I develop analytical frameworks that integrate spatial transcriptomics with histopathological imaging — enabling morphology-aware cell type discovery and tissue architecture mapping at subcellular resolution.
My work combines wet lab immunology expertise with advanced computational methods to bridge the gap between bench science and data-driven discovery.
Built at the intersection of science & code
My work sits at the intersection of wet lab immunology and computational biology — developing pipelines and tools that bridge high-dimensional spatial data with deep learning to uncover disease mechanisms.
10x Xenium in situ analysis, morphology-aware cell rescue, multi-sample integration with HEnium workflows and weighted nearest-neighbor graph methods.
H&E image analysis, nuclei segmentation with Cellpose/Hoptimus, morphological embedding for cell type annotation and tissue architecture mapping.
Mass spectrometry data analysis, cross-platform data integration, multi-omics factor analysis for systems-level disease characterization.
Convolutional neural networks for image classification, transfer learning for histopathology, foundation models for morphological embeddings.
Neutrophil biology, NETosis modelling, rheumatoid arthritis synovium analysis, immune cell phenotype discovery from single-cell data.
GWAS Catalog pipelines, human-to-mouse cross-species variant mapping, genomic coordinate liftOver and translational research support.
From bench to bioinformatics — wet lab techniques and computational methods working together.
Analysis of 10x Xenium, Visium, MERFISH spatial transcriptomics and single-cell RNA-seq with multi-modal integration.
H&E image analysis, morphological embeddings with foundation models, nuclei/cell segmentation, and tissue classification.
End-to-end RNA-seq pipelines from QC through quantification to differential expression, pathway enrichment, and visualization.
Cell culture, flow cytometry, immunohistochemistry, molecular cloning, and immunological assays for rheumatoid arthritis research.
Neural network architectures for biomedical image analysis, transfer learning, and predictive modeling from multi-modal data.
Reproducible analysis pipelines, containerized workflows, cloud computing, and version-controlled computational research.
Tools, games, and pipelines built at the intersection of science and code.
Morphology-assisted neutrophil rescue tutorial for 10x Xenium and H&E using HEnium workflows — bridging spatial transcriptomics with image-based morphology.
Low-poly 3D arcade game built with three.js — control an activated neutrophil inside an inflamed rheumatoid arthritis synovium.
GWAS Catalog human-to-mouse mm39 liftOver pipeline with compact reports and tests — enabling translational genomic research across species.
Interactive HTML report for RNA-seq analysis — part of the JDRF (Juvenile Diabetes Research Foundation) transcriptomics project.
Custom genome browser tracks for ATAC-seq chromatin accessibility data — visualizing open chromatin landscapes at scale.
Peer-reviewed research in immunology, bioinformatics, and computational biology.
Open to research collaborations, consulting, and speaking opportunities in spatial omics, computational pathology, and AI for biomedicine.
