Xin Wang

LigRNA: High-accuracy prediction of RNA-ligand binding sites via dynamic chemical complementarity and language model encoding

LigRNA predicts RNA-ligand binding sites using a graph neural network that combines language model embeddings and physicochemical features, achieving improved performance over existing methods.

A transformer-based model reveals sparse, stimulus-dependent orientation readout from macaque V1 population activity

This paper uses a transformer-based model to show that macaque V1 neurons use sparse, stimulus-dependent readout for orientation information.

An applicable and efficient retrograde monosynaptic circuit mapping tool for larval zebrafish

This paper develops an efficient method for retrograde monosynaptic tracing in larval zebrafish neural circuits using modified rabies viruses.

ReTIF: Granularity-Aware Multitask Interaction Routing for RNA-Compound Interaction Prediction and Binding-Site Localization

ReTIF improves RNA-compound interaction prediction and binding-site localization by using task-specific interaction representations, outperforming baselines in multiple evaluation scenarios.

Bacterial Peptidoglycan Extends Lifespan by Activating Lysosomal Activity through V-ATPase Binding

This study identifies bacterial peptidoglycan as a conserved activator of lysosomal function that extends lifespan in C. elegans and mice by enhancing V-ATPase activity and lysosomal acidification.

Oxaloacetate damages mitochondria by perturbing MIC60-dependent membrane remodeling

The paper identifies oxaloacetate accumulation as a cause of mitochondrial damage by inhibiting MIC60-dependent membrane remodeling in C. elegans and mammalian cells.

Integrated whole-genome and transcriptome sequencing reveals divergent evolutionary processes across biliary tract cancer subtypes

The paper uses whole-genome and transcriptome sequencing to identify two consensus cancer subtypes in biliary tract cancer, revealing divergent molecular landscapes that better explain tumor heterogeneity than anatomical classification.

Large-scale analysis demonstrates the influence of CYP2C19 genotype on specific SSRI side effects

The paper analyzes the impact of CYP2C19 genotype on SSRI side effects and discontinuation rates in a large sample of individuals.

Membrane-anchored influenza neuraminidase vaccine drives human-like broadly protective B cell responses

This study develops a membrane-anchored influenza neuraminidase vaccine that elicits human-like broadly protective B cell responses and cross-inhibitory activity against diverse NA variants.

HMA proteins produce 2',3'-cNMP signaling molecules and activate CNL-mediated immunity in rice

This study identifies HMA proteins in rice as sensors that generate 2',3'-cNMP signaling molecules, which are perceived by CNL LRR domains to activate immunity against blast disease.

Childhood Maltreatment and Deviations from Normative Brain Structure: Results from 3,711 Individuals from the ENIGMA MDD and ENIGMA PTSD

The paper examines how childhood maltreatment affects brain structure in 3,711 individuals with MDD and PTSD, finding age- and sex-specific brain morphometric differences.

Targeting phosphodiesterase 10A disrupts MAPK signaling pathways in the tumor microenvironment to unleash antitumor immunity

This study shows that PDE10A inhibition with ADT-030 suppresses tumor growth by disrupting MAPK signaling and enhancing antitumor immunity through immune cell modulation.

Poly(A)-tail-length-dependent surveillance of viral RNA by PABPC1 orchestrates broad-spectrum antiviral defense

This study identifies PABPC1 as a host factor that selectively targets viral RNA with short poly(A) tails, leading to degradation and antiviral defense, and develops a synthetic therapeutic based on this mechanism.

Obesity promotes urinary tract infection by disrupting urothelial immune defenses

This study shows obesity increases UTI risk by altering bladder immune defenses through focal adhesion kinase activation in mice and human cells.

ALK1-BMPRII agonism by clustering bispecific antibodies treats hereditary hemorrhagic telangiectasia

This study develops bispecific antibodies that activate the ALK1-BMPRII pathway, reducing AVMs and improving symptoms in HHT mouse models.

Distributed Biomarker Discovery for Immuno-Oncology

This paper develops a distributed pipeline for immuno-oncology biomarker discovery using federated learning to integrate clinical and molecular data across institutions without sharing sensitive data.

AF9/KLF2 gene regulatory circuit links histone lactylation to breast cancer metastasis

This study identifies an AF9-KLF2 gene regulatory circuit that links histone lactylation to breast cancer metastasis by integrating metabolism, epigenetics, and signaling.

Single-cell transcriptome profiling of the myeloid cells repopulating after chemotherapy identifies a neutrophil-like monocyte subset with pro-tumor activities

The paper uses single-cell RNA sequencing to study myeloid cell repopulation after chemotherapy in mice, identifying a neutrophil-like monocyte subset with immunosuppressive and pro-tumor activities.

The heritability and structural correlates of brain entropy

This study calculates brain entropy from resting-state fMRI data and finds it is heritable and correlates with structural brain features.

A Novel Approach to Topological Network Analysis for the Identification of Metrics and Signatures in Non-Small Cell Lung Cancer

The paper introduces a novel composite selection index, the C-Index, to identify significant gene pathways and a 4-gene biomarker signature for early diagnosis of NSCLC using topological network analysis.

Noise improves the association between effects of local stimulation and structural degree of brain networks

This study shows that noise amplitude nonmonotonically influences the relationship between local stimulation effects and structural brain network properties.

Mendelian Randomization analyses identify causal associations of human gut microbiome composition on intelligence

The paper uses Mendelian randomization to find causal links between gut microbiome taxa and intelligence, identifying Oxalobacter as a risk factor and Fusicatenibacter as protective.

Cross-Ancestry Investigation of Venous Thromboembolism Genomic Predictors

This study identifies 135 genomic loci associated with venous thromboembolism risk through cross-ancestry GWAS and provides insights into biological pathways and potential therapeutic targets.

Small cytosolic dsDNAs repress cGAS activation and induce autophagy

The paper identifies small cytosolic DNAs (scDNAs) that inhibit cGAS activation and induce autophagy, preventing excessive inflammation.

Genome-wide association study of musical beat synchronization demonstrates high polygenicity

This study conducts a genome-wide association study to identify genetic variants linked to musical beat synchronization, finding high polygenicity with 69 significant loci and heritability estimates of 13%-16%.

A Standardized Framework for Taxonomy Analysis in Bacterial Kingdom based on Protein Domain

The paper proposes a 3-step framework for bacterial taxonomy analysis based on protein domains and selects the best model candidates to improve classification accuracy and biological interpretation.

Taxonomy Analysis in Bacterial Kingdom based onProtein Domain: A Comparison Study

The paper proposes a 3-step framework for bacterial taxonomy analysis based on protein domains, selects the best model candidates, and provides taxonomy suggestions for NCBI.

Blood vessels regulate primary motor neuronal pathfinding in zebrafish via exosome contained microRNA-22

This study shows that miRNA-22a in blood vessels guides motor neuron pathfinding in zebrafish via exosomes and regulates vascular and neuronal patterning.

An artificial intelligence system reveals liquiritin inhibits SARS-CoV-2 by mimicking type I interferon

The paper identifies liquiritin as an antiviral compound that inhibits SARS-CoV-2 by mimicking type I interferon, showing efficacy in cell cultures and low toxicity in mice.

Trans-synaptic Fish-lips Signaling Prevents Misconnections between Non-synaptic Partner Olfactory Neurons

This paper identifies Fish-lips (Fili) as a transmembrane protein that mediates repulsion between non-synaptic partner neurons to ensure precise wiring in the Drosophila olfactory circuit.