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A Quantum Generative Framework for Modeling Single-Cell Transcriptomes with Gene-Gene and Cell-Cell Interactions
Selim Romero, Vignesh Kumar, Robert S. Chapkin, James J. Cai
https://arxiv.org/abs/2510.12776

A Quantum Generative Framework for Modeling Single-Cell Transcriptomes with Gene-Gene and Cell-Cell Interactions
Single-cell RNA sequencing (scRNA-seq) data simulation is limited by classical methods that rely on linear correlations, failing to capture the intrinsic, nonlinear dependencies and the simultaneous gene-gene and cell-cell interactions. We introduce qSimCells, a novel hybrid quantum-classical simulator that leverages quantum entanglement to model single-cell transcriptomes. The core innovation is a quantum kernel that uses a parameterized quantum circuit with CNOT gates to encode complex, nonli…