Abstract
We define and identify a new class of control genes for next-generation sequencing called total RNA expression genes (TREGs), which correlate with total RNA abundance in cell types of different sizes and transcriptional activity. We provide a data-driven method to identify TREGs from single-cell RNA sequencing data, allowing the estimation of total amount of RNA when restricted to quantifying a limited number of genes. We demonstrate our method in postmortem human brain using multiplex single-molecule fluorescent in situ hybridization and compare candidate TREGs against classic housekeeping genes. We identify AKT3 as a top TREG across five brain regions.
Original language | English (US) |
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Article number | 233 |
Journal | Genome Biology |
Volume | 24 |
Issue number | 1 |
DOIs | |
State | Published - Dec 2023 |
Externally published | Yes |
Keywords
- Bioconductor
- Deconvolution
- RNA abundance
- RNAscope
- TREG
- snRNA-seq
ASJC Scopus subject areas
- Ecology, Evolution, Behavior and Systematics
- Genetics
- Cell Biology