Re-analysis of Lim <i>et al</i> and Grimson <i>et al.</i> microarray data from miRNAs transfected in HeLa cells.

Gene Number: The number of genes down-regulated or up-regulated by miR-1, miR-124a, or miR-373, with p<0.05 at both 12 hr and 24 hr. D: down-regulation. U: up-regulation. Total Bases: The total number of bases from the 3′-UTR of the seed-containing mRNAs, which were either up- or down-regulated by miR-1, miR-124a, or miR-373. MRE (NL) and Bases/MRE(NL): MRE (NL) indicates the MREs scanned by FindTar version-1 with an MRE criteria of seed homologies and free energy <−15, but without a loop score. Bases/MRE(NL) = Total Bases/Total MRE (NL). MRE (L) and Bases/MRE (L): MRE (L) indicates MREs scanned by FindTar version-2 with an MRE criteria of seed homologies, free energy <−15, and loop score > = 20. Bases/MRE (L) = Total Bases/Total MRE (L). Ratio: Ratio = Bases per MREup/Bases per MREdown. Ratio (NL) = (5)U/(5)D; Ratio (L) = (6)U/(6)D. *: The ratio (NL) is significantly less than ratio (L) (p<0.05).