Shrey Parikh

The paper introduces scAtlasTb, a framework for building and optimizing single-cell reference atlases, demonstrating its application on three Human Cell Atlas projects.

The paper constructs a healthy human pancreas reference atlas to contextualize disease states and benchmark models.

This paper generates cross-species single-cell atlases of pancreatic cancer to study progression, therapy response, and immune evasion across human and mouse models.

moscot unifies optimal transport for temporal, spatial and spatiotemporal single-cell mapping, using multimodal cost spaces and low-rank solvers to scale to 1.7 million mouse embryo cells.

This paper creates a human endoderm organoid cell atlas by integrating single-cell transcriptomes from multiple organoid types to compare cell states with primary tissues and disease models.