8 papers
BrainDyn: A Sheaf Neural ODE for Generative Brain Dynamics
Siddharth Viswanath, Panayiotis Ketonis, Chen Liu +3
Efficient neural network models that generate brain-like dynamic activity can be a valuable resource for generating synthetic data, analyzing differences in brain transients under…
scShapeBench: Discovering geometry from high dimensional scRNAseq data
Andrew J Steindl, João Felipe Rocha, Brian Tshilengi Di Bassinga +13
High-dimensional point cloud data arise across many scientific domains, especially single-cell biology. The shapes or topologies of these datasets determine the types of informatio…
MIOFlow 2.0: A unified framework for inferring cellular stochastic dynamics from single cell and spatial transcriptomics data
Xingzhi Sun, João Felipe Rocha, Brett Phelan +11
Understanding cellular trajectories via time-resolved single-cell transcriptomics is vital for studying development, regeneration, and disease. A key challenge is inferring continu…
Linearized Optimal Transport for Analysis of High-Dimensional Point-Cloud and Single-Cell Data
Tianxiang Wang, Yingtong Ke, Dhananjay Bhaskar +2
Single-cell technologies generate high-dimensional point clouds of cells, enabling detailed characterization of complex patient states and treatment responses. Yet each patient is…
STAGED: A Multi-Agent Neural Network for Learning Cellular Interaction Dynamics
Joao F. Rocha, Ke Xu, Xingzhi Sun +6
The advent of single-cell technology has significantly improved our understanding of cellular states and subpopulations in various tissues under normal and diseased conditions by e…
HiPoNet: A Multi-View Simplicial Complex Network for High Dimensional Point-Cloud and Single-Cell Data
Siddharth Viswanath, Hiren Madhu, Dhananjay Bhaskar +7
In this paper, we propose HiPoNet, an end-to-end differentiable neural network for regression, classification, and representation learning on high-dimensional point clouds. Our wor…