Computational workflow for investigating highly variable genes in single-cell RNA-seq across multiple time points and cell types

Abstract

Summary: Here, we present a computational approach for investigating highly variable genes (HVGs) associated with biological pathways of interest, across multiple time points and cell types in single-cell RNA-sequencing (scRNA-seq) data. Using public dengue virus and COVID-19 datasets, we describe steps for using the framework to characterize the dynamic expression levels of HVGs related to common and cell-type-specific biological pathways over multiple immune cell types.For complete details on the use and execution of this protocol, please refer to Arora et al.1 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics.

Keywords

• Bioinformatics
• Single Cell
• RNAseq
• Immunology
• Gene Expression
• Systems Biology