ScTIE: data integration and inference of gene regulation using single-cell temporal multimodal data.

ABSTRACT: Single-cell technologies offer unprecedented opportunities to dissect gene regulatory mechanisms in context-specific ways. Although there are computational methods for extracting gene regulatory relationships from scRNA-seq and scATAC-seq data, the data integration problem, essential for accurate cell type identification, has been mostly treated as a standalone challenge. Here we present scTIE, a unified method that integrates temporal multimodal data and infers regulatory relationships predictive of cellular state changes. scTIE uses an autoencoder to embed cells from all time points into a common space using iterative optimal transport, followed by extracting interpretable information to predict cell trajectories. Using a variety of synthetic and real temporal multimodal datasets, we dem

SUBMITTER: Lin Y 

PROVIDER: S-EPMC10245711 | biostudies-literature | 2023 May

REPOSITORIES: biostudies-literature