Skip to main content

Table 2 List of the most significantly deregulated miRNAs in MPNSTs relative to plexiform neurofibromas

From: MicroRNAome profiling in benign and malignant neurofibromatosis type 1-associated nerve sheath tumors: evidences of PTEN pathway alterations in early NF1 tumorigenesis

miRNAs Functionally verified target(s) Localization Host gene Plexiform neurofibromas (n = 41) MPNSTs (n = 15) Fold changea P b Peripheral nerves (n = 2)c
Significantly down-regulated miRNAs in MPNSTs relative to plexiform neurofibromas (n = 10)
miR-139-5p   11q13.4 PDE2A 368.8 [5.6-1523.2]d 71.8 [27.6-247.8] 0.19 < 0.00001 253.1 [149.9-356.3]
miR-150   19q13.3   1910.1 [4.4-6800.1] 529.6 [105.6-3531.6] 0.28 < 0.0001 1573.4 [1428.9-1717.9]
miR-338-3p   17q25.3 AATK 10.7 [0.03-115.4] 2.3 [0.02-29.8] 0.21 < 0.001 125.6 [88.7-162.5]
miR-195 CCND1, CDK6, E2F3[16]CCNE1[17] and RAF1[18] 17p13.1   1689.4 [0.03-9958.6] 503.8 [166.6-2233.1] 0.30 < 0.001 689.6 [633.5-745.7]
miR-146a   5q34   3117.1 [85.4-49237.4] 1252.7 [186.9-65865.7] 0.40 < 0.001 3705.8 [2932.0-4479.5]
miR-95   4p16.1 ABLIM2 44.5 [0.02-175.7] 26.6 [3.6-56.2] 0.60 0.001 12.7 [7.5-18.0]
let-7b RAS[19], CCND1[20] and HMGA2[21] 22q13.3   1642.3 [15.8-12746.3] 543.6 [63.9-1531.6] 0.33 0.003 2777.1 [1011.0-4543.1]
miR-186   1p13.1 ZRANB2 2030.1 [1.6-3193.4] 1240.9 [727.8-7687.8] 0.61 0.003 2303.1 [1717.4-2889.2]
miR-885-5p   3p25.3 ATP2B2 52.4 [0.51-393.3] 20.6 [2.4-62.4] 0.39 0.006 67.2 [46.5-87.9]
miR-200c ZEB1[22]and ZEB2 12p13.3   8.4 [0.51-861.1] 4.8 [0.01-22.4] 0.57 0.008 8.1 [6.1-10.0]
Most significantly upregulated miRNAs in MPNSTs relative to plexiform neurofibromas (n = 28)
miR-135b APC[23] 1q32.1   0.41 [0.02-12.0] 1060.9 [4.2-3562.1] 2616.7 < 10-6 3.4 [0.57-6.3]
miR-449a CCND1 and HDAC1[24] 5q11.2 CDC20B 0.45 [0.00-11.4] 14.4 [0.28-25.9] 32.30 < 10-6 4.0 [3.4-4.6]
miR-210 HOXA1, HOXA9, HOXA3, and E2F3[25] 11p15.5   9.8 [0.05-254.1] 236.0 [3.2-458.5] 24.00 < 10-6 69.2 [19.0-119.4]
miR-301b PTEN[26] 22q11.2   0.81 [0.02-8.2] 17.3 [1.9-121.6] 21.19 < 10-6 0.20 [0.03-0.37]
miR-301a   17q22 SKA2 8.7 [0.02-87.8] 173.7 [23.0-592.2] 20.04 < 10-6 3.7 [3.3-4.0]
miR-9 CDH1[27] and CDX2[28] 1q22, 5q14.3 and 15q26.1   52.9 [0.03-472.9] 787.6 [2.9-1265.6] 14.90 < 10-6 411.7 [400.8-422.5]
miR-130b   22q11.2   8.3 [0.02-53.5] 66.2 [23.3-442.7] 7.96 < 10-6 7.0 [5.5-8.6]
miR-454   17q22 SKA2 257.3 [0.05-631.7] 1259.4 [494.9-2684.4] 4.90 < 10-6 508.4 [481.2-535.7]
miR-19a PTEN[29] and CCND1[30] 13q31.3   201.3 [0.04-764.3] 749.1 [429.9-2078.0] 3.72 < 10-6 146.9 [141.3-152.5]
miR-106b PTEN, CCND1, and E2F1[31, 32] 7q22.1 MCM7 126.5 [0.05-483.2] 439.2 [233.9-1795.6] 3.47 < 10-6 81.9 [80.1-83.8]
miR-135a APC[23] 12q23.1 and 3p21.1 GLYCTK (3p21.1) 0.05 [0.01-4.4] 25.7 [0.01-158.3] 537.54 < 0.00001 65.8 [0.02-131.5]
miR-137   1p21.3   0.08 [0.01-40.2] 21.4 [0.07-82.0] 258.68 < 0.00001 17.6 [3.1-32.1]
miR-31   9p21.3   6.4 [0.02-2747.4] 1581.9 [0.02-8261.8] 246.61 < 0.00001 83.0 [13.7-152.4]
miR-129-3p CDK6 7q32.1 and 11p11.2   0.04 [0.00-2.5] 3.8 [0.01-1409.7] 92.36 < 0.00001 0.94 [0.48-1.4]
miR-224   Xq28 GABRE 7.0 [0.04-135.0] 120.2 [8.0-748.0] 17.26 < 0.00001 14.7 [9.6-19.9]
miR-10b NF1, HOXA3 and HOXD10[33, 34] 2q31.1   49.1 [0.02-832.3] 649.6 [12.4-1640.1] 14.19 < 0.00001 64.8 [11.7-117.9]
miR-148a   7p15.2   50.2 [0.04-450.0] 413.6 [3.8-793.2] 8.24 < 0.00001 8.5 [5.2-11.9]
miR-18a   13q31.3   3.0 [0.02-38.4] 21.2 [6.4-104.6] 7.02 < 0.00001 5.9 [1.4-10.4]
miR-452   Xq28 GABRE 9.9 [0.18-82.0] 58.6 [14.6-260.7] 5.93 < 0.00001 19.5 [19.1-19.9]
miR-598   8p23.1 XKR6 15.8 [0.04-105.7] 93.3 [5.0-524.7] 5.91 < 0.00001 29.9 [29.0-30.8]
miR-196b HOXB8[34] 7p15.2   29.7 [0.54-526.4] 165.2 [12.5-788.5] 5.56 < 0.00001 124.9 [70.5-179.3]
miR-425   3p21.3 DALRD3 16.3 [0.11-116.5] 84.4 [38.3-105.1] 5.18 < 0.00001 19.2 [11.5-27.0]
miR-10a HOXD10[35] 17q21.3 HOXB3 53.1 [0.04-498.1] 230.1 [67.6-400.7] 4.33 < 0.00001 21.3 [14.2-28.3]
miR-93   7q22.1 MCM7 149.2 [0.04-860.2] 607.8 [303.6-2824.3] 4.07 < 0.00001 142.8 [114.4-171.2]
miR-20a CCND1 and E2F1[31] 13q31.3   295.6 [0.02-1269.4] 1064.2 [196.3-3498.9] 3.60 < 0.00001 531.2 [390.0-672.5]
miR-19b   13q31.3 and Xq26.2   1757.9 [0.99-5939.3] 4761.9 [2678.3-11811.4] 2.71 < 0.00001 3039.0 [2435.6-3642.5]
miR-484   Xq26.2   1354.6 [70.2-4301.5] 3537.7 [1213.0-8554.1] 2.61 < 0.00001 1047.4 [438.8-1656.1]
miR-192   11q13.1   38.8 [0.02-95.4] 94.3 [39.7-236.6] 2.43 < 0.00001 27.4 [18.7-36.1]
  1. aMedian expression in MPNSTs/Median expression in plexiform neurofibromas.
  2. bMann- Whitney’s U Test.
  3. cNon tumorigenic controls.
  4. dMedian [range] of miRNAs levels.