J. Chang

Antagonistic Roles for MITF and TFE3 in Melanoma Plasticity

This study identifies TFE3 and the non-canonical mTORC1 pathway as regulators of melanoma cell state plasticity, showing MITF suppresses the mesenchymal phenotype by modulating TFE3 expression.

Identification of new markers of angiogenic sprouting using transcriptomics: New role for RND3

The paper identifies a 39-gene signature associated with endothelial cell sprout initiation and reveals a new role for RND3 in filopodial extension during angiogenesis.

MIPDB: A maize image-phenotype database with multi-angle and multi-time characteristics

The paper introduces MIPDB, a maize image-phenotype database with multi-angle and multi-time images, providing a high-quality dataset for deep learning-based phenomics research.

Liming enhances the abundance and stability of nitrogen-cycling microbes: The buffering effect of long-term lime application

This study shows that long-term liming increases microbial nitrogen-cycling gene abundance and stabilizes their populations against seasonal changes without increasing nitrous oxide emissions.

Selective enrichment of Methylococcaceae versus Methylocystaceae methanotrophs via control of methane feeding scheme

This study enriches methanotrophic microbiomes from paddy soils under different methane and copper conditions, finding Methylocystis dominance and ecological importance of methanobactin in Cu-deficient environments.

Rational protein engineering to enhance MHC-independent T cell receptors

The paper designs MHC-independent T cell receptors (miTCRs) to enhance cancer immunotherapy by improving receptor stability and function through structural modeling and iterative sequence modifications.

Comparative analysis of retroviral Gag-host cell interactions: focus on the nuclear interactome

This study compares the nuclear interactomes of HIV-1 and RSV Gag proteins, identifying shared and unique host factors involved in nuclear processes like transcription and chromatin remodeling.

Recognition and localization of maize leaves in RGB images based on Point-Line Net

This paper develops Point-Line Net, a deep learning method for detecting maize leaves and roots in field images, achieving 81.5% object detection accuracy and 33.5% keypoint detection performance.

Pharmacogenomic discovery of genetically targeted cancer therapies optimized against clinical outcomes

The paper identifies pharmacogenomic screening principles that predict clinical efficacy in cancer patients with specific driver mutations.

Chikungunya-virus-specific CD4+ T cells are associated with chronic chikungunya viral arthritic disease in humans

This study identifies CHIKV-specific CD4+ T cell responses in chronic CHIKVD patients, showing stronger responses and Th17 enrichment compared to resolved infection.

Oxidized LDL regulates efferocytosis through the CD36-PKM2-mtROS pathway

This study identifies the CD36-PKM2-mtROS pathway as a mechanism by which oxidized LDL disrupts efferocytosis, contributing to atherosclerosis progression.

Scavenger receptor class B type I is required for efficient glucose uptake and metabolic homeostasis in adipocytes

This study shows that SR-BI is necessary for efficient glucose uptake and metabolic homeostasis in adipocytes, as its absence leads to reduced glucose uptake and altered lipid metabolism.

Single Cell Portal: an interactive home for single-cell genomics data

The paper introduces the Single Cell Portal, a platform for sharing and exploring single-cell genomics data, supporting data visualization and collaboration throughout the research lifecycle.

Rat microbial biogeography and age-dependent lactic acid bacteria in healthy lungs

This study defines the microbial biogeography of healthy Fischer 344 rats across their lifespan and identifies age-dependent changes in lactic acid bacteria in the lungs.

Genetic basis of aposematic coloration in a mimetic radiation of poison frogs

This study identifies genes underlying Mullerian mimicry in poison frogs and shows that mimicry evolved through independent selective sweeps on color and pattern loci.

Modelling collagen fibril self-assembly from extracellular medium in embryonic tendon

The paper models collagen fibril self-assembly in embryonic mouse tendon, showing that fibrils form extracellularly through a phase-transition mechanism, supported by experimental data.

Iohexol-measured glomerular filtration rate and urinary biomarker changes between vancomycin and vancomycin plus piperacillin-tazobactam in a translational rat model

This study compares kidney function and injury biomarkers in rats treated with vancomycin, piperacillin-tazobactam, or both, finding no additive nephrotoxicity with the combination.

Seagrass genomes reveal a hexaploid ancestry facilitating adaptation to the marine environment

This study presents chromosome-level genome assemblies of seagrass species and identifies ancient and recent genome duplication events linked to adaptation to marine environments.

HIV-1 Gag colocalizes with euchromatin histone marks at the nuclear periphery

This study shows HIV-1 Gag localizes to euchromatin near the nuclear periphery, preferentially associating with transcriptionally active histone marks in CD4+ T cells.

Influence of HIV-1 genomic RNA on the formation of Gagbiomolecular condensates

This study investigates how HIV-1 genomic RNA influences Gag biomolecular condensate formation and size, revealing salt-dependent effects of mutations and compartment-specific differences in host factors.

Autolysosomal exocytosis of lipids protect neurons from ferroptosis

The paper shows that autolysosomal exocytosis of lipid-protein particles protects neurons from ferroptosis by removing peroxidated lipids and iron.

Impact of vancomycin loading doses and dose escalation on glomerular function and kidney injury biomarkers in a translational rat model

This study examines the effects of vancomycin loading doses and dose escalation on glomerular function and kidney injury biomarkers in a rat model, finding that higher doses correlate with greater kidney injury.

The landscape of antibody binding affinity in SARS-CoV-2 Omicron BA.1 evolution

The paper maps how mutations in the SARS-CoV-2 Omicron BA.1 RBD affect antibody binding affinity through systematic analysis of 32,768 genotypes against four monoclonal antibodies.

Mapping global land sharing-sparing patterns between human and wildlife

The paper maps global land sharing-sparing patterns between humans and wildlife using human-nature indices and classifies lands into four categories based on biodiversity and human pressure.

Outcome of Crash Course Training on Protein Structure Prediction with Artificial Intelligence

This paper summarizes a crash course on AI-driven protein structure prediction, highlighting its global reception and organizational insights.

Collective invasion of the basement membrane in breast cancer driven by forces from cell volume expansion and local contractility

This study shows breast cancer cells invade the basement membrane using both proteases and mechanical forces from cell volume expansion and local contractility.

The Phylotranscriptomic Hourglass Pattern in Fungi: An Updated Model

The paper updates the developmental hourglass model in fungi, identifying germinating spores as the conserved 'waist' and highlighting transcriptomic conservation across fungal phyla.

Modification Mechanism of Phenol-formaldehyde Resin with Crude Bio-oil by Model Compound Method

This study investigates how bio-oil components affect phenol-formaldehyde resin properties using model compounds, showing phenols and ketones improve synthesis while aldehydes and acids have negative effects, but all components enhance aging resistance.

Compensatory epistasis maintains ACE2 affinity in SARS-CoV-2 Omicron BA.1

This study identifies compensatory epistasis in SARS-CoV-2 Omicron BA.1 that maintains ACE2 affinity despite antibody-escape mutations.

NOS2 and COX2 Blockade Limits TNBC Disease Progression and Alters CD8+ T Cell Spatial Orientation and Density

This paper shows that blocking NOS2 and COX2 reduces TNBC tumor growth and improves CD8+ T cell infiltration and spatial distribution in tumors.