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Table 1 Validation of prediction method on experimentally verified miRNA targets

From: MicroRNA targets in Drosophila

MiRNA Organism Target gene (3' UTR) Number of experimental sites Number of predicted sites Rank Number of predicted sites with conservation Matches experimental to predicted Matches experimental to predicted (%)
lin-4 cel/cbr lin-14 (Abnormal cell-lineage protein 14) 7 1   0 0 0%
lin-4 cel/cbr lin-28 1 1 4/1,014 1 1 100%
lin-4 cel/cbr lin-41a lin41b 1 1 5/1,014 N/A 1 100%
let-7 cel/cbr lin-14 (Abnormal cell-lineage protein 14) 2 6 9/1,014 2 2 100%
let-7 cel/cbr lin-28 1 1 12/1,014 1 1 100%
let-7 cel/cbr lin-41a lin41b 2 6 2/1,014 N/A 2 100%
let-7 cel/cbr daf-12 3 10 7/1,014 1 1 33%
let-7 cel/cbr hbl-1 (hunchback-related protein) 8 14 1/1,014 8 5 63%
bantam dme/dps hid (Head involution defective (wrinkled)) 2 2 1/11,318 2 2 100%
miR-13 dme/dps CG10222 1 1 4/11,318 1 1 100%
  1. Using intermediate thresholds (S: 80; ΔG: -14 kcal/mol), for each known miRNA and target gene pair (in either C. elegans or D. melanogaster), we list the number of known experimental target sites, the number of sites detected here, both raw and conserved in C. briggsae or D. pseudoobscura; and, the number and percentage of known sites that correspond to computationally detected conserved sites, with larger values indicating more successful (retrospective) prediction († and 'N/A' indicate that no 3' UTR was available to scan against in C. briggsae, hence no conservation analysis was possible, results assume conservation). cel/cbr: C. elegans/C. briggsae; dme/dps: D. melanogaster/D. pseudoobscura.