Sean M. Gross

This study identifies HIF1A as a key mediator of OSM-induced collective epithelial migration, linking cytokine signaling to metabolic and immune pathways in breast cancer.

The paper develops MMIST, a computational approach linking live-cell morphodynamics to gene expression changes during cell state transitions.

This study investigates how combinations of EGF, OSM, and TGFB cytokines synergistically drive cell motility through CXCR2 chemotaxis and CREB activation in MCF10A cells.

This study shows paclitaxel response in TNBC mimics interferon response, revealing ELF3 as a biomarker for resistance.

The paper presents a LINCS Microenvironment perturbation dataset cataloging transcriptional, proteomic, epigenomic, and phenotypic responses of MCF10A cells to six ligands, enabling integrative analysis of molecular and phenotypic changes.

MOBILE identifies context-specific molecular networks by integrating multi-omics data, revealing new regulatory mechanisms in immune and developmental pathways.

The paper develops an open-source, scalable mechanistic model for single-cell proliferation and death signaling, demonstrating its application to understand IFNγ's anti-proliferative effects.

This paper introduces a morphodynamical trajectory embedding method to analyze live-cell imaging data, revealing ligand-specific cell state transitions and improving trajectory modeling compared to snapshot-based analysis.

This paper introduces a lineage tree-based hidden Markov model to quantify cellular heterogeneity and plasticity using single-cell lineage data, showing it can classify distinct phenotypic states and drug responses in cancer and non-cancer cell populations.

The paper introduces ME-VAE, a multi-encoder VAE for single-cell image analysis that extracts transform-invariant biologically meaningful features, improving cell population separation and phenotypic differences.