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Activity Number: 442 - Methods for Single-Cell and Microbiome Sequencing Data
Type: Topic Contributed
Date/Time: Thursday, August 6, 2020 : 10:00 AM to 11:50 AM
Sponsor: Biometrics Section
Abstract #312586
Title: Integrative Differential Expression and Gene Set Enrichment Analysis Using Summary Statistics for Single Cell RNAseq Studies
Author(s): Ying Ma* and Xiang Zhou and Shiquan Sun
Companies: University of Michigan and University of Michigan and University of Michigan
Keywords: Differential expression analysis; gene set enrichment analysis; scRNA-seq

Differential expression (DE) analysis and gene set enrichment (GSE) analysis are commonly applied in single cell RNA sequencing (scRNA-seq) studies. Here, we develop an integrative and scalable computational method, iDEA, to perform joint DE and GSE analysis through a hierarchical Bayesian framework. By integrating DE and GSE analyses, iDEA can improve the power and consistency of DE analysis and the accuracy of GSE analysis. Importantly, iDEA uses only DE summary statistics as input, enabling effective data modeling through complementing and pairing with various existing DE methods. We illustrate the benefits of iDEA with extensive simulations. We also apply iDEA to analyze three scRNA-seq data sets, where iDEA achieves up to five-fold power gain over existing GSE methods and up to 64% power gain over existing DE methods. The power gain brought by iDEA allows us to identify many pathways that would not be identified by existing approaches in these data.

Authors who are presenting talks have a * after their name.

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