Andrew L. Ji

BEACON improves demultiplexing accuracy in single-cell RNA sequencing by learning background counts, outperforming existing methods and enabling new biological insights.

This paper presents a single-cell atlas of skin aging and identifies ATF3 as a regulator of aging, leading to an mRNA-based treatment that reduces cell senescence and enhances skin rejuvenation.

The paper constructs a spatial transcriptomic atlas of human skin, identifying 45 cell types across 15 sites and revealing neighborhood disruptions in disease.

The paper identifies lncRNAs crucial for cSCC tumor growth using CRISPRi screens and single-cell sequencing.

The paper develops software to infer copy number and detect single nucleotide variants in spatial transcriptomics data, applied to skin cancer to reveal genetic patterns and clonal populations.

This study shows glucose acts as a morphogen that modulates transcription factor dimerization during tissue differentiation.

This paper introduces a method to combine histology and spatial gene expression data to infer high-resolution transcriptome maps without sequencing or hybridization.

The paper uses spatial transcriptomics to analyze copy number variations in benign and malignant tissues, revealing clonal patterns and suggesting early cancer evolution mechanisms.

Perturb-ATAC combines CRISPR perturbations with single-cell ATAC-seq to identify gene regulatory networks in human cells.