Table 2.
List of the strongly correlated lncRNAs to FOXA2 with Pearson correlation (PC) > 0.3 in the pancreatic islets derived from FOXA2−/−iPSCs compared with those derived from WT-iPSCs (p < 0.05)
| lncRNA | PC | Log2-FC | P-value | Other TFs correlated to the lncRNA |
|---|---|---|---|---|
| Downregulated | ||||
| LINC00543 | 0.636** | -1.2969645 | 0.00158635 | ABCG1, ALDH1A3,CHGA,CHGB, GCG, HES1, HES6, KLF4, MAPK3, NKX2-2, NKX6-1, PDX1, STX1A, SUSD4, TRPM4 |
| AL390719.2 | 0.587** | -1.9211931 | 0.00881401 | ABCC8, ABCG1, ALDH1A3, CHGB, DLL1, DLL4, FFAR1, HES1, HES6, KLF4, MAPK3, NKX2-2, NKX6-1, PDX1, STX1A, SUSD4, TRPM4,UCN3 |
| AC008556.1 | 0.546** | -1.2948708 | 0.00696662 | ALDH1A3, DLL4, HES1, HES6, MAPK3, PDX1, PTF1A, TRPM4 |
| MEG3 | 0.518** | -1.6955374 | 8.0682E-05 | ABCG1, ALDH1A3, DLL1, DLL4, FFAR1, HES1, INSM1, MAPK3, NKX6-1, PDX1, PTF1A, RFX6, STX1A, TRPM4, UCN3 |
| AC006333.1 | 0.517** | -1.0062851 | 0.03861764 | ABCC8, ABCG1, ALDH1A3, CACNA1A, CAMK2B, CHGA, CHGB, DLL1, DLL4, FFAR1, GCG, HES1, INSM1, KLF4, MAPK3, NEUROD1, NKX2-2, NKX6-1, PCLO, PDX1, PLCB4, RFX6, STX1A, SUSD4, TRPM4, UCN3 |
| RPARP-AS1 | 0.497** | -1.1768327 | 0.00054477 | ABCC8, ABCG1, ALDH1A3, ARX, CACNA1A, CAMK2B, CHGA, CHGB, DLL1, DLL4, FFAR1, GCG, HES1, HES6, INSM1, KLF4, MAPK3, NEUROD1, NKX2-2, NKX6-1, PDX1, PLCB4, RFX6, STX1A, SUSD4, TRPM4, UCN3 |
| SLC25A25-AS1 | 0.484** | -1.0534922 | 0.00894033 | ABCC8, ABCG1, ALDH1A3, CACNA1A, CAMK2B, CHGA, CHGB, DLL1, DLL4, FFAR1, HES1, INSM1, MAPK3, NEUROD1, NKX6-1, PDX1, PLCB4, PTF1A, RFX6, STX1A, TRPM4, UCN3 |
| PDCD4-AS1 | 0.484** | -1.1102287 | 0.00770037 | ABCG1, ALDH1A3, DLL1, DLL4, HES1, KLF4, MAPK3, PDX1, STX1A, SUSD4, TRPM4 |
| CD27-AS1 | 0.470** | -1.1406858 | 0.02874059 | ABCC8, ABCG1, ADCY7, ALDH1A3, CACNA1A, CAMK2B, CHGA, CHGB, DLL1, DLL4, FFAR1, HES1, INSM1, KLF4, MAPK3, NEUROD1, NKX2-2, NKX6-1, PCLO, PDX1, PLCB4, RFX6, STX1A, SUSD4, TRPM4, UCN3 |
| AC108488.1 | 0.466** | -1.0384066 | 0.04593561 | ABCC8, ABCG1, ALDH1A3, CACNA1A, CAMK2B, CHGA, DLL1, DLL4, FFAR1, HES1, INSM1, KLF4, MAPK3, NEUROD1, NKX2-2, NKX6-1, PDX1, PLCB4, RFX6, STX1A, SUSD4, TRPM4, UCN3 |
| LINC01770 | 0.463** | -1.4111367 | 0.00119341 | ABCG1, ADCY7, ALDH1A3, DLL1, DLL4, HES1, MAPK3, NKX6-1, PDX1, PTF1A, STX1A, TRPM4, UCN3 |
| H19 | 0.459** | -1.0508881 | 0.00682397 | ABCG1, ALDH1A3, DLL1, DLL4, HES1, MAPK3, NKX6-1, PDX1, PTF1A, TRPM4 |
| AL035661.1 | 0.452** | -2.1081528 | 0.00237583 | FOXA2, ALDH1A3, KLF4, MAPK3, PDX1, SUSD4 |
| AC099343.4 | 0.443** | -1.0656839 | 0.02841831 | ABCG1, ADCY7, ALDH1A3, CACNA1A, CHGA, DLL1, DLL4, FFAR1, HES1, KLF4, MAPK3, NKX6-1, PCLO, PDX1, PLCB4, PTF1A, RFX6, STX1A, TRPM4, UCN3 |
| ZNF667-AS1 | 0.436** | -2.7175609 | 0.00021026 | ABCC8, ABCG1, ADCY7, ALDH1A3, ARX, CACNA1A, CAMK2B, CHGA, CHGB, DLL1, DLL4, FFAR1, GCG, HES1, INSM1, MAPK3, NEUROD1, NKX2-2, NKX6-1, PCLO, PDX1, PLCB4, RFX6, STX1A, SUSD4, TRPM4, UCN3 |
| AL158206.1 | 0.434** | -1.2478764 | 0.041127 | ABCG1, ALDH1A3, DLL1, DLL4, HES6, KLF4, MAPK3, PDX1, STX1A, SUSD4, TRPM4 |
| SEMA3B-AS1 | 0.434** | -1.2944753 | 0.00843693 | ALDH1A3, DLL1, HES1, KLF4, MAPK3, PDX1, SUSD4, TRPM4 |
| ZNRD2-AS1 | 0.424** | -1.0543007 | 0.00266566 | ABCC8, ABCG1, ADCY7, ALDH1A3, CACNA1A, CAMK2B, CHGA, CHGB, DLL1, DLL4, FFAR1, GCG, HES1, INSM1, MAPK3, NEUROD1, NKX6-1, PDX1, PTF1A, RFX6, STX1A, TRPM4, UCN3 |
| LINC00482 | 0.414** | -1.0932474 | 0.00573003 | ABCG1, ALDH1A3, CACNA1A, CAMK2B, DLL1, DLL4, HES1, MAPK3, NKX6-1, PDX1, PLCB4, PTF1A, STX1A, TRPM4, UCN3 |
| AL450998.2 | 0.413** | -1.0090053 | 0.00579397 | ABCC8, ABCG1, ADCY7, ALDH1A3, CACNA1A, CAMK2B, CHGA, CHGB, DLL4, FFAR1, GCG, HES1, INSM1, MAPK3, NEUROD1, NKX2-2, NKX6-1, PDX1, PLCB4, RFX6, STX1A, SUSD4, TRPM4, UCN3 |
| AC234582.1 | 0.397** | -1.0557378 | 0.01377192 | ABCC8, ABCG1, ADCY7, ALDH1A3, CACNA1A, CAMK2B, CHGA, DLL4, HES1, MAPK3, NKX6-1, PDX1, RFX6, STX1A, TRPM4, UCN3 |
| KDM7A-DT | 0.394** | -1.0891695 | 0.03269201 | ABCG1, ALDH1A3, ARX, CAMK2B, HES1, INSM1, KLF4, MAPK3, NKX6-1, PCLO, PDX1, PLCB4, RFX6, STX1A, TRPM4, UCN3 |
| AC006942.1 | 0.383** | -1.1682946 | 0.03467244 | MAPK3, NKX6-1, PDX1, TRPM4 |
| FAM201A | 0.377** | -1.0741873 | 0.00589022 | ABCC8, ABCG1, ADCY7, ALDH1A3, CAMK2B, DLL4, HES1, MAPK3, NKX6-1, PDX1, RFX6, STX1A, SUSD4, TRPM4, UCN3 |
| AC097639.1 | 0.377** | -1.5418811 | 0.01047655 | ABCC8, ABCG1, ALDH1A3, CHGB, DLL1, KLF4, MAPK3, NKX6-1, PDX1, SUSD4, TRPM4 |
| U73166.1 | 0.373** | -1.5707679 | 0.00789093 | ABCG1, ALDH1A3, DLL1, DLL4, HES1, MAPK3, NKX6-1, PDX1, STX1A, SUSD4, TRPM4 |
| SEMA3F-AS1 | 0.372** | -1.0500171 | 0.0079954 | ABCG1, DLL1, DLL4, HES1, KLF4, MAPK3, PDX1, STX1A, SUSD4, TRPM4 |
| MNX1-AS2 | 0.368** | -1.1191168 | 0.01121461 | ABCC8, ABCG1, CACNA1A, CAMK2B, DLL1, DLL4, FFAR1, HES1, HES6, MAPK3, NKX6-1, PDX1, STX1A, TRPM4 |
| KMT2E-AS1 | 0.361** | -1.0672028 | 0.01315702 | ABCC8, ABCG1, CAMK2B, CHGA, DLL4, FFAR1, HES1, MAPK3, NKX6-1, PDX1, PTF1A, STX1A, TRPM4, UCN3 |
| AC011462.4 | 0.355** | -1.4430689 | 0.00031872 | ABCC8, ABCG1, ALDH1A3, CAMK2B, DLL1, DLL4, FFAR1, HES1, MAPK3, NKX6-1, PDX1, PTF1A, RFX6, STX1A, TRPM4, UCN3 |
| ZNF790-AS1 | 0.353** | -1.3528114 | 0.00145091 | ABCC8, ABCG1, ALDH1A3, ARX, CACNA1A, CAMK2B, CHGA, DLL1, DLL4, FFAR1, HES1, INSM1, KLF4, MAPK3, NEUROD1, NKX6-1, PCLO, PDX1, PLCB4, RFX6, STX1A, TRPM4, UCN3 |
| AC006435.2 | 0.350** | -1.2727405 | 0.04433202 | ABCC8, ABCG1, ADCY7, ALDH1A3, CACNA1A, CAMK2B, CHGA, CHGB, DLL1, DLL4, FFAR1, GCG, HES1, INSM1, MAPK3, NEUROD1, NKX2-2, NKX6-1, PCLO, PDX1, PLCB4, RFX6, STX1A, TRPM4, UCN3 |
| LINC00261 | 0.347** | -1.6508816 | 9.7549E-05 | CACNA1A, NKX6-1, PDX1, PLCB4 |
| AC010883.1 | 0.335** | -1.3060496 | 0.03125186 | ABCG1, ALDH1A3, CAMK2B, DLL4, HES1, MAPK3, NKX6-1, PDX1, PLCB4, STX1A, TRPM4 |
| AC091563.1 | 0.335** | -1.8529012 | 0.00086475 | ABCC8, ABCG1, ADCY1, ALDH1A3, ARX, CACNA1A, CAMK2B, CHGA, DLL4, FFAR1, HES1, INSM1, MAPK3, NEUROD1, NKX6-1, PCLO, PDX1, PLCB4, RFX6, STX1A, TRPM4, UCN3 |
| AL590617.2 | 0.322** | -1.1898488 | 0.00069819 | ABCC8, ABCG1, ADCY7, CACNA1A, CAMK2B, CHGA, DLL4, FFAR1, GCG, HES1, HES6, INSM1, MAPK3, NEUROD1, NKX2-2, NKX6-1, PCLO, PDX1, PLCB4, RFX6, STX1A, TRPM4, UCN3 |
| AC090510.3 | 0.319** | -1.7243884 | 0.00167289 | ABCC8, ABCG1, CACNA1A, CAMK2B, CHGA, DLL1, DLL4, FFAR1, HES1, INSM1, MAPK3, NKX6-1, PCLO, PDX1, PLCB4, RFX6, STX1A, TRPM4, UCN3 |
| AC110285.2 | 0.313** | -1.5091246 | 0.00943956 | ABCC8, KLF4, MAPK3, NKX6-1, PDX1, STX1A, SUSD4, TRPM4 |
| MIR210HG | 0.306** | -1.3568307 | 0.0139073 | ABCC8, ABCG1, ALDH1A3, ARX, CACNA1A, CAMK2B, CHGA, DLL1, DLL4, FFAR1, HES1, INSM1, KLF4, MAPK3, NEUROD1, NKX6-1, PCLO, PDX1, PLCB4, RFX6, STX1A, TRPM4, UCN3 |
| AC016394.2 | 0.305** | -1.4490727 | 0.03173317 | ABCC8, ABCG1, CACNA1A, CAMK2B, CHGA, DLL4, FFAR1, HES1, INSM1, MAPK3, NKX6-1, PDX1, PLCB4, RFX6, STX1A, TRPM4, UCN3 |
| AC005840.4 | 0.303** | -1.2066464 | 0.00699161 | ABCG1, ALDH1A3, DLL1, DLL4, HES6, KLF4, MAPK3, PDX1, STX1A, SUSD4, TRPM4 |
| AC107464.3 | 0.303** | -1.4874602 | 0.03289592 | ABCC8, ABCG1, ARX, CACNA1A, CAMK2B, DLL4, HES1, MAPK3, NKX6-1, PCLO, PDX1, PLCB4, RFX6, STX1A, TRPM4, UCN3 |
| Upregulated | ||||
| B3GALT5-AS1 | > 0.30** | 2.64437 | 7.75E-05 | ATP1B1, ATP1B2, FXYD2, SST, HHEX, ABCC2, SOX9, BMP4, WNT6, MYC |
| AC087477.2 | > 0.30** | 2.21789 | 0.000124 | WNT6, LEF1 |
| AC027031.2 | > 0.30** | 1.90392 | 0.027906 | CPA4 |
| DNM3OS | > 0.30** | 1.89734 | 0.000172 | ATP1B1, ATP1B2, FXYD2, PLA2G2A, KCNQ1, HHEX, SOX9, BMP4, DPP4 |
| AC124067.4 | > 0.30** | 1.79024 | 0.000165 | WNT6, LEF1 |
| GATA2-AS1 | > 0.30** | 1.72026 | 0.004055 | ATP1B1, CPA4, PLA2G2A, KCNQ1, HHEX, SOX9 |
| AC111000.4 | > 0.30** | 1.7032 | 0.000423 | ABCC2 |
| SPATA8 | > 0.30** | 1.54558 | 0.00012 | ABCC2 |
| AL049775.1 | > 0.30** | 1.27009 | 0.004693 | KCNQ1, HHEX, SOX9 |
| LINC00648 | > 0.30** | 1.16137 | 0.046814 | ABCC2, WNT6 |
| AC080038.2 | > 0.30** | 1.10511 | 0.032125 | ATP1B1, ATP1B2, FXYD2, SST, HHEX, BMP4 |
| HOXA-AS2 | > 0.30** | 1.03006 | 0.000488 | ABCC2, WNT6 |
**indicates a highly significant correlation