Applied Analysis
Rigorous computational re-analyses and spatiotemporal dissections of published clinical and experimental datasets. Explore full interactive reports, spatial neighborhood graphs, and reproducible pipelines.
Systematic re-analysis of 128 publicly available spatial transcriptomics samples across five major platforms: GeoMx, Visium, Xenium, NanoString, and MERFISH. Mapping spatial cellular niches, microenvironmental boundaries, and cross-platform concordance.
Deep spatiotemporal multi-omics re-analysis of the GCAR1 trial integrating longitudinal scRNA-seq, single-cell TCR V(D)J repertoires, and sub-micron Visium HD spatial transcriptomics. Mapped CAR-T exhaustion trajectories, perivascular resistance barriers, and epitope spreading.
Characterized cellular heterogeneity and lineage transitions among clonally expanding vascular smooth muscle cells (VSMCs) in atherosclerotic lesions of ApoE-deficient mice using SMART-seq2 full-length single-cell sequencing.
Comprehensive bulk RNA-seq and functional enrichment analysis characterizing transcriptomic and secretomic rewiring after ATF3 knockdown in vascular smooth muscle cells, deciphering downstream metabolic and contractile phenotypes.
Single-cell RNA sequencing of photoconverted cerebrovascular endothelial cells in zebrafish. Identified distinct arterial, venous, and angiogenic endothelial subpopulations and evaluated hhex transcriptional dynamics.
HPC-scale scVI deep generative integration of single-cell transcriptomes from explanted and autopsy human organ tissue specimens, resolving cell-state changes during terminal tissue failure across independent donors.
Review an uncurated differential expression report excerpt, inspect sample variance and hidden batch confounding, and decide whether the biological claim is defensible before checking the expert walkthrough.
I partner with academic laboratories, clinical consortia, and biotechnology teams to perform custom atlas integration, spatial microenvironment mapping, and perturbation response analysis.