Transcriptome of cytoplasmic and nuclear small RNAs in innate immune cells

We isolated RNAs from cytoplasmic or nuclear fraction of dendritic cells, and subject these RNAs for high throughput sequencing. After mapped to mouse genome, sequencing reads (18-30nt) were calculated as the log2 ratio using the normalized TPM (transcripts per million reads) value to determine the expression difference of each sRNA from nuclear and cytoplasmic fractions. We then picked up the superior nucleus-localized sRNAs according to the criteria that abundance of each sRNA was over 20 and x>10y (x: abundance of sRNA from nuclear fraction; y: abundance of sRNAs from cytoplasm fraction). Overall design: Identifying nuclear-enriched small RNAs in innate immune cells.