pre-miRNA Information
pre-miRNA hsa-mir-4793   
Genomic Coordinates chr3: 48644194 - 48644280
Description Homo sapiens miR-4793 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4793-3p
Sequence 58| UCUGCACUGUGAGUUGGCUGGCU |80
Evidence Experimental
Experiments Illumina
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSM5899925 14 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs779602935 6 dbSNP
rs757908486 7 dbSNP
rs1422853760 15 dbSNP
rs377721296 23 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol NDUFC2   
Synonyms B14.5b, CI-B14.5b, HLC-1, NADHDH2
Description NADH:ubiquinone oxidoreductase subunit C2
Transcript NM_004549   
Expression
Putative miRNA Targets on NDUFC2
3'UTR of NDUFC2
(miRNA target sites are highlighted)
>NDUFC2|NM_004549|3'UTR
   1 AGTCTTCAAAATGCTTGCTCCAGTTTCACTGATACCTGCTGTTTCTGAATTTGATGGAACATGTTTCTTATGACAGTTGA
  81 AGCTTATGCTAATCTGTATGTTGACACCTTGTAATTAAAATACGTACCATGAGTACTCTGACTCTTTATTGTTGTAAGAA
 161 AAATAGTTCATCATCAGAGAATGGTCAGTTTCCATTCACCCATCTGAAAGATTTTAAGATGAGGTTGAATTCTAGTTTAG
 241 AGTTAGCAGACTACCCAAATCTGGCCCACTGCCAATAAAGTCTCATTGGAACACAGCCATGCTCATTTGTTTACATGTTG
 321 TTTATGGCGACTGCCATGCTGCAAGAGCAGAATTGAGTAGTTGTGATAGAGACCTATGGCCTGCAAAGCCTAATTAATAT
 401 GTAGCCCTTTCAGAAAAGGTTTGCCTGCCCCTGTCCTAGTGCAAAGTGAATTTAGAGTGAGCCAGATTATGGAGGATTCT
 481 GTGACTCTTGCCAAATAATTTTGACTTCATCCTGTAGGTATTAAGTCATTAAGGCGTTTTAAATCATACAGTCAGGTTTG
 561 TATTTCTGAGCTGTCTATAATGAATGATATAGAAGGTGGTTTCGAAGGAGGAGACTCCAGACAAGGAAAACAGAAATCTT
 641 ATGTTGCCAAGTTGTCTTTGCTCTTAGGTGGGTTATCCTGGAGAAAATGGACTCAGGAGCTAATACTGTCTACAGTGGAG
 721 CTTGGTGCAATTAGAAGCAAAAGACTGTACCTAACTGGAATGAGGTTACTTTTTATGGCTTATCAAATGCTTGTCCTGGC
 801 CCGATGCAGTGGCTCATGCCTGTAATCCCAGCACTTTGAGAGGCTGAGGCAGGGCAGATTGCATGAGCCCAGGAGTTCGA
 881 GACCAACTTGGGCAACATGGTGAAACACTGTCTCTACATAAAATACAAAAATTAGCTGGGCGTGGTGGCACGTTCCTGCA
 961 ATCCCAGCTACTCATAAGGCTGAGGTGGGAGGATCTATTGAGCCCTGGAATTCGAGGATGCAATTAATTGTGGTTGTGTC
1041 ACAGTTCACTGCAGCCTGGGTGACACTCCAGCCTGGGTGACAAAGGAGACCCCGTCAAAAAAAAAAGTACTTGTCCCAAA
1121 AGTTTTTGTTTCCTAGCTTAGAATTTATAATCAGATTAGGTTTTGGAGATAAAGTATATGTGGTATTTTTTTTTTTTTTT
1201 TTGAGACGACAGTCTTGCTCTGTCATCAGGCTGGAGTGCAGTGGCGCAATTTCGGCTCACTGCAACCTCCACCTCCTGGG
1281 TTCAAGCAATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGTGCATGCCACGACGCCCAGCTGATTTTTGTGT
1361 TTTTAGTAGAGACGGGGTTTCACCATGTTGGCCAAGATGGTCTCAATCTCTTGACCTTGTGATCCACCTGCCTTGGCCTT
1441 CCAAAGTGTTGGAATTACAGGCGTGAGCCACCGCGCCTGGTCTATATGTGATTTCAAATTAGGTGGCCTTATAAATATAA
1521 GCAGATGGTTTCTGGGCAAAATCAAATGATTTCTGTCTCTATTTTCTTGAGTACCAATTGTAAAAACTGAAATTAGGTTG
1601 AGGAAAGTGCTTTAGAAATAATAAAGATGTACAAATACAAAAAAAAAAAAAAAAAA
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' ucGGUCGGUUGAGUGUCACGUCu 5'
            :|| | ::|| : ||||||| 
Target 5' tgTCATCAGGCT-GGAGTGCAGt 3'
1221 - 1242 152.00 -16.50
2
miRNA  3' ucGGUCGGUUG-AGUGUCACGUcu 5'
            || |||  : || :||||||  
Target 5' tgCCTGCCCCTGTCCTAGTGCAaa 3'
422 - 445 137.00 -17.20
3
miRNA  3' ucggUCGGU--UGA---GUGUCACGUCu 5'
              |||:|  |||   :|||||| || 
Target 5' caggAGCTAATACTGTCTACAGTGGAGc 3'
694 - 721 133.00 -15.50
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
813296 8 ClinVar
COSN30478080 56 COSMIC
COSN20077214 123 COSMIC
COSN30761011 124 COSMIC
COSN1138284 138 COSMIC
COSN1138282 236 COSMIC
COSN5919174 341 COSMIC
COSN5919173 342 COSMIC
COSN16732758 457 COSMIC
COSN5919172 821 COSMIC
COSN29414485 840 COSMIC
COSN31875069 1207 COSMIC
COSN30212626 1344 COSMIC
COSN16133266 1400 COSMIC
COSN22518458 1446 COSMIC
COSN20954372 1648 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs766199619 2 dbSNP
rs1802466 4 dbSNP
rs1477023283 9 dbSNP
rs779519357 12 dbSNP
rs756288046 20 dbSNP
rs1202789308 22 dbSNP
rs371883536 31 dbSNP
rs1281739357 32 dbSNP
rs368863957 35 dbSNP
rs1345870868 40 dbSNP
rs774449690 46 dbSNP
rs764539995 47 dbSNP
rs1375714740 61 dbSNP
rs763466703 63 dbSNP
rs775652801 71 dbSNP
rs1419773291 72 dbSNP
rs1319763935 74 dbSNP
rs1328689635 75 dbSNP
rs1243111764 82 dbSNP
rs770248296 82 dbSNP
rs532766460 83 dbSNP
rs1315305882 89 dbSNP
rs746617503 90 dbSNP
rs1368670021 91 dbSNP
rs1247631792 95 dbSNP
rs1374348066 97 dbSNP
rs772954756 98 dbSNP
rs1307328014 100 dbSNP
rs1480535353 107 dbSNP
rs538481040 111 dbSNP
rs1217387438 112 dbSNP
rs747611582 116 dbSNP
rs577530232 123 dbSNP
rs560591022 124 dbSNP
rs1258619374 133 dbSNP
rs1442698853 135 dbSNP
rs749304252 136 dbSNP
rs1484943271 139 dbSNP
rs779701453 143 dbSNP
rs755988645 144 dbSNP
rs750579946 147 dbSNP
rs757857968 148 dbSNP
rs1282476341 149 dbSNP
rs1025147179 152 dbSNP
rs1335268284 156 dbSNP
rs1294849264 158 dbSNP
rs1412875844 162 dbSNP
rs993624239 163 dbSNP
rs1379273021 167 dbSNP
rs540933242 172 dbSNP
rs1439974404 184 dbSNP
rs1164868694 193 dbSNP
rs574443617 194 dbSNP
rs560992916 195 dbSNP
rs1006901756 197 dbSNP
rs1366024833 200 dbSNP
rs796324845 204 dbSNP
rs545799400 209 dbSNP
rs1323412415 222 dbSNP
rs888768494 223 dbSNP
rs57008568 225 dbSNP
rs1443556816 227 dbSNP
rs1329774115 230 dbSNP
rs1376405398 231 dbSNP
rs907213523 234 dbSNP
rs1358316061 242 dbSNP
rs1050542484 245 dbSNP
rs933076545 247 dbSNP
rs1354253319 248 dbSNP
rs1015314391 249 dbSNP
rs1176487846 250 dbSNP
rs1469798954 275 dbSNP
rs1416012666 276 dbSNP
rs180847938 277 dbSNP
rs1237293491 280 dbSNP
rs1458074677 281 dbSNP
rs901551665 282 dbSNP
rs145640909 285 dbSNP
rs765495323 286 dbSNP
rs575365935 289 dbSNP
rs887825872 294 dbSNP
rs1419170408 296 dbSNP
rs1463517635 299 dbSNP
rs1049290610 316 dbSNP
rs1399973585 318 dbSNP
rs1392337614 320 dbSNP
rs1331067864 321 dbSNP
rs932133046 323 dbSNP
rs900781817 324 dbSNP
rs990009426 325 dbSNP
rs577028616 328 dbSNP
rs553874809 329 dbSNP
rs1257357834 336 dbSNP
rs767348119 337 dbSNP
rs926638371 342 dbSNP
rs539228998 349 dbSNP
rs576981449 353 dbSNP
rs1188755760 360 dbSNP
rs1482580660 361 dbSNP
rs553742449 363 dbSNP
rs1441524821 366 dbSNP
rs912234363 371 dbSNP
rs977023312 389 dbSNP
rs945834297 397 dbSNP
rs914321169 400 dbSNP
rs981222047 411 dbSNP
rs1211245937 420 dbSNP
rs1350585316 423 dbSNP
rs1462801941 428 dbSNP
rs534145522 432 dbSNP
rs970753437 436 dbSNP
rs1227957002 474 dbSNP
rs188379485 476 dbSNP
rs989965459 490 dbSNP
rs759410725 491 dbSNP
rs958552922 494 dbSNP
rs1025027580 499 dbSNP
rs972153921 501 dbSNP
rs1398247953 504 dbSNP
rs962178810 506 dbSNP
rs1016464049 518 dbSNP
rs1229294817 520 dbSNP
rs5792792 528 dbSNP
rs35407482 532 dbSNP
rs1034568626 533 dbSNP
rs1344057005 534 dbSNP
rs981399632 535 dbSNP
rs774257668 536 dbSNP
rs1282026586 537 dbSNP
rs770921752 543 dbSNP
rs762419972 545 dbSNP
rs889400370 546 dbSNP
rs147449505 553 dbSNP
rs1429680391 556 dbSNP
rs115580549 563 dbSNP
rs1376242856 565 dbSNP
rs1368480169 572 dbSNP
rs1465863332 580 dbSNP
rs747867082 581 dbSNP
rs1174438470 582 dbSNP
rs1377567256 585 dbSNP
rs1297700446 590 dbSNP
rs1385549048 595 dbSNP
rs996236202 599 dbSNP
rs901530826 603 dbSNP
rs1299139850 604 dbSNP
rs1330229227 612 dbSNP
rs900689544 615 dbSNP
rs1306964617 620 dbSNP
rs1430028114 622 dbSNP
rs1040906082 623 dbSNP
rs1215234418 632 dbSNP
rs944987103 637 dbSNP
rs1162065688 638 dbSNP
rs902757091 640 dbSNP
rs945824342 642 dbSNP
rs781347618 643 dbSNP
rs1054731833 650 dbSNP
rs937273975 651 dbSNP
rs769158949 654 dbSNP
rs1194731027 656 dbSNP
rs1041404573 661 dbSNP
rs1397082113 663 dbSNP
rs1438116179 665 dbSNP
rs945696921 675 dbSNP
rs914350830 679 dbSNP
rs927165868 689 dbSNP
rs1486824127 693 dbSNP
rs981388118 695 dbSNP
rs1204648673 696 dbSNP
rs1441360480 699 dbSNP
rs1327729169 700 dbSNP
rs1483484618 703 dbSNP
rs1374417487 707 dbSNP
rs1054146225 728 dbSNP
rs1307268423 737 dbSNP
rs1242058591 743 dbSNP
rs1253356164 743 dbSNP
rs949383019 747 dbSNP
rs1214678957 748 dbSNP
rs1255228027 749 dbSNP
rs937062640 750 dbSNP
rs927150009 753 dbSNP
rs917940053 757 dbSNP
rs981647033 783 dbSNP
rs1420942567 785 dbSNP
rs747439754 792 dbSNP
rs375805327 795 dbSNP
rs1484074146 799 dbSNP
rs568948638 802 dbSNP
rs552268180 803 dbSNP
rs983472481 807 dbSNP
rs532558534 808 dbSNP
rs952041261 811 dbSNP
rs985402512 813 dbSNP
rs1298384456 818 dbSNP
rs780706329 822 dbSNP
rs143014598 828 dbSNP
rs1348344691 829 dbSNP
rs997798292 830 dbSNP
rs1027635470 837 dbSNP
rs996280536 855 dbSNP
rs1410252259 862 dbSNP
rs965666434 864 dbSNP
rs965125006 875 dbSNP
rs1019146095 878 dbSNP
rs1316385939 879 dbSNP
rs546972049 886 dbSNP
rs1009479027 897 dbSNP
rs1233660145 900 dbSNP
rs1009934518 906 dbSNP
rs1481764403 916 dbSNP
rs902788893 918 dbSNP
rs1180360772 924 dbSNP
rs1042606810 926 dbSNP
rs1291496680 931 dbSNP
rs1475579496 939 dbSNP
rs1054216743 941 dbSNP
rs372381375 942 dbSNP
rs1001739534 944 dbSNP
rs1464907935 946 dbSNP
rs1011084749 948 dbSNP
rs892822799 951 dbSNP
rs184829529 952 dbSNP
rs937113935 959 dbSNP
rs1166220685 960 dbSNP
rs927025267 967 dbSNP
rs1355462034 972 dbSNP
rs1416102067 978 dbSNP
rs1295634332 981 dbSNP
rs138188967 993 dbSNP
rs1214317903 995 dbSNP
rs1274207455 998 dbSNP
rs1309666271 1006 dbSNP
rs949902827 1007 dbSNP
rs907818196 1013 dbSNP
rs1213199701 1020 dbSNP
rs1260899218 1022 dbSNP
rs544225085 1026 dbSNP
rs949969732 1028 dbSNP
rs552722343 1036 dbSNP
rs1036397374 1044 dbSNP
rs1172562909 1063 dbSNP
rs1375741419 1064 dbSNP
rs1436037245 1066 dbSNP
rs565200524 1067 dbSNP
rs1266134323 1068 dbSNP
rs1359160175 1068 dbSNP
rs1430595808 1069 dbSNP
rs1271292986 1072 dbSNP
rs368742144 1078 dbSNP
rs1326956370 1081 dbSNP
rs1267492042 1083 dbSNP
rs1302950274 1083 dbSNP
rs1348925683 1085 dbSNP
rs975142998 1088 dbSNP
rs1228774561 1090 dbSNP
rs764260921 1090 dbSNP
rs576916060 1093 dbSNP
rs964864233 1094 dbSNP
rs1216324901 1096 dbSNP
rs1243785010 1097 dbSNP
rs1019429257 1100 dbSNP
rs759018137 1105 dbSNP
rs1009097018 1106 dbSNP
rs1192846366 1107 dbSNP
rs1395276402 1107 dbSNP
rs1327289789 1108 dbSNP
rs1455344769 1108 dbSNP
rs1455228856 1110 dbSNP
rs922148074 1111 dbSNP
rs1387080681 1127 dbSNP
rs966862303 1129 dbSNP
rs1021055496 1132 dbSNP
rs1347537062 1136 dbSNP
rs1011114474 1137 dbSNP
rs553975363 1149 dbSNP
rs1439123270 1153 dbSNP
rs894027215 1155 dbSNP
rs1365930142 1156 dbSNP
rs508006 1164 dbSNP
rs1372215209 1168 dbSNP
rs1236718768 1171 dbSNP
rs976728759 1173 dbSNP
rs1054082191 1174 dbSNP
rs1432854314 1177 dbSNP
rs1268370262 1183 dbSNP
rs1195557787 1185 dbSNP
rs1319896433 1186 dbSNP
rs1009820394 1188 dbSNP
rs1469654993 1188 dbSNP
rs201192154 1202 dbSNP
rs1176336863 1203 dbSNP
rs1232011935 1203 dbSNP
rs1410777930 1203 dbSNP
rs199987911 1203 dbSNP
rs66549938 1203 dbSNP
rs1164876074 1204 dbSNP
rs1175869210 1204 dbSNP
rs1247267307 1204 dbSNP
rs749847509 1205 dbSNP
rs771302926 1205 dbSNP
rs1209290539 1206 dbSNP
rs1471348329 1207 dbSNP
rs200381458 1208 dbSNP
rs202092133 1208 dbSNP
rs796159007 1208 dbSNP
rs1443577036 1209 dbSNP
rs1327084929 1210 dbSNP
rs10536825 1211 dbSNP
rs760720035 1211 dbSNP
rs1312384908 1213 dbSNP
rs1442979335 1217 dbSNP
rs957045419 1222 dbSNP
rs1354358921 1239 dbSNP
rs534487890 1245 dbSNP
rs540517573 1246 dbSNP
rs1363841786 1247 dbSNP
rs1196599476 1249 dbSNP
rs1271814792 1250 dbSNP
rs1001603933 1254 dbSNP
rs1438098786 1262 dbSNP
rs1320406047 1265 dbSNP
rs1183568798 1275 dbSNP
rs1235205373 1278 dbSNP
rs566449038 1287 dbSNP
rs574814183 1289 dbSNP
rs1187780752 1292 dbSNP
rs1045875604 1294 dbSNP
rs1387548628 1297 dbSNP
rs1171154550 1304 dbSNP
rs1001308127 1309 dbSNP
rs942293918 1310 dbSNP
rs1353580756 1311 dbSNP
rs1414308022 1316 dbSNP
rs1045597049 1321 dbSNP
rs886279198 1325 dbSNP
rs1014172314 1326 dbSNP
rs1175762984 1327 dbSNP
rs1047562456 1333 dbSNP
rs140293161 1338 dbSNP
rs193048605 1339 dbSNP
rs974795546 1341 dbSNP
rs1448628222 1342 dbSNP
rs1254050362 1357 dbSNP
rs568880611 1360 dbSNP
rs940643277 1364 dbSNP
rs1258787782 1365 dbSNP
rs1476500947 1370 dbSNP
rs1191690103 1372 dbSNP
rs558324563 1373 dbSNP
rs59322470 1374 dbSNP
rs909233390 1377 dbSNP
rs1281942706 1382 dbSNP
rs1373946604 1384 dbSNP
rs987977754 1385 dbSNP
rs966725928 1393 dbSNP
rs538771191 1397 dbSNP
rs1225745620 1399 dbSNP
rs1434152759 1401 dbSNP
rs1313613806 1402 dbSNP
rs1377380494 1406 dbSNP
rs879096686 1411 dbSNP
rs1340786960 1423 dbSNP
rs1380420982 1427 dbSNP
rs1021085017 1431 dbSNP
rs148257064 1434 dbSNP
rs1229407698 1439 dbSNP
rs1300796361 1439 dbSNP
rs1328685606 1440 dbSNP
rs958319815 1443 dbSNP
rs1332836396 1445 dbSNP
rs762838005 1458 dbSNP
rs1281778590 1462 dbSNP
rs1487040235 1463 dbSNP
rs1203834015 1466 dbSNP
rs547202833 1472 dbSNP
rs1447934827 1473 dbSNP
rs759883117 1474 dbSNP
rs1001234581 1475 dbSNP
rs1453956017 1479 dbSNP
rs530305868 1488 dbSNP
rs1396900024 1503 dbSNP
rs1451744375 1504 dbSNP
rs905537118 1506 dbSNP
rs1023936214 1513 dbSNP
rs1383671056 1521 dbSNP
rs1389822537 1522 dbSNP
rs1323699494 1528 dbSNP
rs1168544627 1532 dbSNP
rs1476463024 1534 dbSNP
rs567590708 1543 dbSNP
rs1441132483 1550 dbSNP
rs1305179936 1555 dbSNP
rs966186895 1559 dbSNP
rs1237786131 1568 dbSNP
rs913454936 1571 dbSNP
rs550877899 1573 dbSNP
rs1352099932 1575 dbSNP
rs1211151709 1588 dbSNP
rs550990549 1593 dbSNP
rs1468324602 1597 dbSNP
rs1014023495 1598 dbSNP
rs1366638115 1601 dbSNP
rs532861109 1613 dbSNP
rs1196374380 1619 dbSNP
rs1417392779 1626 dbSNP
rs1047635228 1627 dbSNP
rs1475381909 1628 dbSNP
rs1259385072 1629 dbSNP
rs1202542400 1636 dbSNP
rs666124 1639 dbSNP
rs1481296439 1641 dbSNP
rs1455237107 1643 dbSNP
rs930446292 1647 dbSNP
rs1393371076 1650 dbSNP
rs1482507532 1659 dbSNP
rs899110773 1673 dbSNP
rs1273332599 1681 dbSNP
rs1370779781 1685 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HEK293S
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 GSM1084064. RNA binding protein: AGO2. Condition:CLIP_noemetine_AbnovaAb HITS-CLIP data was present in GSM1084065. RNA binding protein: AGO2. Condition:CLIP_emetine_AbnovaAb HITS-CLIP data was present in GSM1084079. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep2_AbnovaAb ...

- Karginov FV; Hannon GJ, 2013, Genes & development.

Article - Karginov FV; Hannon GJ
- Genes & development, 2013
When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.
LinkOut: [PMID: 23824327]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HCT116
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 ERX177600. RNA binding protein: AGO2. Condition:p53_V_Ago_CLIP_2_2 PAR-CLIP data was present in ERX177612. RNA binding protein: AGO2. Condition:p53_V_AGO_CLIP_3_2 PAR-CLIP data was present in ERX177624. RNA binding protein: AGO2. Condition:p53_V_AGO_CLIP_4_2 ...

- Krell J; Stebbing J; Carissimi C; Dabrowska et al., 2016, Genome research.

Article - Krell J; Stebbing J; Carissimi C; Dabrowska et al.
- Genome research, 2016
DNA damage activates TP53-regulated surveillance mechanisms that are crucial in suppressing tumorigenesis. TP53 orchestrates these responses directly by transcriptionally modulating genes, including microRNAs (miRNAs), and by regulating miRNA biogenesis through interacting with the DROSHA complex. However, whether the association between miRNAs and AGO2 is regulated following DNA damage is not yet known. Here, we show that, following DNA damage, TP53 interacts with AGO2 to induce or reduce AGO2's association of a subset of miRNAs, including multiple let-7 family members. Furthermore, we show that specific mutations in TP53 decrease rather than increase the association of let-7 family miRNAs, reducing their activity without preventing TP53 from interacting with AGO2. This is consistent with the oncogenic properties of these mutants. Using AGO2 RIP-seq and PAR-CLIP-seq, we show that the DNA damage-induced increase in binding of let-7 family members to the RISC complex is functional. We unambiguously determine the global miRNA-mRNA interaction networks involved in the DNA damage response, validating them through the identification of miRNA-target chimeras formed by endogenous ligation reactions. We find that the target complementary region of the let-7 seed tends to have highly fixed positions and more variable ones. Additionally, we observe that miRNAs, whose cellular abundance or differential association with AGO2 is regulated by TP53, are involved in an intricate network of regulatory feedback and feedforward circuits. TP53-mediated regulation of AGO2-miRNA interaction represents a new mechanism of miRNA regulation in carcinogenesis.
LinkOut: [PMID: 26701625]
CLIP-seq Support 1 for dataset GSM4903833
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_a
Location of target site NM_001204055 | 3UTR | GUGGCGCAAUUUCGGCUCACUGCAACCUCCACCUCCUGGGUUCAAGCAAUUCUCCUGCCUCAGCCUCCCGAGUAGCUGGGACUACAGGUGCAUGCCACGACGCCCAGCUGAUUUUUGUGUUUUUAGUAGAGACGGGGUUUCACC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4903834
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_b
Location of target site NM_004549 | 3UTR | AGUGGCGCAAUUUCGGCUCACUGCAACCUCCACCUCCUGGGUUCAAGCAAUUCUCCUGCCUCAGCCUCCCGAGUAGCUGGGACUACAGGUGCAUGCCACGACGCCCAGCUGAUUUUUGUGUUUUUAGUAGAGACGGGGUUUCACC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4903835
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_c
Location of target site NM_004549 | 3UTR | GUGGCGCAAUUUCGGCUCACUGCAACCUCCACCUCCUGGGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4903836
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_a
Location of target site NM_004549 | 3UTR | AGUGGCGCAAUUUCGGCUCACUGCAACCUCCACCUCCUGGGUUCAAGCAAUUCUCCUGCCUCAGCCUCCCGAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM1084064
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_noemetine_AbnovaAb
Location of target site ENST00000281031.4 | 3UTR | AUCAGGCUGGAGUGCAGUGGCGC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM1084065
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_emetine_AbnovaAb
Location of target site ENST00000281031.4 | 3UTR | AUCAGGCUGGAGUGCAGUGGCGC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM1084079
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_hippuristanol_rep2_AbnovaAb
Location of target site ENST00000281031.4 | 3UTR | AUCAGGCUGGAGUGC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
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
296 hsa-miR-4793-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT092332 EDEM1 ER degradation enhancing alpha-mannosidase like protein 1 2 6
MIRT131237 ATG2A autophagy related 2A 2 2
MIRT145926 ANKFY1 ankyrin repeat and FYVE domain containing 1 2 2
MIRT206559 SOCS5 suppressor of cytokine signaling 5 2 8
MIRT226455 TP53INP1 tumor protein p53 inducible nuclear protein 1 2 2
MIRT337662 ZNF695 zinc finger protein 695 2 2
MIRT405828 SIX4 SIX homeobox 4 2 2
MIRT455113 RILPL1 Rab interacting lysosomal protein like 1 2 2
MIRT456756 TMEM239 transmembrane protein 239 2 4
MIRT457974 RGS9BP regulator of G protein signaling 9 binding protein 2 2
MIRT458173 LYRM4 LYR motif containing 4 2 4
MIRT458245 SLC9A7 solute carrier family 9 member A7 2 2
MIRT466145 TMEM120B transmembrane protein 120B 2 2
MIRT474981 KATNAL1 katanin catalytic subunit A1 like 1 2 2
MIRT475601 HMGB2 high mobility group box 2 2 4
MIRT480759 BMP3 bone morphogenetic protein 3 2 4
MIRT481156 AVL9 AVL9 cell migration associated 2 2
MIRT482155 AK2 adenylate kinase 2 2 2
MIRT488386 VAV3 vav guanine nucleotide exchange factor 3 2 6
MIRT496575 KIF18B kinesin family member 18B 2 2
MIRT498411 TXNDC16 thioredoxin domain containing 16 2 4
MIRT504547 ZNF417 zinc finger protein 417 2 6
MIRT505417 TCF7L2 transcription factor 7 like 2 2 2
MIRT509349 ALDH9A1 aldehyde dehydrogenase 9 family member A1 2 6
MIRT512164 CD164 CD164 molecule 2 6
MIRT517238 PRIM1 DNA primase subunit 1 2 2
MIRT518671 KCNMB1 potassium calcium-activated channel subfamily M regulatory beta subunit 1 2 2
MIRT519298 MLH1 mutL homolog 1 2 2
MIRT523662 FOSL2 FOS like 2, AP-1 transcription factor subunit 2 2
MIRT525452 GPATCH2L G-patch domain containing 2 like 2 2
MIRT539847 ZNF766 zinc finger protein 766 2 2
MIRT540076 SSH3 slingshot protein phosphatase 3 2 2
MIRT540320 PIGR polymeric immunoglobulin receptor 2 2
MIRT540548 MAGI3 membrane associated guanylate kinase, WW and PDZ domain containing 3 2 2
MIRT540759 UTP6 UTP6, small subunit processome component 2 2
MIRT541545 HIATL2 major facilitator superfamily domain containing 14C 2 2
MIRT541553 SLC35E1 solute carrier family 35 member E1 2 2
MIRT541666 ATP8B3 ATPase phospholipid transporting 8B3 2 4
MIRT541722 TFDP2 transcription factor Dp-2 2 2
MIRT541800 DUSP28 dual specificity phosphatase 28 2 2
MIRT541816 SMU1 DNA replication regulator and spliceosomal factor 2 2
MIRT541907 VWA7 von Willebrand factor A domain containing 7 2 2
MIRT542154 UGDH UDP-glucose 6-dehydrogenase 2 2
MIRT542207 C14orf142 GON7, KEOPS complex subunit homolog 2 2
MIRT542233 FUT9 fucosyltransferase 9 2 2
MIRT542320 SERPING1 serpin family G member 1 2 2
MIRT542369 PAICS phosphoribosylaminoimidazole carboxylase and phosphoribosylaminoimidazolesuccinocarboxamide synthase 2 2
MIRT542476 APOC3 apolipoprotein C3 2 2
MIRT542641 TIMM8A translocase of inner mitochondrial membrane 8A 2 2
MIRT542660 TAF11 TATA-box binding protein associated factor 11 2 2
MIRT542749 PRRG4 proline rich and Gla domain 4 2 4
MIRT542789 PLEKHA3 pleckstrin homology domain containing A3 2 2
MIRT545442 FGFRL1 fibroblast growth factor receptor like 1 2 2
MIRT546206 TOR1AIP2 torsin 1A interacting protein 2 2 2
MIRT552270 RAB3D RAB3D, member RAS oncogene family 2 2
MIRT552655 ZADH2 zinc binding alcohol dehydrogenase domain containing 2 2 2
MIRT554134 SMARCA5 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5 2 2
MIRT556795 KIAA1958 KIAA1958 2 2
MIRT564762 ZHX3 zinc fingers and homeoboxes 3 2 2
MIRT569428 STX7 syntaxin 7 2 2
MIRT573245 ZBTB46 zinc finger and BTB domain containing 46 2 2
MIRT607390 LANCL3 LanC like 3 2 2
MIRT607430 NOTCH2NL notch 2 N-terminal like 2 2
MIRT607452 ZNF543 zinc finger protein 543 2 2
MIRT607580 TANGO2 transport and golgi organization 2 homolog 2 2
MIRT607748 ANGPT4 angiopoietin 4 2 2
MIRT607907 SPRYD4 SPRY domain containing 4 2 2
MIRT608703 GMPR guanosine monophosphate reductase 2 2
MIRT612127 NDUFA10 NADH:ubiquinone oxidoreductase subunit A10 2 2
MIRT612786 MAP3K9 mitogen-activated protein kinase kinase kinase 9 2 4
MIRT616692 LPL lipoprotein lipase 2 2
MIRT617045 ZNF610 zinc finger protein 610 2 2
MIRT617091 ZNF43 zinc finger protein 43 2 2
MIRT617314 MBOAT1 membrane bound O-acyltransferase domain containing 1 2 2
MIRT617355 MELK maternal embryonic leucine zipper kinase 2 2
MIRT617486 ALG9 ALG9, alpha-1,2-mannosyltransferase 2 2
MIRT617579 NDUFB5 NADH:ubiquinone oxidoreductase subunit B5 2 2
MIRT617669 RSRC1 arginine and serine rich coiled-coil 1 2 2
MIRT617722 TRAPPC2 trafficking protein particle complex 2 2 4
MIRT617893 PTCHD3 patched domain containing 3 2 2
MIRT617982 ZNF234 zinc finger protein 234 2 4
MIRT618434 MYLK3 myosin light chain kinase 3 2 4
MIRT618732 HIST1H2AH histone cluster 1 H2A family member h 2 2
MIRT619045 CASS4 Cas scaffolding protein family member 4 2 2
MIRT619573 ATAT1 alpha tubulin acetyltransferase 1 2 4
MIRT619671 CYP1A2 cytochrome P450 family 1 subfamily A member 2 2 2
MIRT619887 ABHD17B abhydrolase domain containing 17B 2 2
MIRT620519 SNRPD1 small nuclear ribonucleoprotein D1 polypeptide 2 4
MIRT620535 AVPR1A arginine vasopressin receptor 1A 2 2
MIRT620996 C19orf52 translocase of inner mitochondrial membrane 29 2 2
MIRT621304 YIPF4 Yip1 domain family member 4 2 2
MIRT622086 SRPX2 sushi repeat containing protein, X-linked 2 2 2
MIRT622168 SMYD1 SET and MYND domain containing 1 2 2
MIRT622543 PXMP4 peroxisomal membrane protein 4 2 2
MIRT622761 PGM3 phosphoglucomutase 3 2 2
MIRT622885 PDCL3 phosducin like 3 2 4
MIRT623130 NDUFC2 NADH:ubiquinone oxidoreductase subunit C2 2 2
MIRT624840 ACAP2 ArfGAP with coiled-coil, ankyrin repeat and PH domains 2 2 2
MIRT625047 MBD3 methyl-CpG binding domain protein 3 2 2
MIRT625059 ZNF556 zinc finger protein 556 2 2
MIRT625508 PPAPDC1A phospholipid phosphatase 4 2 2
MIRT625573 ANKRD42 ankyrin repeat domain 42 2 2
MIRT626133 SNRNP48 small nuclear ribonucleoprotein U11/U12 subunit 48 2 2
MIRT626327 LRTOMT leucine rich transmembrane and O-methyltransferase domain containing 2 2
MIRT626765 CDC14B cell division cycle 14B 2 2
MIRT626798 CSE1L chromosome segregation 1 like 2 2
MIRT627212 ZC3H12B zinc finger CCCH-type containing 12B 2 2
MIRT627225 ZBTB8B zinc finger and BTB domain containing 8B 2 4
MIRT627256 XKR4 XK related 4 2 2
MIRT628190 GATSL2 cytosolic arginine sensor for mTORC1 subunit 2 2 2
MIRT628466 AHSA2 activator of HSP90 ATPase homolog 2 2 2
MIRT628627 CCT4 chaperonin containing TCP1 subunit 4 2 2
MIRT629040 KLLN killin, p53-regulated DNA replication inhibitor 2 2
MIRT630847 ACACB acetyl-CoA carboxylase beta 2 2
MIRT631721 RNASEH2B ribonuclease H2 subunit B 2 2
MIRT632264 USP1 ubiquitin specific peptidase 1 2 4
MIRT632571 POLQ DNA polymerase theta 2 2
MIRT633992 SLC35E2 solute carrier family 35 member E2 2 2
MIRT635211 ZNF286A zinc finger protein 286A 2 4
MIRT635249 ELOVL6 ELOVL fatty acid elongase 6 2 4
MIRT635261 FBXL20 F-box and leucine rich repeat protein 20 2 2
MIRT635283 GK5 glycerol kinase 5 (putative) 2 2
MIRT635663 DTX3L deltex E3 ubiquitin ligase 3L 2 2
MIRT636251 SEC63 SEC63 homolog, protein translocation regulator 2 2
MIRT636564 EPB41 erythrocyte membrane protein band 4.1 2 2
MIRT636814 TBC1D24 TBC1 domain family member 24 2 2
MIRT637358 ZNF460 zinc finger protein 460 2 2
MIRT637473 DEFB105B defensin beta 105B 2 4
MIRT637505 DEFB105A defensin beta 105A 2 4
MIRT637861 SC5D sterol-C5-desaturase 2 2
MIRT638080 ZNF652 zinc finger protein 652 2 2
MIRT638096 ZBTB8A zinc finger and BTB domain containing 8A 2 2
MIRT638174 TMED4 transmembrane p24 trafficking protein 4 2 2
MIRT638201 TAF13 TATA-box binding protein associated factor 13 2 2
MIRT638278 SH2B3 SH2B adaptor protein 3 2 2
MIRT638714 FUT11 fucosyltransferase 11 2 2
MIRT638852 CLMP CXADR like membrane protein 2 2
MIRT639815 TMED8 transmembrane p24 trafficking protein family member 8 2 2
MIRT640879 ENTPD1 ectonucleoside triphosphate diphosphohydrolase 1 2 2
MIRT640937 FAM129A family with sequence similarity 129 member A 2 2
MIRT640971 ORAI2 ORAI calcium release-activated calcium modulator 2 2 2
MIRT641642 GNAZ G protein subunit alpha z 2 2
MIRT641931 SLC25A16 solute carrier family 25 member 16 2 2
MIRT642136 CRY2 cryptochrome circadian clock 2 2 2
MIRT643199 JAK3 Janus kinase 3 2 2
MIRT643256 ZNF566 zinc finger protein 566 2 2
MIRT643378 TRIM16L tripartite motif containing 16 like 2 2
MIRT643683 AMER3 APC membrane recruitment protein 3 2 2
MIRT643728 MCMDC2 minichromosome maintenance domain containing 2 2 2
MIRT643949 CCDC141 coiled-coil domain containing 141 2 2
MIRT644915 SERF1B small EDRK-rich factor 1B 2 2
MIRT645163 NOL9 nucleolar protein 9 2 2
MIRT645547 PABPC1L2B poly(A) binding protein cytoplasmic 1 like 2B 2 2
MIRT645550 PABPC1L2A poly(A) binding protein cytoplasmic 1 like 2A 2 2
MIRT645572 TACR2 tachykinin receptor 2 2 2
MIRT646697 SERF1A small EDRK-rich factor 1A 2 2
MIRT647806 FRMD8 FERM domain containing 8 2 2
MIRT647903 CIRH1A UTP4, small subunit processome component 2 2
MIRT648978 ACAD8 acyl-CoA dehydrogenase family member 8 2 2
MIRT649907 SLFN12L schlafen family member 12 like 2 2
MIRT650224 SIGLEC9 sialic acid binding Ig like lectin 9 2 4
MIRT651880 UGGT1 UDP-glucose glycoprotein glucosyltransferase 1 2 2
MIRT651935 UBN1 ubinuclein 1 2 2
MIRT652839 TACO1 translational activator of cytochrome c oxidase I 2 2
MIRT652994 SUGT1 SGT1 homolog, MIS12 kinetochore complex assembly cochaperone 2 2
MIRT654800 PRICKLE1 prickle planar cell polarity protein 1 2 2
MIRT655591 OTUD7B OTU deubiquitinase 7B 2 2
MIRT658760 EIF4EBP2 eukaryotic translation initiation factor 4E binding protein 2 2 2
MIRT659358 CRKL CRK like proto-oncogene, adaptor protein 2 2
MIRT660717 AMER1 APC membrane recruitment protein 1 2 2
MIRT660737 ALG14 ALG14, UDP-N-acetylglucosaminyltransferase subunit 2 2
MIRT661088 TMEM145 transmembrane protein 145 2 2
MIRT661176 S1PR2 sphingosine-1-phosphate receptor 2 2 2
MIRT662005 ZNF445 zinc finger protein 445 2 2
MIRT662178 KIAA1210 KIAA1210 2 2
MIRT662270 OR51E2 olfactory receptor family 51 subfamily E member 2 2 2
MIRT663046 SLC16A4 solute carrier family 16 member 4 2 2
MIRT663476 POFUT2 protein O-fucosyltransferase 2 2 2
MIRT664039 RPL27A ribosomal protein L27a 2 2
MIRT664096 ZDHHC24 zinc finger DHHC-type containing 24 2 2
MIRT664109 FUT1 fucosyltransferase 1 (H blood group) 2 2
MIRT664317 CD209 CD209 molecule 2 2
MIRT664455 BBS5 Bardet-Biedl syndrome 5 2 2
MIRT664595 HSD17B12 hydroxysteroid 17-beta dehydrogenase 12 2 4
MIRT664694 DBF4 DBF4 zinc finger 2 2
MIRT665162 SF3A1 splicing factor 3a subunit 1 2 2
MIRT665214 RBM22 RNA binding motif protein 22 2 2
MIRT665254 ZNF286B zinc finger protein 286B 2 2
MIRT665268 ZFP69B ZFP69 zinc finger protein B 2 2
MIRT665606 TTC39A tetratricopeptide repeat domain 39A 2 2
MIRT665830 TIMELESS timeless circadian clock 2 2
MIRT666201 SMARCC1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin subfamily c member 1 2 2
MIRT666546 RNF115 ring finger protein 115 2 2
MIRT666602 REEP3 receptor accessory protein 3 2 2
MIRT666862 POU2F3 POU class 2 homeobox 3 2 4
MIRT666886 POLA2 DNA polymerase alpha 2, accessory subunit 2 2
MIRT667158 NRXN3 neurexin 3 2 2
MIRT667252 NEK9 NIMA related kinase 9 2 2
MIRT667419 MFSD2A major facilitator superfamily domain containing 2A 2 2
MIRT667434 METTL8 methyltransferase like 8 2 2
MIRT668023 HAUS3 HAUS augmin like complex subunit 3 2 2
MIRT668062 GPR75 G protein-coupled receptor 75 2 2
MIRT668070 GOSR1 golgi SNAP receptor complex member 1 2 2
MIRT668607 EHD4 EH domain containing 4 2 4
MIRT668694 DNAL1 dynein axonemal light chain 1 2 2
MIRT668782 DAAM1 dishevelled associated activator of morphogenesis 1 2 2
MIRT669037 CHEK1 checkpoint kinase 1 2 2
MIRT669044 CHAF1B chromatin assembly factor 1 subunit B 2 4
MIRT669156 CCNG1 cyclin G1 2 2
MIRT670090 ABCF3 ATP binding cassette subfamily F member 3 2 4
MIRT670206 SLC24A4 solute carrier family 24 member 4 2 2
MIRT672488 FUS FUS RNA binding protein 2 2
MIRT673830 SLC11A2 solute carrier family 11 member 2 2 2
MIRT675481 VEGFC vascular endothelial growth factor C 2 2
MIRT675634 HACE1 HECT domain and ankyrin repeat containing E3 ubiquitin protein ligase 1 2 2
MIRT677913 HIST1H2BN histone cluster 1 H2B family member n 2 2
MIRT678420 ANKRD36 ankyrin repeat domain 36 2 2
MIRT678626 OLFML2A olfactomedin like 2A 2 2
MIRT678791 NUPL2 nucleoporin like 2 2 2
MIRT679561 LIN9 lin-9 DREAM MuvB core complex component 2 2
MIRT680743 CA5B carbonic anhydrase 5B 2 2
MIRT682481 LIX1L limb and CNS expressed 1 like 2 4
MIRT682701 PSMD9 proteasome 26S subunit, non-ATPase 9 2 2
MIRT682759 MDM2 MDM2 proto-oncogene 2 2
MIRT682811 TMCO1 transmembrane and coiled-coil domains 1 2 2
MIRT682847 DNAJC28 DnaJ heat shock protein family (Hsp40) member C28 2 2
MIRT682896 XIAP X-linked inhibitor of apoptosis 2 2
MIRT682916 FAM73A mitoguardin 1 2 2
MIRT682935 ZNF292 zinc finger protein 292 2 2
MIRT682953 RPL12 ribosomal protein L12 2 2
MIRT682972 NF2 neurofibromin 2 2 2
MIRT683033 SUSD5 sushi domain containing 5 2 2
MIRT683081 A1BG alpha-1-B glycoprotein 2 2
MIRT683105 TIMM10B translocase of inner mitochondrial membrane 10B 2 2
MIRT686640 TMEM184C transmembrane protein 184C 2 2
MIRT687444 NR3C1 nuclear receptor subfamily 3 group C member 1 2 2
MIRT688401 EMC8 ER membrane protein complex subunit 8 2 2
MIRT688886 C3orf70 chromosome 3 open reading frame 70 2 2
MIRT689148 IRAK1BP1 interleukin 1 receptor associated kinase 1 binding protein 1 2 2
MIRT689234 RPS19 ribosomal protein S19 2 2
MIRT689306 C5AR2 complement component 5a receptor 2 2 2
MIRT689364 ZNF101 zinc finger protein 101 2 2
MIRT689498 SCARF1 scavenger receptor class F member 1 2 2
MIRT689655 RBM23 RNA binding motif protein 23 2 2
MIRT689897 SOD2 superoxide dismutase 2 2 2
MIRT690150 PPIL6 peptidylprolyl isomerase like 6 2 2
MIRT690601 C17orf105 chromosome 17 open reading frame 105 2 2
MIRT690805 FAHD1 fumarylacetoacetate hydrolase domain containing 1 2 2
MIRT690946 GLG1 golgi glycoprotein 1 2 2
MIRT691388 ATP13A4 ATPase 13A4 2 2
MIRT691408 DNA2 DNA replication helicase/nuclease 2 2 2
MIRT692175 LRRC3C leucine rich repeat containing 3C 2 2
MIRT692235 ALDH1B1 aldehyde dehydrogenase 1 family member B1 2 2
MIRT693283 GINM1 glycoprotein integral membrane 1 2 2
MIRT693439 TPGS1 tubulin polyglutamylase complex subunit 1 2 2
MIRT693460 HIST1H2AG histone cluster 1 H2A family member g 2 2
MIRT693768 ZNF383 zinc finger protein 383 2 2
MIRT694018 PPIL4 peptidylprolyl isomerase like 4 2 2
MIRT694236 ZNF749 zinc finger protein 749 2 2
MIRT694321 NLRP9 NLR family pyrin domain containing 9 2 2
MIRT694347 CHST6 carbohydrate sulfotransferase 6 2 2
MIRT694430 MCF2L2 MCF.2 cell line derived transforming sequence-like 2 2 2
MIRT695763 WDR35 WD repeat domain 35 2 2
MIRT696167 TIPIN TIMELESS interacting protein 2 2
MIRT696417 DOCK7 dedicator of cytokinesis 7 2 2
MIRT696543 C3 complement C3 2 2
MIRT696998 CCDC80 coiled-coil domain containing 80 2 2
MIRT697232 ZYG11A zyg-11 family member A, cell cycle regulator 2 2
MIRT697806 UBXN2A UBX domain protein 2A 2 2
MIRT697944 TVP23C trans-golgi network vesicle protein 23 homolog C 2 2
MIRT698161 TNFRSF13C TNF receptor superfamily member 13C 2 2
MIRT698778 STK4 serine/threonine kinase 4 2 2
MIRT700259 RBM12B RNA binding motif protein 12B 2 2
MIRT700970 PDK3 pyruvate dehydrogenase kinase 3 2 2
MIRT701251 NUP35 nucleoporin 35 2 2
MIRT701607 MYPN myopalladin 2 2
MIRT702457 KIAA1467 family with sequence similarity 234 member B 2 2
MIRT702613 ITPRIPL2 inositol 1,4,5-trisphosphate receptor interacting protein like 2 2 2
MIRT702691 IRGQ immunity related GTPase Q 2 2
MIRT702934 HMX3 H6 family homeobox 3 2 2
MIRT702991 HERPUD2 HERPUD family member 2 2 2
MIRT703148 GPR137C G protein-coupled receptor 137C 2 2
MIRT703980 EMC1 ER membrane protein complex subunit 1 2 2
MIRT704569 CLPX caseinolytic mitochondrial matrix peptidase chaperone subunit 2 2
MIRT705065 C4orf32 family with sequence similarity 241 member A 2 2
MIRT705447 ATL2 atlastin GTPase 2 2 2
MIRT705856 AFF3 AF4/FMR2 family member 3 2 2
MIRT705886 ADIPOR2 adiponectin receptor 2 2 2
MIRT714370 HP1BP3 heterochromatin protein 1 binding protein 3 2 2
MIRT715784 PHF12 PHD finger protein 12 2 2
MIRT715864 KIAA0101 PCNA clamp associated factor 2 2
MIRT715947 NUP93 nucleoporin 93 2 2
MIRT716132 THOC5 THO complex 5 2 2
MIRT717084 EBF4 early B-cell factor 4 2 2
MIRT725424 HNRNPA3 heterogeneous nuclear ribonucleoprotein A3 2 2
MIRT736091 GREM1 gremlin 1, DAN family BMP antagonist 3 0
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-4793 Dabrafenib 44462760 NSC764134 approved sensitive cell line (A375)
hsa-miR-4793-3p Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)
hsa-miR-4793-3p Doxorubicin 31703 NSC123127 approved resistant cell line (BAS)
hsa-miR-4793-3p Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)

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