hypersensitivity to leucine drives an onco-circuit in T cell malignancy, and a low leucine diet is therapeutic without impairing T cell immunity.

Kidney toxicology of a novel compound Lithium Bis(trifluoromethanesulfonyl)imide (LiTFSI, ie. HQ-115) used in energy applications: an Epigenetic evaluation

This study evaluates the kidney toxicology of LiTFSI (HQ-115) in mice, finding biochemical changes, renal injuries, and epigenetic alterations linked to inflammation and cancer pathways.

Proliferative cell targeting and epithelial cell turnover fuels hepatitis E virus replication in human intestinal enteroids

This study establishes an HEV-HIE model showing HEV replication in intestinal epithelial cells, with proliferative cells being the main targets, suggesting the gut as an HEV reservoir.

Increased TRPV4 channel expression enhances and impairs blood vessel function in hypertension

This study shows that increased TRPV4 channel expression in endothelial cells both enhances and impairs vascular function in hypertension, leading to altered Ca2+ signaling and vascular reactivity.

Differential seasonal effects of ephemeral legumes in response to moisture-nitrogen coupling in the deserts of northwestern China

This study examines how moisture and nitrogen affect two desert legumes, showing growth and chlorophyll differences under varying treatments, with moisture-nitrogen coupling influencing physiological responses.

Cyborg islets: implanted flexible electronics reveal principles of human islet electrical maturation

The paper uses flexible electronics to study electrical maturation of human pancreatic islets over time, identifying key electrical states and their role in hormone secretion.

Engineered Migrasomes: Harnessing Core Migrasome Machinery and Hypotonic Shock to Develop a Robust and Thermally Stable Vaccine Platform

This study engineers migrasome-like vesicles (eMigrasomes) using hypotonic shock to create a stable, thermally robust vaccine platform that elicits strong immune responses.

The Kv2.2 channel mediates the inhibition of Prostaglandin E2 on glucose-stimulated insulin secretion in pancreatic β-cells

This study shows PGE2 inhibits glucose-stimulated insulin secretion in β-cells via the EP2/4-Kv2.2 pathway by modulating Kv2.2 channels through PKA.

Cytokine and Chemokine Receptor Profiles in Adipose Tissue Vasculature Unravel Endothelial Cell Responses in HIV

This study examines cytokine and chemokine receptor expression in adipose tissue endothelial cells of HIV-positive individuals, identifying receptor differences and their potential role in vascular dysfunction.

MYB68 orchestrates cork differentiation by regulating stem cell proliferation and suberin deposition

This study identifies MYB36 subclade transcription factors as regulators of cork differentiation by promoting suberin deposition and repressing cork cambium proliferation.

Protocatechuic acid induces endogenous oxidative stress in CR-hvKP by regulating the EMP-PPP pathway

This study shows that protocatechuic acid (PCA) enhances antibiotic efficacy against carbapenem-resistant hypervirulent Klebsiella pneumoniae by inducing oxidative stress through regulation of the EMP-PPP pathway.

Subtomogram averaging of helical filaments in cryo-electron tomography

The paper describes a protocol for subtomogram averaging to generate high-resolution density maps of helical filaments using cryo-electron tomography, applied to mumps virus nucleocapsids and in-cell forms.

Enhanced Ca2+-Driven Arrhythmias in Female Patients with Atrial Fibrillation: Insights from Computational Modeling

This study uses computational models to show female atrial cardiomyocytes in AF have higher Ca2+-driven arrhythmia risk than males, with specific interventions identified to address these differences.

Multi-COBRA hemagglutinin formulated with cGAMP microparticles elicit protective immune responses against influenza viruses

This study evaluates COBRA vaccines formulated with cGAMP microparticles in mice, showing enhanced antibody responses and protection against influenza viruses.