Question: Can non-coding RNAs be detected in the Targeted Gene Expression assay?
Answer: The Targeted Gene Expression assay is used to enrich for specific genes present in Single Cell Gene Expression (scGEX) libraries. When preparing scGEX libraries, poly(dT) oligos are used to capture polyadenylated RNA transcripts from single cells. If a transcript is not polyadenylated, it will likely not be captured by the poly(dT) oligos and therefore will not be represented in the scGEX library. Any transcripts that are not represented in the scGEX library will also not be detected in a targeted library.
Certain long non-coding RNAs (lncRNAs) are polyadenylated and therefore may be present in scGEX libraries. The 10x Genomics Custom Panel Designer can be used to design baits for annotated human long non-coding RNAs, as long as they meet our bait design criteria.
Other types of non-coding RNAs, such as microRNAs (miRNAs), are typically not polyadenylated and are unlikely to be represented in scGEX libraries.
Products: Targeted Gene Expression assay.