SEdb 2.0
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  2. Super-enhancer search result of gene-based

Gene overview

Strategies/Algorithm: closest_active Ensembl ID: ENSG00000120149
Gene: MSX2 Gene type: protein_coding
Strand: + External links:
Genomic region: chr5:174724582-174730896 Genome Browser:

Super-enhancer search result of gene-based

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SE ID SE Region Sample ID Tissue type Biosample name SE rank Element Common SNP eQTL Risk SNP TFBS CRISPR Cas9 Gene
SE_02_043600054 chr5:174325381-174385055 Sample_02_0436 Kidney HEK293A_empty-vector_DMSO_6h 54 9 1847 27 7 132 0 HMP19,MSX2
SE_02_043500019 chr5:174325537-174387681 Sample_02_0435 Kidney HEK293A_WT-MEF2B_DMSO_6h 19 8 1918 32 8 133 0 HMP19,MSX2
SE_02_000800190 chr5:174354784-174387350 Sample_02_0008 Kidney 786-O_empty_vector 190 6 963 12 4 72 0 HMP19,MSX2
SE_02_043600428 chr5:174398547-174427481 Sample_02_0436 Kidney HEK293A_empty-vector_DMSO_6h 428 10 878 10 16 67 0 MSX2
SE_02_024000741 chr5:174402331-174431465 Sample_02_0240 Colon V429_2 741 5 878 11 14 88 0 MSX2
SE_02_032400204 chr5:174409273-174432574 Sample_02_0324 Colon SW48 204 2 687 8 9 90 0 MSX2
SE_02_033000986 chr5:174409555-174427510 Sample_02_0330 Endoderm MHG 986 5 515 7 7 62 0 MSX2
SE_02_002100367 chr5:174445615-174462166 Sample_02_0021 Colon V429 367 1 468 3 1 6 0 MSX2
SE_02_024000635 chr5:174445871-174462216 Sample_02_0240 Colon V429_2 635 7 462 3 1 5 0 MSX2
SE_02_019700186 chr5:174452954-174460365 Sample_02_0197 Stomach SNU1750 186 4 219 1 0 1 0 MSX2
SE_02_025700300 chr5:174479549-174533498 Sample_02_0257 Endometrioid endometrioid_adenocarcinoma_TumorA 300 8 1606 44 4 104 0 MSX2
SE_02_068500319 chr5:174479792-174515235 Sample_02_0685 Lung NCI-H1048_no infection 319 5 1058 22 2 63 0 LINC01411,MSX2
SE_02_024200341 chr5:174481478-174537019 Sample_02_0242 Colon V481 341 5 1625 48 5 112 0 MSX2
SE_02_129000325 chr5:174481702-174516064 Sample_02_1290 Lung NCI-H69_p8-15 325 11 1014 22 2 76 0 LINC01411,MSX2
SE_02_007000046 chr5:174482167-174533156 Sample_02_0070 Lung NCI-H69_DMSO 46 14 1521 44 4 104 0 MSX2
SE_02_008600813 chr5:174490472-174537778 Sample_02_0086 Pancreas CAPAN1 813 5 1381 52 5 99 0 MSX2
SE_02_035400823 chr5:174491262-174535669 Sample_02_0354 Colon Colo205 823 9 1304 47 5 94 0 MSX2
SE_01_006800139 chr5:174491582-174505910 Sample_01_0068 Prostate: derived from metastatic site: vertebral metastasis VCaP 139 2 415 12 1 35 0 MSX2
SE_02_024000168 chr5:174492736-174572865 Sample_02_0240 Colon V429_2 168 16 2390 111 14 146 0 MSX2
SE_02_002100315 chr5:174492880-174551389 Sample_02_0021 Colon V429 315 6 1704 82 8 111 0 MSX2
SE_02_043500200 chr5:174500861-174536614 Sample_02_0435 Kidney HEK293A_WT-MEF2B_DMSO_6h 200 6 1049 42 4 96 0 MSX2
SE_02_043600147 chr5:174500931-174535301 Sample_02_0436 Kidney HEK293A_empty-vector_DMSO_6h 147 12 1015 41 4 93 0 MSX2
SE_02_032400292 chr5:174501792-174535290 Sample_02_0324 Colon SW48 292 4 991 40 4 93 0 MSX2
SE_02_148100703 chr5:174501843-174536421 Sample_02_1481 Bone MIC 703 9 1015 40 4 96 0 LINC01411,MSX2
SE_02_128000814 chr5:174501843-174536957 Sample_02_1280 Bone Mesenchymal stem cells_SPC_mutation_ EF1 814 8 1027 40 4 96 0 LINC01411,MSX2
SE_02_070900257 chr5:174502343-174536613 Sample_02_0709 Pancreas hT85_organoid 257 10 1000 39 4 96 0 LINC01411,MSX2
SE_02_072200420 chr5:174502764-174567643 Sample_02_0722 Pancreas PATU8988S_TP63dN_DOX 420 16 1921 89 13 126 0 LINC01411,MSX2
SE_02_020200064 chr5:174502993-174536682 Sample_02_0202 Stomach YCC7 64 13 982 38 4 96 0 MSX2
SE_02_045300083 chr5:174503120-174585571 Sample_02_0453 Neuroblastoma SJNB3 83 14 2403 105 14 174 0 LINC01411,MSX2
SE_02_071000370 chr5:174503235-174536243 Sample_02_0710 Pancreas hN34_organoid 370 11 966 37 4 96 0 LINC01411,MSX2
SE_02_154800420 chr5:174518167-174582247 Sample_02_1548 Gastrointestinal Stromal GIST-226 420 14 1879 90 13 109 0 LINC01411,MSX2
SE_02_061001455 chr5:174531320-174537378 Sample_02_0610 Liposarcoma MLS 1765-92 1455 3 157 8 2 26 0 MSX2
SE_02_021101285 chr5:174550562-174581966 Sample_02_0211 Lung MRC-5_NFD_1DPT 1285 6 938 32 7 60 0 MSX2
SE_02_143500014 chr5:174555398-174636737 Sample_02_1435 Trophoblast trophoblast stem cells_MSX2_KD 14 11 2381 33 11 163 0 MSX2
SE_02_136000394 chr5:174557596-174619690 Sample_02_1360 Bladder UMUC1_sonic_pSIN-puro_EV 394 22 1798 29 11 138 0 MSX2
SE_02_136201042 chr5:174557601-174618897 Sample_02_1362 Bladder UMUC1_sonic_pSIN-puro H1146A/E1148A-mutant UTX 1042 16 1773 29 11 138 0 MSX2
SE_02_136101113 chr5:174558135-174618939 Sample_02_1361 Bladder UMUC1_sonic_pSIN-puro_WTUTX 1113 19 1764 29 11 138 0 MSX2
SE_02_008600368 chr5:174562951-174620827 Sample_02_0086 Pancreas CAPAN1 368 6 1666 26 9 140 0 MSX2
SE_02_082601435 chr5:174572967-174617814 Sample_02_0826 Stomach gastric tumor 1435 14 1237 7 8 91 0 MSX2
SE_02_143400129 chr5:174582196-174636486 Sample_02_1434 Trophoblast trophoblast stem cells 129 7 1587 6 7 101 0 MSX2
SE_02_020200282 chr5:174589245-174619853 Sample_02_0202 Stomach YCC7 282 12 872 1 5 69 0 MSX2
SE_02_032200439 chr5:174594749-174644967 Sample_02_0322 Colon Caco-2 439 7 1493 5 7 83 0 MSX2
SE_00_005300755 chr5:174605926-174627054 Sample_00_0053 Embryo trophoblast cell originated from H1 755 13 596 1 3 65 0 MSX2
SE_02_143500054 chr5:174679974-174738004 Sample_02_1435 Trophoblast trophoblast stem cells_MSX2_KD 54 10 1638 14 5 301 445 MSX2,MIR4634
SE_00_005300033 chr5:174680174-174737849 Sample_00_0053 Embryo trophoblast cell originated from H1 33 26 1630 14 5 299 445 MSX2,MIR4634
SE_02_033000105 chr5:174680280-174736880 Sample_02_0330 Endoderm MHG 105 9 1597 14 5 293 445 MSX2
SE_02_109300538 chr5:174690092-174737870 Sample_02_1093 Mammary gland T47D_shCtrl_shRING1B_24hr 538 13 1375 11 5 285 445 MSX2,MIR4634
SE_02_109200497 chr5:174690109-174737897 Sample_02_1092 Mammary gland T47D_shCtrl_24hr 497 14 1373 11 5 285 445 MSX2,MIR4634
SE_02_108600494 chr5:174690267-174737873 Sample_02_1086 Mammary gland T47D_shCtrl_0hr 494 9 1368 11 5 285 445 MSX2,MIR4634
SE_02_007900197 chr5:174693727-174737159 Sample_02_0079 Mammary gland T-47D_1 197 9 1260 11 4 254 445 MSX2
SE_02_067201348 chr5:174708504-174736148 Sample_02_0672 Endometrium endometrium cancer_DSG 1348 14 783 10 3 233 445 MSX2,MIR4634
SE_02_045300105 chr5:174712708-174755367 Sample_02_0453 Neuroblastoma SJNB3 105 5 1211 11 2 263 546 MIR4634,MSX2
SE_02_075300209 chr5:174712770-174736190 Sample_02_0753 Embryo ES-derived progenitors_FG type 209 8 636 8 2 228 445 MSX2,MIR4634
SE_02_143400528 chr5:174713003-174737294 Sample_02_1434 Trophoblast trophoblast stem cells 528 5 662 8 2 233 445 MSX2,MIR4634
SE_02_069700250 chr5:174715494-174736071 Sample_02_0697 Lung NCI-H1048-cas9_sgHROSA 250 10 545 6 2 219 445 MSX2,MIR4634
SE_02_069800178 chr5:174717884-174749163 Sample_02_0698 Lung NCI-H1048-cas9_sgPOU2F3 178 11 885 7 2 247 445 MSX2,MIR4634
SE_02_043500268 chr5:174718672-174752465 Sample_02_0435 Kidney HEK293A_WT-MEF2B_DMSO_6h 268 4 956 7 2 246 546 MSX2
SE_02_043600446 chr5:174719660-174738230 Sample_02_0436 Kidney HEK293A_empty-vector_DMSO_6h 446 4 518 4 2 223 445 MSX2
SE_02_152700356 chr5:174719963-174736562 Sample_02_1527 Embryo naive embryonic stem cell 356 10 465 4 2 213 445 MSX2,MIR4634
SE_02_032400080 chr5:174723351-174754405 Sample_02_0324 Colon SW48 80 2 913 7 2 212 546 MSX2
SE_00_001000586 chr5:174723727-174736801 Sample_00_0010 Embryo endodermal-cell 586 3 383 4 2 179 445 MSX2
SE_02_018800063 chr5:174826099-174837923 Sample_02_0188 Stomach MKN1 63 6 348 0 0 0 0 MSX2
Genomic distribution of SEs associated with MSX2
Genome Browser

The strength of the tissue affected by the gene

Expression of MSX2

Cell line (ENCODE) Primary cell (ENCODE)Tissue (NCBI) Normal tissue (GTEx) Cell line (CCLE)