Single-cell mapper (scMappR): using scRNA-seq to infer the cell-type specificities of differentially expressed genes.

ABSTRACT: RNA sequencing (RNA-seq) is widely used to identify differentially expressed genes (DEGs) and reveal biological mechanisms underlying complex biological processes. RNA-seq is often performed on heterogeneous samples and the resulting DEGs do not necessarily indicate the cell-types where the differential expression occurred. While single-cell RNA-seq (scRNA-seq) methods solve this problem, technical and cost constraints currently limit its widespread use. Here we present single cell Mapper (scMappR), a method that assigns cell-type specificity scores to DEGs obtained from bulk RNA-seq by leveraging cell-type expression data generated by scRNA-seq and existing deconvolution methods. After evaluating scMappR with simulated RNA-seq data and benchmarking scMappR using RNA-seq data obtained from

SUBMITTER: Sokolowski DJ 

PROVIDER: S-EPMC7902236 | biostudies-literature | 2021 Mar

REPOSITORIES: biostudies-literature