Y. Fan

Preclinical Pediatric Molecular Analysis for Therapy Choice (MATCH)

This paper establishes a diverse collection of preclinical models for pediatric solid tumors and demonstrates their utility in precision medicine trials and drug testing.

Deterministic processes played more important roles than stochastic processes in driving community assembly of ectomycorrhizal fungal associated with Pinus tabuliformis - an endemic Pinaceae species in China

The study examines EM fungal communities associated with Pinus tabuliformis, finding deterministic processes dominate community assembly over stochastic processes.

Conserved mycobacterial sRNA B11 regulates lipooligosaccharide synthesis at post-transcriptional level

This study identifies B11, a conserved mycobacterial sRNA, as a post-transcriptional regulator of lipooligosaccharide synthesis, revealing its mechanism of action through RNA-seq and mass spectrometry.

Chicken cecal microbial functional capacity and resistome differ by age and barn disinfection practice

This study examines how barn disinfection practices and chicken age affect the gut microbiome and resistome in broilers, finding age has a stronger impact than sanitation methods.

Repression of PRMT activities sensitize homologous recombination-proficient ovarian and breast cancer cells to PARP inhibitor treatment

This study identifies PRMT inhibitors as effective combinational therapies with PARP inhibitors to sensitize HR-proficient ovarian and breast cancer cells to treatment.

Distinct evolutionary patterns of tumor immune escape and elimination determined by ECM architectures

This study uses a computational model to show how tumor-associated collagen signatures influence immune escape and survival in breast cancer.

Opto-chemogenetic inhibition of L-type CaV1 channels in neurons through a membrane-assisted molecular linkage

This paper develops a method to inhibit L-type CaV1 channels in neurons using opto-chemogenetic tools, showing acute and potent inhibition through membrane-assisted molecular linkage.

UPF1 localises to mitochondria and is linked to mitochondrial gene expression and function in Drosophila

This study shows UPF1 localizes to mitochondria in Drosophila and affects mitochondrial gene expression and function independently of its role in NMD.

Enhancing Whole Slide Image Classification with Discriminative and Contrastive Learning

This study improves whole slide image classification by using discriminative and contrastive learning to create WSI-level positive and negative samples, enhancing classification performance and feature robustness.

Investigating the translational value of Periprosthetic Joint Infection (PJI) models to determine the risk and severity of Staphylococcal biofilms.

This study evaluates preclinical models to assess the risk and severity of Staphylococcal biofilms in periprosthetic joint infections and their antibiotic susceptibility.

The ER Thioredoxin-Related Transmembrane Protein TMX2 Controls Redox-Mediated Tethering of ER-Mitochondria Contacts (ERMCS)

This paper identifies TMX2 as a regulator of ER-mitochondria contacts by preventing TOM70 sulfenylation, linking its dysfunction to neurodevelopmental disorders.

Soft-lithographically defined template for arbitrarily patterned acoustic bioassembly

This paper introduces a soft-lithography-based acoustic bioassembly technique to create complex multicellular structures with functional liver tissue mimic capabilities.

A comparison of wild boar and domestic pig microbiota does not reveal a loss of microbial species but an increase in alpha diversity and opportunistic genera in domestic pigs

This study compares the gut microbiota of wild and domestic pigs, finding higher alpha diversity and increased opportunistic genera in domestic pigs, but no loss of microbial species.

Characterization of Genome-wide Phylogenetic Conflict Uncovers Evolutionary Modes of Carnivorous Fungi

The paper uses phylogenomic analyses of 23 genomes to study evolutionary modes of carnivorous fungi, finding extensive phylogenetic discordance due to incomplete lineage sorting and non-vertical evolution.

The Genomes of Nematode-Trapping Fungi Provide Insights into the Origin and Diversification of Fungal Carnivorism

This study compares the genomes of nematode-trapping fungi and non-NTF to identify genomic changes linked to carnivorism and adaptation to post-Permian-Triassic extinction environments.

Ovarian disrupting effects and mechanisms of long- and short-chain per- and polyfluoroalkyl substances in mice

This study investigates the effects of long- and short-chain PFAS on ovarian function in mice, finding that long-chain PFAS disrupt follicle maturation and ovulation via PPARγ activation.

HCCDB v2.0: Decompose the Expression Variations by Single-cell RNA-seq and Spatial Transcriptomics in HCC

HCCDB v2.0 integrates bulk, single-cell, and spatial transcriptomic data from HCC samples to enhance meta-analysis and provide new metrics for gene expression patterns.

Timp2 loss-of-function mutation and TIMP2 treatment in murine model of NSCLC: modulation of immunosuppression and oncogenic signaling

TIMP2 treatment compensates for TIMP2 mutation to reveal immunomodulatory and oncogene regulation that inhibits tumor growth and metastatic niche formation.

DNA sensor ABCF1 phase separates with cccDNA to inhibit HBV replication

This study identifies ABCF1 as a host protein that interacts with cccDNA, forming phase-separated condensates to suppress HBV replication through innate immune activation and transcription inhibition.

Multifrequency control of Faraday wave bioassembly for constructing multiscale hPSC-derived neuronal networks

This paper introduces a multifrequency Faraday wave bioassembly technique to create multiscale neuronal networks from hPSCs, demonstrating spontaneous neuroelectrical activity.

Engineered immunomodulatory extracellular vesicles derived from epithelial cells acquire capacity for positive and negative T cell co-stimulation in cancer and autoimmunity

This study engineers extracellular vesicles from epithelial cells to express immunomodulatory proteins, showing they can induce both positive and negative T cell co-stimulation in cancer and autoimmunity.

Polygonum Cillinerve polysaccharide inhibits Transmissible gastroenteritis virus by regulating microRNA-181

This study shows that Polygonum Cillinerve polysaccharide inhibits TGEV infection by modulating miRNA-181 and reducing apoptosis in PK15 cells.

Analysis of uveal melanoma scRNA sequencing data identifies neoplastic-immune hybrid cells that exhibit metastatic potential

The paper identifies neoplastic-immune hybrid cells in uveal melanoma scRNA-seq data that exhibit metastatic potential through gene expression and ligand-receptor analysis.

BBQ methods: Streamlined workflows for Bacterial Burden Quantification in infected cells by confocal microscopy

This paper introduces two automated methods for quantifying bacterial burden in macrophages using confocal microscopy, validated with Salmonella and Mycobacterium models.

Pseudorabies virus causes splenic injury via inducing the oxidative stress and apoptpsos related factors in mice

This study shows PRV infection increases oxidative stress and apoptosis in mouse spleen, with elevated ROS and MDA levels and reduced antioxidant enzymes.

Development, Characterization, and Structural Analysis of a Genetically Encoded Red Fluorescent Peroxynitrite Biosensor

The paper develops a red fluorescent peroxynitrite biosensor (pnRFP) using a genetically encoded boronic acid-containing amino acid, characterizes its properties, and elucidates its sensing mechanism through structural analysis.

BRD9-SMAD2/3 orchestrates stemness and tumorigenesis in pancreatic ductal adenocarcinoma

This study identifies BRD9 as a key regulator of pancreatic cancer stem cell stemness and tumorigenesis, showing that its inhibition reduces CSC self-renewal and enhances chemotherapy response.

Genetically Encoded Boronolectin as a Specific Red Fluorescent UDP-GlcNAc Biosensor

This paper develops a genetically encoded red fluorescent UDP-GlcNAc biosensor using a boronolectin and validates its function in live cells.

Accurate and Rapid Detection of Peritoneal Metastasis from Gastric Cancer by AI-assisted Stimulated Raman Cytology

This paper develops an AI-assisted stimulated Raman cytology method to detect peritoneal metastasis in gastric cancer with high accuracy and speed.

Defining ancestry, heritability and plasticity of cellular phenotypes in somatic evolution

The paper introduces PATH, a framework to quantify heritability and plasticity of cellular phenotypes in somatic evolution using single-cell data from mouse and human samples.