Yang Li

This study uses single-cell and spatial transcriptomics to identify structural cell circuits in BOS lungs and their spatial organization during airway obliteration.

The paper performs a federated cis-eQTL meta-analysis across single-cell datasets to identify cell-type-specific genetic effects and link them to disease mechanisms.

This study shows that HIV persistence accelerates immune aging in treated individuals, while certain antiretroviral drugs reduce it.

This study uses spatial transcriptomics to identify hybrid pro-inflammatory and pro-fibrotic cellular niches in sarcoidosis granulomas, linking them to fibrosis and immune responses.

This study creates a spatial transcriptomics atlas of human tuberculosis and non-tuberculous mycobacterial granulomas, identifying distinct niches and immune signatures.

This study investigates how DNA methylation changes after BCG vaccination influence cytokine responses and identifies epigenetic pathways mediating genetic effects on immune responses.

CellDemux demultiplexes genetically labeled single-cell and single-nuclei libraries across modalities, achieving 88% donor assignment accuracy in benchmarking.

This study links gut microbiota dysbiosis and altered tryptophan metabolism to increased inflammation in severe COVID-19 patients.

The paper identifies three nasal DNA methylation CpG sites that predict childhood allergic disease with high accuracy, validated across Dutch and US Hispanic children.

This study identifies genetic variants influencing CCR5 expression on immune cells in HIV-positive and healthy individuals, showing cell-specific regulation and effects on inflammatory mediators.

This study explores the physiological significance of genetic variants associated with COVID-19 severity using clinical, immunological, and multi-omics data from large cohorts, identifying pathways for prevention and therapy.

This study examines how immune-related traits evolved in ancient and modern European populations, finding that the Neolithic transition influenced cytokine production and disease susceptibility.

This study identifies DNA methylation sites associated with coffee and tea consumption using EWAS, finding potential links to fatty liver disease through PHGDH expression.

The paper identifies TRAFD1 as a master regulator of IFNγ signalling in celiac disease by systematically prioritizing candidate genes in disease loci using multiple computational methods.

This paper introduces MR-link, a Mendelian randomization method that identifies causal relationships between gene expression and LDL-C levels, finding 19 causally linked genes including PVRL2.

The paper introduces Decon2, a method to deconvolute bulk blood eQTL effects into immune cell subpopulations, showing high concordance with experimental and single-cell studies.

The paper introduces a method for cell-specific eQTL analysis without cell sorting, showing that Crohn's disease-associated SNPs mainly affect neutrophil gene expression in whole blood data.