Regulatory analysis of single cell multiome gene expression and chromatin accessibility data with scREG
Posted on 2022-05-17 - 06:14
Abstract Technological development has enabled the profiling of gene expression and chromatin accessibility from the same cell. We develop scREG, a dimension reduction methodology, based on the concept of cis-regulatory potential, for single cell multiome data. This concept is further used for the construction of subpopulation-specific cis-regulatory networks. The capability of inferring useful regulatory network is demonstrated by the two-fold increment on network inference accuracy compared to the Pearson correlation-based method and the 27-fold enrichment of GWAS variants for inflammatory bowel disease in the cis-regulatory elements. The R package scREG provides comprehensive functions for single cell multiome data analysis.
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Duren, Zhana; Chang, Fengge; Naqing, Fnu; Xin, Jingxue; Liu, Qiao; Wong, Wing Hung (2022). Regulatory analysis of single cell multiome gene expression and chromatin accessibility data with scREG. figshare. Collection. https://doi.org/10.6084/m9.figshare.c.5999802.v1