Table 2. Summary of KSHV mature microrna expression differences associated with specific conserved single-nucleotide polymorphisms.
| SNP within | Nucleotide position (change) | Effect on | Regulation | Fold change | p-value# |
|---|---|---|---|---|---|
| K12-3 | 121617 | K12-5-5p | up | 69 | 6.64*10-03 |
| K12-6-3p | down | -51 | 5.98*10-03 | ||
| (A to G) | K12-8-3p | down | -80 | 7.02*10-04 | |
| K12-9-5p | down | -1584 | 4.96*10-05 | ||
| K12-10-3p (a) | down | -27 | 1.36*10-02 | ||
| K12-10-3p (b) | down | -10 | 1.25*10-02 | ||
| K12-12-5p | down | -41 | 7.31*10-03 | ||
| K12-4-5p | 121449 (C to T) | K12-9-5p | down | -10164 | 6.98*10-06 |
| K12-5-3p | 121315 (A to G) | K12-5-5p | up | 121 | 2.48*10-02 |
| K12-9-5p | down | -594 | 2.48*10-02 | ||
| K12-7-3p | 120386 (C to A) | K12-9-5p | down | -24354 | 6.33*10-07 |
| K12-9-5p | 119361 (C to A) | K12-8-3p | down | -73 | 1.27*10-02 |
| K12-9-5p | down | -21218 | 3.13*10-07 |
The nucleotide positions reference the BCBL-1 cell line (GenBank accession number AY973824.1). Many SNPs appear to influence the mature expression of not only the specific microRNA where it is located, but also the surrounding microRNAs. The small RNA assays for K12-10-3p (a) and (b) used a primer that only differed by one nucleotide and therefore cross-reactivity cannot be ruled out. # Benjamini-Hochberg corrected.