Yuansheng Zhou

3D reconstruction of spatial transcriptomics with spatial pattern enhanced graph convolutional neural network

This paper introduces Spa3D, a method that reconstructs 3D spatial structures from 2D spatial transcriptomics data, improving spatial domain identification, cell-cell communication analysis, and developmental trajectory modeling.

Low-dimensional olfactory signatures of fruit ripening and fermentation

The paper identifies a low-dimensional hyperbolic map of fruit odor mixtures across ripening and fermentation stages, revealing spiral trajectories influenced by microbial processes.

Hyperbolic geometry of gene expression

This paper shows that gene expression data can be better understood using hyperbolic geometry instead of Euclidean geometry, improving visualization and analysis.

Using global t-SNE to preserve inter-cluster data structure

This paper introduces global t-SNE (g-SNE), a modified t-SNE method that preserves global inter-cluster structure during dimensionality reduction, and shows it outperforms standard t-SNE on synthetic and real datasets.