DeepCCI: a deep learning framework for identifying cell-cell interactions from single-cell RNA sequencing data.

ABSTRACT:

Motivation

Cell-cell interactions (CCIs) play critical roles in many biological processes such as cellular differentiation, tissue homeostasis, and immune response. With the rapid development of high throughput single-cell RNA sequencing (scRNA-seq) technologies, it is of high importance to identify CCIs from the ever-increasing scRNA-seq data. However, limited by the algorithmic constraints, current computational methods based on statistical strategies ignore some key latent information contained in scRNA-seq data with high sparsity and heterogeneity.

Results

Here, we developed a deep learning framework named DeepCCI to identify meaningful CCIs from scRNA-seq data. Applications of DeepCCI to a wide range of publicly available datasets from diverse technologies and platforms

SUBMITTER: Yang W 

PROVIDER: S-EPMC10558043 | biostudies-literature | 2023 Oct

REPOSITORIES: biostudies-literature