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 whole transcriptome analysis (WTA) Single Cell or Spatial Gene Expression libraries. When preparing WTA libraries, poly(dT) oligos are used to capture polyadenylated RNA transcripts. 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 WTA library. Any transcripts that are not represented in the WTA library will also not be detected in a targeted library.
Certain long non-coding RNAs (lncRNAs) are polyadenylated and therefore may be present in WTA 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 WTA libraries.
Products: Targeted Gene Expression assay.