Y. Xia

Marseilleviruses biological properties and viral translation-associated proteins based on in silico tertiary structure

This study reports four new marseillevirus strains, analyzes their biological properties, and predicts novel translation-associated proteins through in silico methods.

Modeling neural coding in the auditory midbrain with high resolution and accuracy

The paper introduces ICNet, a deep learning model that accurately simulates neural dynamics in the auditory midbrain across various sounds, including speech.

Bridging the Gap: biofilm-mediated establishment of Bacillus velezensis on Trichoderma guizhouense mycelia

This study investigates bacterial-fungal interactions between Bacillus velezensis and Trichoderma guizhouense, showing biofilm-mediated colonization and gene expression changes that reveal complex dynamics in soil microbiota.

A foundation model for generalizable cancer diagnosis and survival prediction from histopathological images

This paper introduces BEPH, a lightweight foundation model for cancer diagnosis and survival prediction from histopathological images, showing improved performance over existing models with limited data.

Crosslinker Architectures Impact Viscoelasticity in Dynamic Covalent Hydrogels

This study investigates how different crosslinker architectures affect the viscoelastic properties of dynamic covalent hydrogels, showing that side-chain and telechelic crosslinkers lead to distinct mechanical behaviors.

Hepatitis E virus infection upregulates ING5 expression in vitro and vivo

This study shows that HEV infection increases ING5 expression in both animal models and human cells, suggesting a potential role in HEV pathogenesis.

A Lung Cancer Mouse Model Database

The paper establishes a database of lung cancer mouse models to improve data comparison and translational relevance by aligning mouse mutations with human lung cancer mutations.

Chromosome segment scanning for gain- or loss-of-function screening (CHASING) and its application in metabolic engineering

The paper introduces CHASING, a method for gain- or loss-of-function screening using chromosome-segment deletions, and applies it to identify metabolic engineering targets in B. subtilis.

Target-aware Molecule Generation for Drug Design Using a Chemical Language Model

This paper introduces TamGen, a chemical language model for target-aware molecule generation, and shows it produces high-quality compounds with inhibitory activity against Tuberculosis ClpP protease.

Metagenomic Analysis Reveals the Transfer of Antibiotic Resistance from Manure-Fertilized Soil to Carrot Microbiome

The paper investigates the transfer of antibiotic resistance genes from manure-fertilized soil to carrot microbiomes, finding that beta-lactamases are transferred via rhizosphere microbes despite limited plasmid-mediated resistance.

Reconciling ASPP-p53 Binding Mode Discrepancies through an Ensemble Binding Framework that Bridges Crystallography and NMR Data

This study reconciles discrepancies in ASPP-p53 binding modes by showing that an ensemble of simulated complexes better aligns with experimental data than single crystal structures.

Simplicity: web-based visualization and analysis of high-throughput cancer cell line screens

Simplicity provides a web-based tool for visualizing and analyzing high-throughput cancer cell line screens, enabling recalculation of summary statistics at user-defined drug concentrations.

Nifuroxazide Suppresses PD-L1 Expression and Enhances the Efficacy of Radiotherapy in Hepatocellular Carcinoma

This study shows nifuroxazide enhances radiotherapy in HCC by reducing PD-L1 expression and improving tumor response.

Cell therapy with IL-10-producing group 2 innate lymphoid cells suppresses Graft-versus-Host disease

This study demonstrates that IL-10-producing group 2 innate lymphoid cells (ILC210) can suppress Graft-versus-Host Disease (GVHD) in a humanized model without compromising graft-versus-leukemic effects.

Pharmacological or genetic inhibition of Scn9a protects human and mouse beta cells while dampening insulin secretion in type 1 diabetes

This study shows that inhibiting Scn9a protects beta cells in type 1 diabetes by reducing excitability and improving survival, while also dampening insulin secretion.

Steroid Receptor Coactivator-3 is a Key Modulator of Regulatory T Cell-Mediated Tumor Evasion

This study shows that deleting SRC-3 in regulatory T cells eradicates tumors in mouse models by enhancing antitumor immunity without autoimmune side effects.

Host genetic variation guides hepacivirus clearance, chronicity, and liver fibrosis in mice

The paper infects diverse mouse strains with a hepacivirus and shows host genetic variation influences viral clearance, chronicity, and liver fibrosis outcomes.

Cross-species single-cell comparison of systemic and cardiac inflammatory responses after cardiac injury

This study compares systemic and cardiac inflammatory responses to injury in mice and zebrafish using single-cell transcriptomics, revealing distinct monocyte/macrophage transcriptional clusters and divergent responses between species.

Confinement with Myosin-II suppression increases heritable loss of chromosomes, using live-cell ChReporters

The paper uses live-cell ChReporters to show that Myosin-II suppression in confined mitosis increases heritable chromosome loss, independent of spindle assembly checkpoint in 3D and 2D.

A maize lipid droplet-associated protein is modulated by a virus to promote viral multiplication and infection

This study shows that rice black streaked dwarf virus recruits a maize lipid droplet-associated protein to regulate fatty acid metabolism, promoting viral multiplication and infection.

Rationally designed inhibitors of the Musashi protein-RNA interaction by hotspot mimicry

This paper designs inhibitors for Musashi proteins MSI1 and MSI2 by mimicking hotspot pharmacophores from protein-RNA complexes, showing specificity and activity in multiple assays.

Heterotrophic bacteria drive sulfide oxidation in coastal sediments

This study identifies heterotrophic bacteria as key drivers of sulfur oxidation in coastal sediments and seawater by analyzing microbial communities and metagenomes.

The critical role of BTRC in hepatic steatosis as an ATGL E3 ligase

This study identifies BTRC as an E3 ligase that promotes ATGL proteasomal degradation, contributing to hepatic steatosis in NAFLD, and suggests BTRC as a potential therapeutic target.

PF-D-Trimer, a broadly protective SARS-CoV-2 subunit vaccine: immunogenicity and application

This paper presents a subunit vaccine, PF-D-Trimer, derived from the Delta spike protein, showing robust immunogenicity and cross-reactive neutralizing antibodies against multiple SARS-CoV-2 variants.

Bone marrow AdipoQ-lineage progenitors are a major cellular source of M-CSF that dominates bone marrow macrophage development, osteoclastogenesis and bone mass

The paper identifies bone marrow AdipoQ-lineage progenitors as a major source of M-CSF, showing their critical role in macrophage development, osteoclastogenesis, and bone mass regulation.

PPIX-binding Proteins Reveal Porphyrin Synthesis and Ferroptosis Link

The paper identifies PPIX-binding proteins and shows that increased heme/porphyrin synthesis promotes ferroptosis distinct from canonical ferroptosis, with PRDX3 modulating this process.

Dysfunction of transfer RNA modifications in inflammatory bowel disease

This study investigates the role of Q-tRNA modifications in inflammatory bowel disease, finding reduced QTRT1 expression and altered junction proteins in IBD patients and models.

Extraintestinal roles of intestinal vitamin D receptor in protecting against dysbiosis and tumorigenesis in breast cancer

This study shows that intestinal vitamin D receptor deficiency promotes breast cancer by causing gut dysbiosis, increased inflammation, and microbial translocation.

An attempt to find the correlations between body weight and the composition of gut microbiota in Zhejiang and Shanghai

This study analyzes gut microbiota composition in individuals from Zhejiang and Shanghai to explore its potential link to obesity and BMI, finding some correlations but no significant differences.

Intestinal epithelial Axin1 deficiency protects against colitis via altered gut microbiota

This study shows that intestinal epithelial Axin1 deficiency reduces susceptibility to colitis by altering gut microbiota composition and Paneth cell function.