miRTarBase - #MIRT136817


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pre-miRNA Information
pre-miRNA hsa-mir-548ac   
Genomic Coordinates chr1: 116560024 - 116560111
Description Homo sapiens miR-548ac stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-548ac
Sequence 53| CAAAAACCGGCAAUUACUUUUG |74
Evidence Experimental
Experiments Illumina
Editing Events in miRNAs
Modification Type Position on miR Chromosome DNA Strand Genomic Position (hg38) List of PMIDs Variant details
A-to-I 4 1 - 116560056 29233923 MiREDiBase
A-to-I 5 1 - 116560055 29233923 MiREDiBase
A-to-I 6 1 - 116560054 29233923 MiREDiBase
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1182074110 6 dbSNP
rs1392446444 6 dbSNP
rs1326234665 7 dbSNP
rs556579863 8 dbSNP
rs993390910 9 dbSNP
rs901450363 13 dbSNP
rs538553306 22 dbSNP
Putative Targets

Gene Information
Gene Symbol NHLRC3   
Synonyms -
Description NHL repeat containing 3
Transcript NM_001012754   
Other Transcripts NM_001017370   
Expression
Putative miRNA Targets on NHLRC3
3'UTR of NHLRC3
(miRNA target sites are highlighted)		 
>NHLRC3|NM_001012754|3'UTR
   1 TGTTTCTTTCCTGGGAATATTTCAAGTGGCAGTTCAGATTCTCAATTCACTAAGTGCTTAAAAATGATGTTCAAGCACAA
  81 GAATTTATTTTTCTAGTATAAAAGATCTAGTATCAGAAAGATTTGTTTTTGTATCATTAAGAATCTTATATTTTGTTGCC
 161 CTCTTGGGACTTAGTTTTATTTGTAAGTGCATAAGGATATTTTAATGAAAGGAAAGTAACTAAAAAATGGGGTTGGGAAG
 241 AGGGACTAAGGTGGTAACCTCATTATTTGCCCTGGTAGACTGATTCTCCCTGGGTAAAAAAAATGGGAATAAAAATGAGC
 321 TTGCATGATAATTTATTAAATTTCATGTGAAGAACTCCAGACCTCCAGATTGTGCAACTAACATAAAATGAGCTGCTTGA
 401 GAGATTGTAAATAAGATGAACTATTGATTAATTTGAGTACCCACAGAGTGCTGTGTCTTGACGACTTAAAAATGAAAAAG
 481 CAGGATTGCCTTTTGAGTAGCTTGCAGTCTAGTGGGGAGACAAGCAGGCAAACAGTCACAACACAGCAAAAGCGACCTTG
 561 GAGCATAGTGGGACTTTTGGAGTAGGAGTGCTGCATTTGACTGAGGGAATCATGGATACTTCGCAGGAGAAGTGAATTTG
 641 AGCTCAGACTTGAAAACTGAGGAGGAGCTTACCAAGGGACAAGGAGGAGAAAACAATAATTTCCAAGTAAAGAAGGTATA
 721 AAAAGTTAGAAGTGTACTGTAAACTTTGATAGGCTTTTAGGCCTTTTTTAAAGCCCAACTTGGCTTCTGTCCATTACCTA
 801 TAAGATATTTAATGTCAGTCAGCCTTTAAATGTAGGAATAAAATGGCTGGCATCTAAGCACTTTAGTAAAAGAGGTTTTT
 881 ACAAATAACTAAGGATTGTAGAGCTTCCTTCTCTTTTTTTTTCTTTTTCTTTCTTTTGTTTTACATGAACTCAACTTATT
 961 CCTAACATTTGTCTACCTCAAAGAAATTTCAAGATTATTTAGATAACATGGATATGTGCCAAATCCTTTGAGCTGTTAAG
1041 ATGATAATTTCCTGCTTTCCTCCTACATCTTCTCCTCCCACTCCCTCCTTTGGTGTGAATATTGGCTTCCCAATTAAGAC
1121 CTTTTTTTTTTTTTTTCCAGTTTGTTTTAGCTTATTATAGGTTTTGGAGGAACTTTGCCATTTTGTAATCTTTCAAATCA
1201 TTCTTCACCCTTCCTCACATCAGCTTCCTGCTTTTCCCAGTGTTTTACTGTAAATTGTGTAGCATATGACAAATCTTGAG
1281 CTGACTTTCCTCTTCACCTGTTATGGCTGGAGTATTTTCCAGACCTGAAGGGACTCACACTTGTTTTGATACTTGGATCA
1361 CATCTCCGTGAGGTTAGGAAGGTAAATCTACCAACAGGAAGCCCTGTACTCTGTATTCCAAGGCCATTGGTAAATGTGTT
1441 GGTGCCACTGATCGGACTGTATGACCTTAAACAAGTCACCTTAGTTTTCAGTGAAATGGGAATATCATTGTCTCCTCTTT
1521 CATGAATGCTGTGAGAATCAGATGTGCAACAGGTACAGACTTGCCCTTTGAAATCTATACCTCTGGATACATTAGAGGCA
1601 TTTTATTAACAAAGGCCCTTCTAAATGTGCTATTTATTTGACAATAACTATCAGATTTGCCTTAATTTTGTGTTTATAGC
1681 ATTTATCAAAACGTATCCTCATAGACTTTATGCAGATTAATATGGTCAATTGATTTGGATAAAAGAAAGTAATTTCAGGG
1761 TTTGTTTTTAAGCCAGGACAAGAAGTGCAAATGCCTCTTTGAAGCAATTTAGGCTAAACTGATTTTGAAATTTCAAAATG
1841 TTTTATTTTACTTTGTTTTATTAAGCCAGGACAAGAAGTGCAAATGCCTCTTTGAAGCAATTCAGGCTAGGTAAACCGAT
1921 TTTGCCATTTCAAAACGTTTTATTTTACTTTGTTTTATATCAGAGTCTTATAAAACCTGCTGCAAATATTTCTGAATGTC
2001 TTTGTAAAAGTGTTTGTTAGTGTACCTGTGATTATAGTACTTCACTTTTTTCCTTTGGATTAATTGGTTAAATGAATGAG
2081 AAATGTGTTATGTTTTTTACTAAAAAGTATAAATTAAAATTTTGGAAAGAAAAGGCAATATTATCTGGCTCCCCAATTAA
2161 AGTTTGATTTTATTGTCACAAAAAAAAAAAAAAAAA
Target sites Provided by authors   Predicted by miRanda    DRVs    SNPs    DRVs & SNPs
miRNA-target interactions
(Predicted by miRanda)
ID Duplex structure Position Score MFE
1 
miRNA  3' guuuUCAUUAACGGCCAAAAAc 5'
              |||||  |  ||||||| 
Target 5' ctttAGTAAAAG-AGGTTTTTa 3'
 861 - 881 153.00 -7.00
2 
miRNA  3' guUUUCAUUAACG-GCCAAAAAc 5'
            ||||||||| |  ||||| | 
Target 5' agAAAGTAATTTCAGGGTTTGTt 3'
 1744 - 1766 144.00 -10.80
3 
miRNA  3' guuUUCAUUAACGGCCAAAAac 5'
             |:||||   ||| ||||  
Target 5' gctAGGTAA--ACCGATTTTgc 3'
 1906 - 1925 111.00 -8.90
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30130376 7 COSMIC
COSN6624144 13 COSMIC
COSN30523976 38 COSMIC
COSN30487796 42 COSMIC
COSN26986489 59 COSMIC
COSN31495859 73 COSMIC
COSN31601738 76 COSMIC
COSN30120464 121 COSMIC
COSN31610252 199 COSMIC
COSN7401080 412 COSMIC
COSN32061253 682 COSMIC
COSN7401081 777 COSMIC
COSN1609085 780 COSMIC
COSN31960902 855 COSMIC
COSN24297057 923 COSMIC
COSN31595937 960 COSMIC
COSN31591508 967 COSMIC
COSN20210429 1046 COSMIC
COSN31518024 1053 COSMIC
COSN20110623 1137 COSMIC
COSN20110624 1137 COSMIC
COSN28709878 1428 COSMIC
COSN6228683 1446 COSMIC
COSN7401082 1478 COSMIC
COSN7401083 1507 COSMIC
COSN32141291 1542 COSMIC
COSN32057937 1559 COSMIC
COSN20092761 2067 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1318572248 12 dbSNP
rs772746364 12 dbSNP
rs9532318 13 dbSNP
rs201037532 14 dbSNP
rs540296742 18 dbSNP
rs576865180 22 dbSNP
rs751060001 24 dbSNP
rs1478541110 26 dbSNP
rs756996258 29 dbSNP
rs372614878 30 dbSNP
rs1193434684 36 dbSNP
rs745487060 42 dbSNP
rs906381031 43 dbSNP
rs377293280 44 dbSNP
rs779701256 46 dbSNP
rs749314984 48 dbSNP
rs763339228 51 dbSNP
rs2274383 52 dbSNP
rs1033603321 70 dbSNP
rs1311959554 72 dbSNP
rs1034197441 78 dbSNP
rs1220659744 81 dbSNP
rs895554417 82 dbSNP
rs1277667782 83 dbSNP
rs1380559333 84 dbSNP
rs532618312 108 dbSNP
rs957930846 110 dbSNP
rs1304505234 119 dbSNP
rs1466421405 123 dbSNP
rs1358332980 124 dbSNP
rs1173877169 137 dbSNP
rs1466884103 147 dbSNP
rs1411621399 149 dbSNP
rs1291465450 161 dbSNP
rs1426163607 175 dbSNP
rs990203768 181 dbSNP
rs1354882405 188 dbSNP
rs1022025420 189 dbSNP
rs1182945708 192 dbSNP
rs1014444815 203 dbSNP
rs1241659889 215 dbSNP
rs1200856954 216 dbSNP
rs545912527 221 dbSNP
rs1019947291 222 dbSNP
rs1257586866 222 dbSNP
rs1234045390 223 dbSNP
rs967483150 247 dbSNP
rs978459904 251 dbSNP
rs1381890843 264 dbSNP
rs1305995088 291 dbSNP
rs1448635419 296 dbSNP
rs1033641707 297 dbSNP
rs953650402 301 dbSNP
rs755608016 304 dbSNP
rs1204179830 305 dbSNP
rs1252287747 316 dbSNP
rs967515432 318 dbSNP
rs1460085272 319 dbSNP
rs1369661362 325 dbSNP
rs977925040 327 dbSNP
rs1209327226 342 dbSNP
rs1257479720 343 dbSNP
rs754352473 351 dbSNP
rs1423764775 366 dbSNP
rs1180900886 368 dbSNP
rs1188118347 376 dbSNP
rs1237878567 381 dbSNP
rs1194270255 383 dbSNP
rs1489536232 383 dbSNP
rs1266135619 384 dbSNP
rs9576710 389 dbSNP
rs565027174 393 dbSNP
rs1169437264 404 dbSNP
rs944788315 411 dbSNP
rs1377357107 412 dbSNP
rs972590895 421 dbSNP
rs1327815130 425 dbSNP
rs1389297973 430 dbSNP
rs919356259 445 dbSNP
rs1293635647 447 dbSNP
rs1423378833 451 dbSNP
rs752061788 454 dbSNP
rs75207304 458 dbSNP
rs1160955662 460 dbSNP
rs921552657 463 dbSNP
rs757815807 464 dbSNP
rs1310966220 469 dbSNP
rs931554886 479 dbSNP
rs1435164389 496 dbSNP
rs143290715 498 dbSNP
rs567493876 507 dbSNP
rs567080935 511 dbSNP
rs1489876606 522 dbSNP
rs1415410445 526 dbSNP
rs939677650 527 dbSNP
rs1046181471 536 dbSNP
rs888335105 537 dbSNP
rs183568802 554 dbSNP
rs73169477 555 dbSNP
rs1332465486 560 dbSNP
rs1344718263 566 dbSNP
rs1033508108 567 dbSNP
rs893744550 583 dbSNP
rs186760962 597 dbSNP
rs1020839290 608 dbSNP
rs757845518 620 dbSNP
rs967803478 624 dbSNP
rs1300646675 625 dbSNP
rs977355753 633 dbSNP
rs375335487 634 dbSNP
rs1384824721 641 dbSNP
rs1013998093 646 dbSNP
rs1467850998 651 dbSNP
rs1019667016 658 dbSNP
rs558232286 664 dbSNP
rs1378486053 665 dbSNP
rs1020421477 678 dbSNP
rs1198962777 679 dbSNP
rs569392016 682 dbSNP
rs965426401 694 dbSNP
rs1194413431 695 dbSNP
rs1000248347 705 dbSNP
rs1283386360 706 dbSNP
rs1203174684 707 dbSNP
rs1220131023 717 dbSNP
rs1346839959 719 dbSNP
rs975592353 722 dbSNP
rs921415935 723 dbSNP
rs931611700 727 dbSNP
rs1279580129 739 dbSNP
rs984796496 741 dbSNP
rs1032654328 748 dbSNP
rs370077667 749 dbSNP
rs939689796 762 dbSNP
rs1176039463 763 dbSNP
rs1468451008 780 dbSNP
rs538096581 782 dbSNP
rs1019060499 783 dbSNP
rs1171477868 790 dbSNP
rs1241500242 793 dbSNP
rs1190927230 794 dbSNP
rs966146534 797 dbSNP
rs1451097846 802 dbSNP
rs972259404 812 dbSNP
rs1256625667 814 dbSNP
rs1202758735 818 dbSNP
rs777424109 822 dbSNP
rs1218773911 823 dbSNP
rs746624975 824 dbSNP
rs151263266 825 dbSNP
rs770670916 832 dbSNP
rs1054992176 844 dbSNP
rs985183242 845 dbSNP
rs1341540426 848 dbSNP
rs1336520013 861 dbSNP
rs1450823779 862 dbSNP
rs926639352 865 dbSNP
rs1332276294 867 dbSNP
rs1336194122 868 dbSNP
rs1343484440 874 dbSNP
rs1165029908 876 dbSNP
rs937233980 885 dbSNP
rs1385719531 890 dbSNP
rs1430153445 897 dbSNP
rs893642496 901 dbSNP
rs1239695270 912 dbSNP
rs917172455 913 dbSNP
rs1041562868 914 dbSNP
rs1270299575 914 dbSNP
rs949887740 914 dbSNP
rs1314888285 920 dbSNP
rs902905990 920 dbSNP
rs1303138421 924 dbSNP
rs1349183393 926 dbSNP
rs1221458661 930 dbSNP
rs1282831742 934 dbSNP
rs1310312236 934 dbSNP
rs999969796 934 dbSNP
rs1054044514 939 dbSNP
rs1010717656 940 dbSNP
rs1042701732 946 dbSNP
rs902397027 955 dbSNP
rs539075550 957 dbSNP
rs35462854 961 dbSNP
rs1162847996 962 dbSNP
rs1248193822 965 dbSNP
rs1381915847 970 dbSNP
rs1007185315 973 dbSNP
rs540937479 977 dbSNP
rs1469335853 980 dbSNP
rs1230751395 982 dbSNP
rs554181202 986 dbSNP
rs1191468572 994 dbSNP
rs781429655 1000 dbSNP
rs1490365628 1012 dbSNP
rs879770100 1015 dbSNP
rs17059064 1030 dbSNP
rs1220861157 1034 dbSNP
rs1356349717 1036 dbSNP
rs1454585865 1037 dbSNP
rs546280615 1041 dbSNP
rs780261916 1042 dbSNP
rs1174216042 1045 dbSNP
rs966333744 1047 dbSNP
rs1371478648 1052 dbSNP
rs191471106 1056 dbSNP
rs1405785505 1063 dbSNP
rs1437364463 1064 dbSNP
rs1344930887 1066 dbSNP
rs1302526844 1068 dbSNP
rs754288303 1068 dbSNP
rs994049291 1070 dbSNP
rs1026507459 1072 dbSNP
rs1019570542 1074 dbSNP
rs984906915 1076 dbSNP
rs965457672 1084 dbSNP
rs996874873 1085 dbSNP
rs1267526047 1088 dbSNP
rs1196603851 1103 dbSNP
rs1325594772 1104 dbSNP
rs959320441 1110 dbSNP
rs1372156145 1120 dbSNP
rs11384181 1122 dbSNP
rs1491019531 1122 dbSNP
rs200635456 1122 dbSNP
rs572582129 1122 dbSNP
rs879037644 1122 dbSNP
rs370624700 1137 dbSNP
rs79133621 1137 dbSNP
rs1439103762 1138 dbSNP
rs1278293860 1140 dbSNP
rs913803224 1145 dbSNP
rs1429844908 1146 dbSNP
rs1222635666 1150 dbSNP
rs1177849653 1152 dbSNP
rs945271628 1155 dbSNP
rs1330708618 1158 dbSNP
rs1211410376 1159 dbSNP
rs1272196662 1160 dbSNP
rs1451962951 1162 dbSNP
rs781015786 1168 dbSNP
rs530731960 1174 dbSNP
rs952994483 1180 dbSNP
rs917141180 1195 dbSNP
rs950014522 1198 dbSNP
rs1263133865 1200 dbSNP
rs1186414402 1204 dbSNP
rs1182940728 1205 dbSNP
rs1041921392 1218 dbSNP
rs745847326 1220 dbSNP
rs984271180 1227 dbSNP
rs1239605637 1241 dbSNP
rs1204664654 1258 dbSNP
rs1459989807 1259 dbSNP
rs908820977 1260 dbSNP
rs935748893 1265 dbSNP
rs1220607113 1268 dbSNP
rs1395583565 1269 dbSNP
rs1308144222 1270 dbSNP
rs1296250995 1273 dbSNP
rs1407427176 1277 dbSNP
rs1359713918 1290 dbSNP
rs544101499 1291 dbSNP
rs1327269317 1295 dbSNP
rs1354419700 1297 dbSNP
rs961647662 1300 dbSNP
rs1054096481 1309 dbSNP
rs888874458 1310 dbSNP
rs1046230335 1312 dbSNP
rs927770148 1314 dbSNP
rs938784201 1320 dbSNP
rs1007152753 1326 dbSNP
rs1466769670 1330 dbSNP
rs1040035639 1331 dbSNP
rs1169075856 1334 dbSNP
rs1230993886 1336 dbSNP
rs1427294481 1339 dbSNP
rs902075356 1340 dbSNP
rs1184605160 1341 dbSNP
rs1444384433 1344 dbSNP
rs1292279593 1349 dbSNP
rs981795026 1351 dbSNP
rs561218744 1368 dbSNP
rs769763780 1369 dbSNP
rs1202475699 1384 dbSNP
rs1270663754 1391 dbSNP
rs1305709781 1396 dbSNP
rs952285043 1402 dbSNP
rs1054898997 1407 dbSNP
rs1437114195 1423 dbSNP
rs775499527 1427 dbSNP
rs117121350 1428 dbSNP
rs959455517 1433 dbSNP
rs1042218653 1454 dbSNP
rs546510737 1455 dbSNP
rs1297111651 1456 dbSNP
rs140349297 1462 dbSNP
rs367894148 1467 dbSNP
rs1369215918 1476 dbSNP
rs977407390 1477 dbSNP
rs901195694 1485 dbSNP
rs1419926520 1495 dbSNP
rs924528171 1498 dbSNP
rs1175617774 1529 dbSNP
rs1489505924 1536 dbSNP
rs1293917529 1548 dbSNP
rs996763149 1553 dbSNP
rs9576711 1559 dbSNP
rs1289364293 1565 dbSNP
rs771817054 1567 dbSNP
rs952818980 1567 dbSNP
rs568906408 1574 dbSNP
rs544202662 1579 dbSNP
rs1305832784 1587 dbSNP
rs531430744 1598 dbSNP
rs943146747 1606 dbSNP
rs538419190 1611 dbSNP
rs554831044 1615 dbSNP
rs929546026 1617 dbSNP
rs1364206601 1621 dbSNP
rs1047935864 1625 dbSNP
rs773014960 1628 dbSNP
rs773612583 1630 dbSNP
rs1157159060 1633 dbSNP
rs982372196 1640 dbSNP
rs1269723606 1646 dbSNP
rs1198737288 1651 dbSNP
rs760929312 1656 dbSNP
rs1490167833 1663 dbSNP
rs1266618296 1677 dbSNP
rs568661575 1679 dbSNP
rs1206732229 1680 dbSNP
rs928177112 1681 dbSNP
rs534449576 1682 dbSNP
rs959030694 1693 dbSNP
rs1484650489 1694 dbSNP
rs990468293 1696 dbSNP
rs60068247 1699 dbSNP
rs554516299 1711 dbSNP
rs895212630 1716 dbSNP
rs1256995390 1719 dbSNP
rs1390642714 1724 dbSNP
rs915011501 1730 dbSNP
rs766712108 1745 dbSNP
rs375313442 1761 dbSNP
rs1013704331 1766 dbSNP
rs1191279137 1775 dbSNP
rs1471096933 1775 dbSNP
rs1241805760 1776 dbSNP
rs1450477733 1780 dbSNP
rs1170884548 1783 dbSNP
rs1025385654 1787 dbSNP
rs558833473 1788 dbSNP
rs1375923432 1791 dbSNP
rs546269989 1792 dbSNP
rs1434665255 1797 dbSNP
rs1195199860 1805 dbSNP
rs556669291 1806 dbSNP
rs754227443 1807 dbSNP
rs1447413904 1812 dbSNP
rs183984647 1814 dbSNP
rs545084334 1816 dbSNP
rs1462378772 1825 dbSNP
rs1263312788 1842 dbSNP
rs1397316932 1845 dbSNP
rs944515185 1848 dbSNP
rs1325555846 1852 dbSNP
rs1031560338 1854 dbSNP
rs1040288574 1856 dbSNP
rs1228827986 1869 dbSNP
rs900392449 1871 dbSNP
rs932688105 1873 dbSNP
rs1345598830 1880 dbSNP
rs1233440635 1881 dbSNP
rs989924496 1890 dbSNP
rs1049748009 1901 dbSNP
rs1468334982 1902 dbSNP
rs1398697864 1905 dbSNP
rs943115468 1906 dbSNP
rs975896473 1909 dbSNP
rs1261221224 1914 dbSNP
rs866311585 1917 dbSNP
rs1465526244 1918 dbSNP
rs564871679 1919 dbSNP
rs370521733 1937 dbSNP
rs888551661 1938 dbSNP
rs1274546492 1943 dbSNP
rs1005619376 1945 dbSNP
rs1195807315 1955 dbSNP
rs1200170103 1964 dbSNP
rs1379937677 1965 dbSNP
rs1467125735 1968 dbSNP
rs1248709086 1972 dbSNP
rs1268924755 1972 dbSNP
rs1016064252 1973 dbSNP
rs1383946957 1978 dbSNP
rs1314686643 1979 dbSNP
rs560889139 1986 dbSNP
rs1156307051 1992 dbSNP
rs897344577 2001 dbSNP
rs928951642 2005 dbSNP
rs1047862161 2006 dbSNP
rs755344404 2011 dbSNP
rs1003672910 2014 dbSNP
rs1166609096 2016 dbSNP
rs1426370722 2017 dbSNP
rs1035280496 2023 dbSNP
rs942281702 2026 dbSNP
rs1055284605 2027 dbSNP
rs1234201591 2036 dbSNP
rs959604985 2049 dbSNP
rs1386066077 2053 dbSNP
rs990934137 2054 dbSNP
rs1332765998 2058 dbSNP
rs759753512 2059 dbSNP
rs1260242628 2060 dbSNP
rs1273153807 2064 dbSNP
rs1330041963 2072 dbSNP
rs1225337710 2083 dbSNP
rs1210788539 2084 dbSNP
rs1013766940 2085 dbSNP
rs1244153091 2092 dbSNP
rs1025027201 2099 dbSNP
rs1280344438 2100 dbSNP
rs1021943766 2101 dbSNP
rs1468307080 2107 dbSNP
rs765785367 2111 dbSNP
rs1366048594 2135 dbSNP
rs999510955 2136 dbSNP
rs968231795 2155 dbSNP
rs1409796055 2160 dbSNP
rs1158754417 2163 dbSNP
rs1210879311 2169 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... PAR-CLIP data was present in GSM545216. RNA binding protein: AGO2. Condition:miR-124 transfection ...

- Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell.

Article - Hafner M; Landthaler M; Burger L; Khorshid et al.
- Cell, 2010
RNA transcripts are subject to posttranscriptional gene regulation involving hundreds of RNA-binding proteins (RBPs) and microRNA-containing ribonucleoprotein complexes (miRNPs) expressed in a cell-type dependent fashion. We developed a cell-based crosslinking approach to determine at high resolution and transcriptome-wide the binding sites of cellular RBPs and miRNPs. The crosslinked sites are revealed by thymidine to cytidine transitions in the cDNAs prepared from immunopurified RNPs of 4-thiouridine-treated cells. We determined the binding sites and regulatory consequences for several intensely studied RBPs and miRNPs, including PUM2, QKI, IGF2BP1-3, AGO/EIF2C1-4 and TNRC6A-C. Our study revealed that these factors bind thousands of sites containing defined sequence motifs and have distinct preferences for exonic versus intronic or coding versus untranslated transcript regions. The precise mapping of binding sites across the transcriptome will be critical to the interpretation of the rapidly emerging data on genetic variation between individuals and how these variations contribute to complex genetic diseases.
LinkOut: [PMID: 20371350]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HEK293
Disease 387921.0
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... "HITS-CLIP data was present in GSM714642. RNA binding protein: AGO2. Condition:completeT1 "PAR-CLIP data was present in GSM714644. RNA binding protein: AGO2. Condition:completeT1 ...

- Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods.

Article - Kishore S; Jaskiewicz L; Burger L; Hausser et al.
- Nature methods, 2011
Cross-linking and immunoprecipitation (CLIP) is increasingly used to map transcriptome-wide binding sites of RNA-binding proteins. We developed a method for CLIP data analysis, and applied it to compare CLIP with photoactivatable ribonucleoside-enhanced CLIP (PAR-CLIP) and to uncover how differences in cross-linking and ribonuclease digestion affect the identified sites. We found only small differences in accuracies of these methods in identifying binding sites of HuR, which binds low-complexity sequences, and Argonaute 2, which has a complex binding specificity. We found that cross-link-induced mutations led to single-nucleotide resolution for both PAR-CLIP and CLIP. Our results confirm the expectation from original CLIP publications that RNA-binding proteins do not protect their binding sites sufficiently under the denaturing conditions used during the CLIP procedure, and we show that extensive digestion with sequence-specific RNases strongly biases the recovered binding sites. This bias can be substantially reduced by milder nuclease digestion conditions.
LinkOut: [PMID: 21572407]
Experimental Support 3 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 387921.0
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... "PAR-CLIP data was present in GSM1065670. RNA binding protein: AGO2. Condition:4-thiouridine ...

- Memczak S; Jens M; Elefsinioti A; Torti F; et al., 2013, Nature.

Article - Memczak S; Jens M; Elefsinioti A; Torti F; et al.
- Nature, 2013
Circular RNAs (circRNAs) in animals are an enigmatic class of RNA with unknown function. To explore circRNAs systematically, we sequenced and computationally analysed human, mouse and nematode RNA. We detected thousands of well-expressed, stable circRNAs, often showing tissue/developmental-stage-specific expression. Sequence analysis indicated important regulatory functions for circRNAs. We found that a human circRNA, antisense to the cerebellar degeneration-related protein 1 transcript (CDR1as), is densely bound by microRNA (miRNA) effector complexes and harbours 63 conserved binding sites for the ancient miRNA miR-7. Further analyses indicated that CDR1as functions to bind miR-7 in neuronal tissues. Human CDR1as expression in zebrafish impaired midbrain development, similar to knocking down miR-7, suggesting that CDR1as is a miRNA antagonist with a miRNA-binding capacity ten times higher than any other known transcript. Together, our data provide evidence that circRNAs form a large class of post-transcriptional regulators. Numerous circRNAs form by head-to-tail splicing of exons, suggesting previously unrecognized regulatory potential of coding sequences.
LinkOut: [PMID: 23446348]
CLIP-seq Support 1 for dataset GSM714642
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repA
Location of target site ENST00000470258.1 | 3UTR | GUUUUUAAGCCAGGACAAGAAGUGCAAAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM545216
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / miR-124 transfection
Location of target site ENST00000470258.1 | 3UTR | UUUAAGCCAGGACAAGAAGUGCAAAU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM714644
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repA
Location of target site ENST00000470258.1 | 3UTR | GUUUUUAAGCCAGGACAAGAAGUGCAAAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM1065670
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / 4-thiouridine, 3_ML_LG
Location of target site ENST00000470258.1 | 3UTR | UUUUUAAGCCAGGACAAGAAGUGCAAAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
CLIP-seq Viewer Link
MiRNA-Target Expression Profile
Dataset Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
275 hsa-miR-548ac Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT055863 BUB3 BUB3, mitotic checkpoint protein 2 2
MIRT074959 LEPROT leptin receptor overlapping transcript 2 2
MIRT076823 SUZ12 SUZ12 polycomb repressive complex 2 subunit 2 4
MIRT078708 LLGL2 LLGL2, scribble cell polarity complex component 2 2
MIRT099610 ID4 inhibitor of DNA binding 4, HLH protein 2 4
MIRT103362 CBX3 chromobox 3 2 2
MIRT111801 MPZL1 myelin protein zero like 1 2 2
MIRT114050 AKAP11 A-kinase anchoring protein 11 2 12
MIRT133719 SKI SKI proto-oncogene 2 2
MIRT136817 NHLRC3 NHL repeat containing 3 2 6
MIRT149926 LDLR low density lipoprotein receptor 2 2
MIRT166915 TNPO1 transportin 1 2 2
MIRT168142 SOX4 SRY-box 4 2 10
MIRT190787 STRN3 striatin 3 2 4
MIRT207471 RMND5A required for meiotic nuclear division 5 homolog A 2 2
MIRT250951 CDK5R1 cyclin dependent kinase 5 regulatory subunit 1 2 4
MIRT271993 ARF1 ADP ribosylation factor 1 2 4
MIRT282618 IGF1R insulin like growth factor 1 receptor 2 8
MIRT294153 ZNF845 zinc finger protein 845 2 2
MIRT309060 C4ORF3 chromosome 4 open reading frame 3 2 2
MIRT318548 SYNCRIP synaptotagmin binding cytoplasmic RNA interacting protein 2 2
MIRT319752 LUC7L2 LUC7 like 2, pre-mRNA splicing factor 2 2
MIRT331324 TM9SF3 transmembrane 9 superfamily member 3 2 2
MIRT337204 TOMM20 translocase of outer mitochondrial membrane 20 2 6
MIRT346145 ALYREF Aly/REF export factor 2 2
MIRT347727 LSM14A LSM14A, mRNA processing body assembly factor 2 2
MIRT350503 MRGBP MRG domain binding protein 2 6
MIRT356409 RBPJ recombination signal binding protein for immunoglobulin kappa J region 2 2
MIRT357986 GRPEL2 GrpE like 2, mitochondrial 2 2
MIRT374399 M6PR mannose-6-phosphate receptor, cation dependent 2 6
MIRT442727 TMEM158 transmembrane protein 158 (gene/pseudogene) 2 2
MIRT443411 HMX3 H6 family homeobox 3 2 2
MIRT444408 FRMD5 FERM domain containing 5 2 2
MIRT444469 PTPRG protein tyrosine phosphatase, receptor type G 2 2
MIRT444650 HSBP1 heat shock factor binding protein 1 2 2
MIRT444861 EXD2 exonuclease 3'-5' domain containing 2 2 2
MIRT445685 TNFSF15 TNF superfamily member 15 2 2
MIRT446001 CD1D CD1d molecule 2 2
MIRT446074 RABIF RAB interacting factor 2 2
MIRT446308 ACSL3 acyl-CoA synthetase long chain family member 3 2 2
MIRT446432 ABHD2 abhydrolase domain containing 2 2 2
MIRT447269 C3orf30 chromosome 3 open reading frame 30 2 2
MIRT447759 TMCC3 transmembrane and coiled-coil domain family 3 2 2
MIRT448161 P2RY10 purinergic receptor P2Y10 2 2
MIRT449049 ADAMTS5 ADAM metallopeptidase with thrombospondin type 1 motif 5 2 2
MIRT449275 PALM2 paralemmin 2 2 2
MIRT450122 IMP3 IMP3, U3 small nucleolar ribonucleoprotein 2 2
MIRT450155 GABRB3 gamma-aminobutyric acid type A receptor beta3 subunit 2 2
MIRT451289 ZNF101 zinc finger protein 101 2 2
MIRT459253 ADRBK1 G protein-coupled receptor kinase 2 2 2
MIRT462554 NUDT19 nudix hydrolase 19 2 2
MIRT464470 UGCG UDP-glucose ceramide glucosyltransferase 2 2
MIRT465120 TSC22D2 TSC22 domain family member 2 2 4
MIRT467996 SKIL SKI like proto-oncogene 2 2
MIRT468718 SDC4 syndecan 4 2 2
MIRT469269 RHOB ras homolog family member B 2 2
MIRT470675 POLR2D RNA polymerase II subunit D 2 4
MIRT470723 POGK pogo transposable element derived with KRAB domain 2 2
MIRT471438 PDIA6 protein disulfide isomerase family A member 6 2 2
MIRT471502 PDE4D phosphodiesterase 4D 2 4
MIRT471988 NR2F2 nuclear receptor subfamily 2 group F member 2 2 4
MIRT472386 NEK7 NIMA related kinase 7 2 2
MIRT475028 KANSL1 KAT8 regulatory NSL complex subunit 1 2 8
MIRT479411 CDKN1B cyclin dependent kinase inhibitor 1B 2 10
MIRT480514 C11orf57 chromosome 11 open reading frame 57 2 2
MIRT481700 AR androgen receptor 2 2
MIRT482543 ACTB actin beta 2 4
MIRT482627 ABCE1 ATP binding cassette subfamily E member 1 2 2
MIRT484725 INHBA inhibin beta A subunit 2 12
MIRT487778 ANKEF1 ankyrin repeat and EF-hand domain containing 1 2 16
MIRT491883 YWHAZ tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta 2 2
MIRT494653 ARNTL aryl hydrocarbon receptor nuclear translocator like 2 2
MIRT497366 SF1 splicing factor 1 2 2
MIRT499156 HSPA1B heat shock protein family A (Hsp70) member 1B 2 8
MIRT502830 CELSR3 cadherin EGF LAG seven-pass G-type receptor 3 2 6
MIRT502944 CDC37L1 cell division cycle 37 like 1 2 8
MIRT503942 FBXL13 F-box and leucine rich repeat protein 13 2 4
MIRT504235 MYO6 myosin VI 2 2
MIRT504453 MC2R melanocortin 2 receptor 2 2
MIRT506022 PURA purine rich element binding protein A 2 2
MIRT508028 BCAT1 branched chain amino acid transaminase 1 2 4
MIRT508299 YES1 YES proto-oncogene 1, Src family tyrosine kinase 2 4
MIRT511515 HMGN2 high mobility group nucleosomal binding domain 2 2 2
MIRT512307 AMER1 APC membrane recruitment protein 1 2 6
MIRT514565 XRCC3 X-ray repair cross complementing 3 2 4
MIRT515657 MYBPC1 myosin binding protein C, slow type 2 2
MIRT518429 SSU72 SSU72 homolog, RNA polymerase II CTD phosphatase 2 2
MIRT520378 UBE2D1 ubiquitin conjugating enzyme E2 D1 2 4
MIRT521604 PSMA2 proteasome subunit alpha 2 2 4
MIRT521725 PPP3R1 protein phosphatase 3 regulatory subunit B, alpha 2 4
MIRT522579 MBNL3 muscleblind like splicing regulator 3 2 4
MIRT522731 LRRC55 leucine rich repeat containing 55 2 8
MIRT524547 CDC5L cell division cycle 5 like 2 4
MIRT525371 SYNM synemin 2 2
MIRT526489 PPIA peptidylprolyl isomerase A 2 4
MIRT527197 CLASP1 cytoplasmic linker associated protein 1 2 2
MIRT527285 FBLN2 fibulin 2 2 2
MIRT527383 MGARP mitochondria localized glutamic acid rich protein 2 2
MIRT527409 SMU1 DNA replication regulator and spliceosomal factor 2 6
MIRT527454 COL4A3 collagen type IV alpha 3 chain 2 2
MIRT528348 TBC1D22B TBC1 domain family member 22B 2 2
MIRT529104 ZNF100 zinc finger protein 100 2 2
MIRT529317 ATRNL1 attractin like 1 2 2
MIRT529328 PDE5A phosphodiesterase 5A 2 2
MIRT529750 SEL1L SEL1L ERAD E3 ligase adaptor subunit 2 2
MIRT530277 MKRN3 makorin ring finger protein 3 2 2
MIRT531415 TMEM18 transmembrane protein 18 2 2
MIRT532544 WDR13 WD repeat domain 13 2 2
MIRT533245 VKORC1L1 vitamin K epoxide reductase complex subunit 1 like 1 2 2
MIRT534659 RNF20 ring finger protein 20 2 2
MIRT534818 RAB33B RAB33B, member RAS oncogene family 2 2
MIRT537492 FAM169A family with sequence similarity 169 member A 2 2
MIRT538778 CABLES1 Cdk5 and Abl enzyme substrate 1 2 2
MIRT539122 ARL10 ADP ribosylation factor like GTPase 10 2 2
MIRT540964 SLC25A43 solute carrier family 25 member 43 2 2
MIRT541403 CDC27 cell division cycle 27 2 2
MIRT543353 ZNF829 zinc finger protein 829 2 2
MIRT543623 MFAP3 microfibril associated protein 3 2 2
MIRT543649 YY2 YY2 transcription factor 2 2
MIRT544945 SNCB synuclein beta 2 2
MIRT545327 SPC25 SPC25, NDC80 kinetochore complex component 2 2
MIRT546094 VEZF1 vascular endothelial zinc finger 1 2 2
MIRT548605 DCUN1D3 defective in cullin neddylation 1 domain containing 3 2 2
MIRT548638 DAZAP1 DAZ associated protein 1 2 4
MIRT550318 ZNF681 zinc finger protein 681 2 2
MIRT550412 SLC29A1 solute carrier family 29 member 1 (Augustine blood group) 2 4
MIRT551034 SPPL3 signal peptide peptidase like 3 2 2
MIRT551602 HDGFRP2 HDGF like 2 2 2
MIRT552064 ALG1 ALG1, chitobiosyldiphosphodolichol beta-mannosyltransferase 2 4
MIRT552803 YAF2 YY1 associated factor 2 2 2
MIRT553274 TVP23C trans-golgi network vesicle protein 23 homolog C 2 2
MIRT553303 TSPAN3 tetraspanin 3 2 2
MIRT553570 NPM3 nucleophosmin/nucleoplasmin 3 2 2
MIRT554844 RECK reversion inducing cysteine rich protein with kazal motifs 2 2
MIRT556069 MTF2 metal response element binding transcription factor 2 2 4
MIRT556898 ITGA2 integrin subunit alpha 2 2 2
MIRT558680 CNIH cornichon family AMPA receptor auxiliary protein 1 1 1
MIRT559032 C20orf24 chromosome 20 open reading frame 24 2 2
MIRT559108 C18orf25 chromosome 18 open reading frame 25 2 2
MIRT559864 GSKIP GSK3B interacting protein 2 2
MIRT560868 GAL3ST3 galactose-3-O-sulfotransferase 3 2 2
MIRT562268 GRB2 growth factor receptor bound protein 2 2 2
MIRT562419 EIF2S2 eukaryotic translation initiation factor 2 subunit beta 2 2
MIRT562652 ARID1A AT-rich interaction domain 1A 2 4
MIRT563771 ZNF678 zinc finger protein 678 2 2
MIRT564279 DEPDC1B DEP domain containing 1B 2 2
MIRT565253 TRA2B transformer 2 beta homolog 2 4
MIRT565307 TMEM64 transmembrane protein 64 2 2
MIRT566034 RFX1 regulatory factor X1 2 2
MIRT566714 MTMR3 myotubularin related protein 3 2 2
MIRT568087 CELF2 CUGBP Elav-like family member 2 2 2
MIRT568417 ATF7IP activating transcription factor 7 interacting protein 2 2
MIRT568766 MYBL1 MYB proto-oncogene like 1 2 2
MIRT569516 THYN1 thymocyte nuclear protein 1 2 2
MIRT571823 PHF19 PHD finger protein 19 2 2
MIRT571995 HOXA9 homeobox A9 2 2
MIRT572174 CELF1 CUGBP Elav-like family member 1 2 2
MIRT572637 ACOT9 acyl-CoA thioesterase 9 2 2
MIRT573756 KHSRP KH-type splicing regulatory protein 2 2
MIRT574089 CCDC132 VPS50, EARP/GARPII complex subunit 2 6
MIRT574311 CMTM6 CKLF like MARVEL transmembrane domain containing 6 2 2
MIRT574512 PSAT1 phosphoserine aminotransferase 1 2 2
MIRT574559 NRBF2 nuclear receptor binding factor 2 2 2
MIRT576686 H6pd hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase) 2 2
MIRT608491 NKTR natural killer cell triggering receptor 2 6
MIRT608640 ATP9A ATPase phospholipid transporting 9A (putative) 2 6
MIRT609231 TMEM189 transmembrane protein 189 2 2
MIRT609561 TCEAL4 transcription elongation factor A like 4 2 2
MIRT610193 FAM49A family with sequence similarity 49 member A 2 2
MIRT610681 SYT2 synaptotagmin 2 2 4
MIRT610725 NAV2 neuron navigator 2 2 2
MIRT610813 SGOL2 shugoshin 2 2 2
MIRT610993 TMEM189-UBE2V1 TMEM189-UBE2V1 readthrough 2 2
MIRT611030 KCNK10 potassium two pore domain channel subfamily K member 10 2 2
MIRT611339 SLC2A4 solute carrier family 2 member 4 2 2
MIRT611511 HIPK3 homeodomain interacting protein kinase 3 2 2
MIRT611638 EDIL3 EGF like repeats and discoidin domains 3 2 2
MIRT611856 RPL3L ribosomal protein L3 like 2 2
MIRT611905 TRPC3 transient receptor potential cation channel subfamily C member 3 2 2
MIRT612047 PCNXL2 pecanex homolog 2 2 6
MIRT612340 TRIB2 tribbles pseudokinase 2 2 2
MIRT612870 INO80C INO80 complex subunit C 2 2
MIRT613555 AMPD3 adenosine monophosphate deaminase 3 2 2
MIRT614490 MMS22L MMS22 like, DNA repair protein 2 2
MIRT615098 BRD4 bromodomain containing 4 2 2
MIRT616228 PTPN11 protein tyrosine phosphatase, non-receptor type 11 2 2
MIRT617220 GDPGP1 GDP-D-glucose phosphorylase 1 2 2
MIRT617884 ESR1 estrogen receptor 1 2 2
MIRT618344 CD59 CD59 molecule (CD59 blood group) 2 2
MIRT620264 RAPH1 Ras association (RalGDS/AF-6) and pleckstrin homology domains 1 2 2
MIRT620660 CCDC108 cilia and flagella associated protein 65 2 2
MIRT620761 CCR5 C-C motif chemokine receptor 5 (gene/pseudogene) 2 2
MIRT621416 TXNL1 thioredoxin like 1 2 2
MIRT621676 UBE2V1 ubiquitin conjugating enzyme E2 V1 2 2
MIRT622231 SLC25A51 solute carrier family 25 member 51 2 2
MIRT622377 SALL1 spalt like transcription factor 1 2 2
MIRT622404 RRAGC Ras related GTP binding C 2 2
MIRT622494 RC3H1 ring finger and CCCH-type domains 1 2 2
MIRT623064 NRXN1 neurexin 1 2 2
MIRT623295 MAX MYC associated factor X 2 2
MIRT623691 HNRNPA1 heterogeneous nuclear ribonucleoprotein A1 2 2
MIRT623930 FMNL3 formin like 3 2 2
MIRT623984 FAM208A family with sequence similarity 208 member A 2 2
MIRT624513 C7orf55-LUC7L2 C7orf55-LUC7L2 readthrough 2 2
MIRT624668 ARID4A AT-rich interaction domain 4A 2 2
MIRT624756 ANGPTL2 angiopoietin like 2 2 2
MIRT624949 MARCH2 membrane associated ring-CH-type finger 2 2 2
MIRT625968 RNF2 ring finger protein 2 2 2
MIRT626415 KIAA2018 upstream transcription factor family member 3 2 2
MIRT626882 AP3B1 adaptor related protein complex 3 beta 1 subunit 2 2
MIRT627157 ZNF652 zinc finger protein 652 2 2
MIRT627613 SFT2D2 SFT2 domain containing 2 2 2
MIRT627744 RAP2B RAP2B, member of RAS oncogene family 2 4
MIRT627808 PTEN phosphatase and tensin homolog 2 2
MIRT627820 PRR3 proline rich 3 2 2
MIRT630935 UNC93A unc-93 homolog A 2 2
MIRT635930 GLTSCR2 NOP53 ribosome biogenesis factor 2 2
MIRT638301 SERBP1 SERPINE1 mRNA binding protein 1 2 2
MIRT638437 PNRC1 proline rich nuclear receptor coactivator 1 2 2
MIRT640281 TCF24 transcription factor 24 2 2
MIRT641979 PCMTD2 protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 2 2 2
MIRT644179 GIN1 gypsy retrotransposon integrase 1 2 2
MIRT644439 VDR vitamin D receptor 2 2
MIRT644974 STEAP4 STEAP4 metalloreductase 2 2
MIRT647653 B3GALNT1 beta-1,3-N-acetylgalactosaminyltransferase 1 (globoside blood group) 2 2
MIRT648702 TNFRSF13C TNF receptor superfamily member 13C 2 2
MIRT650120 ZCCHC9 zinc finger CCHC-type containing 9 2 2
MIRT650505 UFM1 ubiquitin fold modifier 1 2 2
MIRT650701 CLNK cytokine dependent hematopoietic cell linker 2 2
MIRT651083 ZNF518B zinc finger protein 518B 2 4
MIRT653644 SLC30A1 solute carrier family 30 member 1 2 2
MIRT653788 SIX4 SIX homeobox 4 2 2
MIRT656773 LCOR ligand dependent nuclear receptor corepressor 2 2
MIRT656949 KIAA1456 KIAA1456 2 2
MIRT656981 KDM5A lysine demethylase 5A 2 2
MIRT657225 TOR1AIP2 torsin 1A interacting protein 2 2 4
MIRT657706 GPC5 glypican 5 2 2
MIRT660107 BTBD3 BTB domain containing 3 2 2
MIRT662817 C9orf64 chromosome 9 open reading frame 64 2 2
MIRT665889 TGIF2 TGFB induced factor homeobox 2 2 2
MIRT668140 GINS2 GINS complex subunit 2 2 2
MIRT668566 ERCC1 ERCC excision repair 1, endonuclease non-catalytic subunit 2 2
MIRT669718 AAGAB alpha and gamma adaptin binding protein 2 2
MIRT685693 TRIM45 tripartite motif containing 45 2 2
MIRT686579 TMPPE transmembrane protein with metallophosphoesterase domain 2 2
MIRT687491 NHLRC2 NHL repeat containing 2 2 2
MIRT687805 KCNJ15 potassium voltage-gated channel subfamily J member 15 2 2
MIRT687968 HHIP hedgehog interacting protein 2 2
MIRT689487 SCIMP SLP adaptor and CSK interacting membrane protein 2 2
MIRT689595 NUDT7 nudix hydrolase 7 2 2
MIRT690501 RSRC1 arginine and serine rich coiled-coil 1 2 2
MIRT692290 XRN2 5'-3' exoribonuclease 2 2 2
MIRT693060 KIAA1324 KIAA1324 2 2
MIRT697443 ZFHX3 zinc finger homeobox 3 2 2
MIRT698475 TJP1 tight junction protein 1 2 2
MIRT699033 SOAT1 sterol O-acyltransferase 1 2 2
MIRT699785 SEMA4D semaphorin 4D 2 2
MIRT701463 NEO1 neogenin 1 2 2
MIRT701869 MRO maestro 2 2
MIRT702158 MAP3K1 mitogen-activated protein kinase kinase kinase 1 2 2
MIRT703750 FAM126B family with sequence similarity 126 member B 2 2
MIRT704277 DGS2 DiGeorge syndrome/velocardiofacial syndrome complex 2 2 2
MIRT707956 PGM3 phosphoglucomutase 3 2 2
MIRT712747 LAMTOR1 late endosomal/lysosomal adaptor, MAPK and MTOR activator 1 2 2
MIRT712848 RHOA ras homolog family member A 2 2
MIRT712954 CCBE1 collagen and calcium binding EGF domains 1 2 2
MIRT713119 U2SURP U2 snRNP associated SURP domain containing 2 2
MIRT713148 PKIA cAMP-dependent protein kinase inhibitor alpha 2 2
MIRT715394 TADA3 transcriptional adaptor 3 2 2
MIRT715475 NEGR1 neuronal growth regulator 1 2 2
MIRT715535 G2E3 G2/M-phase specific E3 ubiquitin protein ligase 2 2
MIRT721159 MYOCD myocardin 2 2
MIRT722719 ZNF460 zinc finger protein 460 2 2
MIRT723130 GTF2F2 general transcription factor IIF subunit 2 2 2
MIRT723259 TMLHE trimethyllysine hydroxylase, epsilon 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-54 Nicotine approved 89594 Microarray Caenorhabditis elegans 23765240 2013 up-regualted
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-548ac Cisplatin 5460033 NSC119875 approved sensitive cell line (BxPC3)
hsa-miR-548ac Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)
hsa-miR-548ac Osimertinib 71496458 NSC779217 approved sensitive cell line (HCC827)
hsa-miR-548ac Osimertinib 71496458 NSC779217 approved resistant cell line (PC9)
hsa-miR-548ac Paclitaxel 36314 NSC125973 approved sensitive cell line (HS578T)
hsa-miR-548ac Paclitaxel 36314 NSC125973 approved resistant cell line (BAS)
hsa-miR-548ac Doxorubicin 31703 NSC123127 approved resistant cell line (BAS)
hsa-miR-548ac Doxorubicin 31703 NSC123127 approved sensitive cell line (HS578T)
hsa-miR-548ac Tamoxifen+Fulvestrant resistant cell line (LCC9)
hsa-miR-548ac Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)

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