4 papers
RAFT-UP: Robust Alignment for Spatial Transcriptomics with Explicit Control of Spatial Distortion
Yaqi Wu, Jingfeng Wang, Xin Maizie Zhou +2
Spatial transcriptomics (ST) profiles gene expression across a tissue section while preserving the spatial coordinates. Because current ST technologies typically profile two-dimens…
Synchronization of Unbalanced Dynamical Optimal Transport across Multiple Spaces
Zixuan Cang, Jingfeng Wang, Xiaoqi Wei +1
Many biological systems are observed through heterogeneous modalities, requiring transport models that couple dynamics across spaces while allowing mass variation. To address this…
PHD-MS: Multiscale Domain Identification for Spatial Transcriptomics via Persistent Homology
Perry Beamer, Zixuan Cang
Spatial transcriptomics (ST) measures gene expression at a set of spatial locations in a tissue. Communities of nearby cells that express similar genes form \textit{spatial domains…
OTMol: Robust Molecular Structure Comparison via Optimal Transport
Xiaoqi Wei, Xuhang Dai, Yaqi Wu +3
Root-mean-square deviation (RMSD) is widely used to assess structural similarity in systems ranging from flexible ligand conformers to complex molecular cluster configurations. Des…