Jian Wang

PatientPheX: A Full-Text Biomedical Corpus for Patient-Specific Phenotype Information Extraction

PatientPheX is a biomedical corpus for extracting and normalizing patient-specific phenotype information from full-text articles, achieving high entity and relation extraction performance.

FLASH X-rays preserve neutrophil chromatin to boost antitumor immunity

This study shows FLASH X-rays preserve neutrophil chromatin, reducing NET formation and enhancing antitumor immunity when combined with anti-PD-1 therapy.

A T2T Benchmark Reveals How Reference Choice Shapes Human Genome Interpretation

This paper benchmarks how reference genome choice affects human genome interpretation by comparing T2T references and finding ancestry-matched references provide more accurate variant discovery.

Approaching an Error-Free Diploid Human Genome Using a Support-Based Validation Framework

The paper introduces a support-based validation framework to correct assembly errors in diploid genomes using independent sequencing evidence.

Assembly of the ATP-driven cobalt chelatase

The paper investigates the step-wise assembly mechanism of the ATP-driven cobalt chelatase CobSTN involved in vitamin B12 biosynthesis.

Engineering of CAR-less lentiviral vectors via ER retention-mediated CAR blockade

The paper develops CLEAN-V, a lentiviral vector system that blocks CAR protein incorporation into viral particles, enabling safer in vivo CAR-T therapy without compromising functionality.

Cardiomyocytes Undergo a Mesenchymal-Like Fate Transition in Myocardial Fibrosis

This study shows that cardiomyocytes can transition to a mesenchymal-like fate during myocardial fibrosis, regulated by HGS and ALDH1A2, contributing to fibrosis and calcification.

The genetic repertoire of the deep sea: from sequence to structure and function

This study analyzes the genetic diversity of the deep sea, linking protein structures to genetic variants and identifying biotechnologically relevant features.

Biosynthesis of bisbenzylisoquinoline alkaloids

This study identifies the enzymatic pathway for bisbenzylisoquinoline alkaloid biosynthesis and reveals a non-canonical redox-mediated mechanism for stereochemical control.

CAD rewires nucleotide metabolism to drive oxidative stress in myocardial ischemia/reperfusion injury

This study identifies CAD as a key regulator of myocardial ischemia/reperfusion injury by linking nucleotide metabolism to oxidative stress through dual-compartment ROS signaling.

Chemoproteomic Characterization of GPX4 Covalent Ligands and Targeted Degradation

The paper characterizes a covalent GPX4 inhibitor and develops degraders, expanding tools for GPX4 targeting.

ExMODE: A Multi-Omics Repository for Extremophile Adaptation and Bioprospecting

ExMODE is a multi-omics database for extremophiles that integrates and standardizes data to enable comparative analysis and bioprospecting.

Phosphoregulated SMCR8-FIP200 interaction connects the ALS/FTD-linked C9orf72 complex to autophagy initiation and mitochondrial quality control

The landscape of structural variation in pediatric cancer

This study analyzes structural variants in 1,616 pediatric cancer genomes, revealing unique SV hotspots and patterns distinct from adult cancers.

Cell Type Architecture and Positional Gene Gradients in an Adult Animal at Subcellular Resolution

This study reconstructs 3D spatial transcriptomic models of planarians to map cell type distribution and positional gene regulation, identifying candidate genes involved in regeneration.

Single-Cell Genomics Elucidates Molecular Variations and Regulatory Mechanisms in Circulating Immune Cells

The paper introduces CIMA, a multi-omics atlas of human immune cells, identifying regulatory mechanisms and genetic associations across sex, age, and genetic factors.

4D Single-Cell Spatial Transcriptomics Reveals Dynamic Morphogenetic Gradients and Regenerative Domains in Planarians

This study constructs a 4D spatiotemporal transcriptomic map of planarian regeneration using Stereo-seq, identifying dynamic gradients and an injury-induced regenerative zone.

Distinct cell wall molecular architecture of dimorphic Talaromyces marneffei cells revealed by solid-state NMR spectroscopy

This study uses solid-state NMR to reveal distinct cell wall structures in Talaromyces marneffei yeast and hyphal forms, highlighting differences in thickness, hydration, and polymer composition.

Seq2Karyotype (S2K): A Method for in-silico Karyotyping Using Single-Sample Whole-Genome Sequencing Data

Seq2Karyotype (S2K) enables in-silico karyotyping from whole-genome sequencing data, revealing intratumoral heterogeneity and evolutionary trajectories in cancer samples.

Genomic evolution reshapes cell type diversification in the amniote brain

The paper creates a single-cell atlas of amniote brains to study cell type diversification and identifies species-specific gene expression patterns and novel cell subtypes.

Metabolomics profiling reveals association of fermented herbal feed additive, growth performance and gut microbiota in piglets

This study shows that fermented Chinese medicine (FCM) improves piglet growth and health by increasing lactic acid and propionic acid levels and altering gut microbiota composition.

Genetic studies of gestational diabetes mellitus in 21,813 Chinese women

This study identifies four genome-wide significant SNPs associated with GDM in Chinese women and develops an early prediction model using clinical and genetic indicators.

Dissecting aneuploidy phenotypes by constructing Sc2.0 chromosome VII and SCRaMbLEing synthetic disomic yeast

The paper constructs a synthetic disomic yeast using SCRaMbLE and a newly synthesized chromosome to study aneuploidy phenotypes, finding that both copy number and specific chromosomal regions affect fitness.

Local and long-distance organization of prefrontal cortex circuits in the marmoset brain

This study maps prefrontal cortex circuits in marmosets, revealing distinct local and long-distance projection patterns and their implications for primate brain organization.

Construction of a High-Density Genetic Map Based on Large-Scale Marker Development in Coix lacryma-jobi L . Using Specifific-Locus Amplifified Fragment Sequencing (SLAF-seq)

The paper constructs a high-density genetic map for Coix lacryma-jobi using SLAF-seq, identifying 3,605 markers across 10 linkage groups with an average distance of 0.45 cM.

HIF-1α Contributes to the Progression of Chronic Obstructive Pulmonary Disease

This study investigates the role of HIF-1 in COPD progression using digoxin as an inhibitor, showing its protective effects against inflammation and EMT through the HIF-1/TGF-β1/Smad3 pathway.

Intra-host Variation and Evolutionary Dynamics of SARS-CoV-2 Population in COVID-19 Patients

This study characterizes intra-host SARS-CoV-2 genomic variants and their evolutionary dynamics in COVID-19 patients using deep sequencing data.

The Amyloid Structure of Mouse RIPK3 (Receptor Interacting Protein Kinase 3) in Cell Necroptosis

This study structures and functionally characterizes the mouse RIPK3 amyloid complex in necroptosis, revealing a unique N-shaped core and a structural transformation from hetero- to homo-oligomer.

The HLA Ligand Atlas - A resource of natural HLA ligands presented on benign tissues

The paper presents the HLA Ligand Atlas, a resource of HLA-I and -II ligands from benign tissues, showing tissue and individual differences and non-canonical ligand origins.

Fibroblast growth factor-2 prevents synaptic pathology in minimal hepatic encephalopathy via NRG1/ErbB4 signaling

This study shows FGF2 improves synaptic pathology in MHE by increasing NRG1 and ErbB4 signaling, enhancing synapse activity and dendritic spine density through Sirt1.