FEM: mining biological meaning from cell level in single-cell RNA sequencing data.

ABSTRACT:

Background

One goal of expression data analysis is to discover the biological significance or function of genes that are differentially expressed. Gene Set Enrichment (GSE) analysis is one of the main tools for function mining that has been widely used. However, every gene expressed in a cell is valuable information for GSE for single-cell RNA sequencing (scRNA-SEQ) data and not should be discarded.

Methods

We developed the functional expression matrix (FEM) algorithm to utilize the information from all expressed genes. The algorithm converts the gene expression matrix (GEM) into a FEM. The FEM algorithm can provide insight on the biological significance of a single cell. It can also integrate with GEM for downstream analysis.

Results

We found that FEM performed well

SUBMITTER: Liu Y 

PROVIDER: S-EPMC8641482 | biostudies-literature | 2021

REPOSITORIES: biostudies-literature