CITE-seq (cellular indexing of transcriptomes and epitopes) is an RNA sequencing-based method that simultaneously quantifies cell surface protein and transcriptomic data within a single cell readout. The ability to study cells concurrently offers unprecedented insights into new cell types, disease states or other conditions. While CITE-seq solves the problem of detecting a limited number of proteins while using single-cell sequencing in an unbiased way, one of its limitations is the high levels of background noise that can hinder analysis.
