Sarah M. Shin

Deep Learning Enabled 3D Multi-Omic Analysis Reveals Molecular Signatures of Heterogeneous Response to Chemotherapy in Pancreatic Cancer

The paper develops a 3D multi-omic pipeline using deep learning to analyze chemotherapy response in pancreatic cancer, identifying molecular signatures of resistance and fibroblast-cancer interactions.

Modeling cellular influence delineates functionally relevant cellular neighborhoods in primary and metastatic pancreatic ductal adenocarcinoma.

The paper introduces FunCN, a method to analyze cellular neighborhoods in PDAC, revealing distinct immune interactions in primary and metastatic sites.

Cancer systems immunology reveals myeloid - T cell interactions and B cell activation mediate response to checkpoint inhibition in metastatic breast cancer

The paper investigates how myeloid-T cell interactions and B cell activation influence response to checkpoint inhibition in metastatic breast cancer using multi-omics and computational methods.

PIVOT: an open-source tool for multi-omic spatial data registration

PIVOT is an open-source tool for nonlinear registration of multi-omic spatial data, demonstrating improved throughput compared to existing workflows.

Cancer associated fibroblasts drive epithelial to mesenchymal transition and classical to basal change in pancreatic ductal adenocarcinoma cells with loss of IL-8 expression

The paper investigates how cancer-associated fibroblasts (CAF) influence tumor cell behavior in pancreatic ductal adenocarcinoma by driving EMT and altering cell subtypes, with IL-8 playing a key modulatory role.

Spatial multi-omics reveal intratumoral humoral immunity niches associated with tertiary lymphoid structures in pancreatic cancer immunotherapy pathologic responders

This study uses spatial multi-omics to identify TLS-associated immune niches in PDAC that correlate with improved survival in immunotherapy responders.

Mapping the breast tumor microenvironment: proximity analysis reveals spatial relationships between macrophage subtypes and metastasis-initiating cancer cells

The paper uses spatial analysis to show metastasis-initiating cancer cells in breast tumors are closely associated with specific macrophage subtypes, suggesting these interactions promote metastasis.

3D histology reveals that immune response to pancreatic precancers is heterogeneous and depends on global pancreas structure

The paper profiles the immune microenvironment of PanINs in 3D at single-cell resolution to understand inflammation's role in cancer progression and finds immune heterogeneity and correlations with PanIN grade.

High-motility pro-tumorigenic monocytes drive macrophage enrichment in the tumor microenvironment

This study identifies high-motility tumor-associated monocytes (TAMos) that drive macrophage infiltration and cancer cell proliferation via IL-6 and MAPK pathways, suggesting IL-6 as a therapeutic target.