 lncRNA targets the enhancer region and positively regulates the gene expression. |
| Only predicted by TDF | | CHTOP,LSM5,PHF1,RBM6,KLF9,ZBED5,HMGN3,EIF3G,THYN1,DEAF1,DDX49,THAP4,CENPT,ZBTB4,NOL9,RBM4,THOC6,DZIP3,RBM42,FXR2,RBM5,IRF3,CIRBP,RC3H1,SUGP1,LSM2,MZF1,ZNF48,SGSM2,NRF1,DBP,RBM4B,RBPMS,TRUB2,PSPC1,BAZ2B,RXRB,TIGD1,RFX2,ERAL1,RNPS1,DDX51,MBD3,ZBTB3,RBM8A,SMYD3,THAP3,CWC15,SURF6,NFIB,CENPB,NFIA,NR4A3,HINFP,XPA,FIZ1,THOC7,PPIE,ZFP3,SF3B6,NELFE,ZNF83,EGR3,USF1,CXXC1,ATF3,SNRPA,ZNF34,SAFB2,PATZ1,LSM3,ZNF18,ZNF25,PCGF2,CREM | | Exist in public source | | NA |
| lncRNA targets the promoter region and positively regulates the gene expression. |
| Only predicted by TDF | | ZNF48,NOL9,MZF1,EIF3G,LSM2,RBM5,E4F1,THAP4,SRF,FXR2,SRP14,ZNF83,RBM42,DHX30,RBM6,NFIA,THAP3,CIRBP | | Exist in public source | | NA |
| lncRNA targets the promoter region and negatively regulates the gene expression. |
| lncRNA targets the 3'UTR region and negatively regulates the mRNA. |
| Only predicted by lncTar | | ZNF28,DKC1,PPARA | | Exist in public source | | NA |
| lncRNA targets the skipped exon region. | | -lncRNA and exonskipping events are positively correlated. |
| LncRNA Ensembl ID | LncRNA ENST ID | Exon ID | Skipped Exon | dG | ndG | Gene name with skipped exon | TransID with skipped exon | ORF mutation |
| -lncRNA and exonskipping events are negatively correlated. |
 |
| LncRNA Ensembl ID | LncRNA ENST ID | Exon ID | Skipped Exon | dG | ndG | Gene name with skipped exon | TransID with skipped exon | LOF | | ENSG00000263050 | ENST00000572790 | exon_skip_14151 | chr1:171790451-171790616 | -18.72 | -0.1232 | EEF1AKNMT | ENST00000367737 | In-frame | | ENSG00000263050 | ENST00000572790 | exon_skip_87733 | chr12:120571190-120571291 | -10.72 | -0.1468 | RNF10 | ENST00000325954 | Frame-shift | | ENSG00000263050 | ENST00000572790 | exon_skip_103741 | chr13:49669776-49669846 | -11.74 | -0.1834 | EBPL | ENST00000242827 | Frame-shift | | ENSG00000263050 | ENST00000572790 | exon_skip_111863 | chr14:23565815-23565892 | -11.54 | -0.1625 | AP1G2 | ENST00000308724,ENST00000397120 | Frame-shift | | ENSG00000263050 | ENST00000572790 | exon_skip_114365 | chr14:74290026-74290118 | -14.87 | -0.1906 | ABCD4 | ENST00000356924 | Frame-shift | | ENSG00000263050 | ENST00000572790 | exon_skip_319223 | chr19:43526200-43526349 | -19.72 | -0.1429 | ETHE1 | ENST00000292147 | Frame-shift | | ENSG00000263050 | ENST00000572790 | exon_skip_324294 | chr2:27774423-27774530 | -11.17 | -0.2031 | MRPL33 | ENST00000296102 | Frame-shift | | ENSG00000263050 | ENST00000572790 | exon_skip_331506 | chr2:181920596-181920662 | -7.02 | -0.1276 | ITPRID2 | ENST00000431877 | In-frame | | ENSG00000263050 | ENST00000572790 | exon_skip_333962 | chr2:219247112-219247246 | -18.83 | -0.1793 | STK16 | ENST00000396738,ENST00000409638 | Frame-shift | | ENSG00000263050 | ENST00000572790 | exon_skip_339830 | chr2:69423581-69423717 | -14.23 | -0.1694 | NFU1 | ENST00000410022 | Frame-shift | | ENSG00000263050 | ENST00000572790 | exon_skip_374375 | chr3:49675182-49675309 | -15.58 | -0.1513 | APEH | ENST00000296456 | Frame-shift | | ENSG00000263050 | ENST00000572790 | exon_skip_481821 | chr8:22067084-22067159 | -11.96 | -0.2848 | DMTN | ENST00000265800,ENST00000358242,ENST00000432128,ENST00000523266 | In-frame | | ENSG00000263050 | ENST00000572790 | exon_skip_148110 | chr17:4892401-4892512 | -17.61 | -0.1914 | MINK1 | ENST00000355280 | In-frame | | ENSG00000263050 | ENST00000572790 | exon_skip_382439 | chr3:38126161-38126341 | -22.64 | -0.1415 | ACAA1 | ENST00000333167 | In-frame | | ENSG00000263050 | ENST00000572790 | exon_skip_480774 | chr7:156688029-156688191 | -15.97 | -0.1011 | LMBR1 | ENST00000353442 | In-frame | | ENSG00000263050 | ENST00000572790 | exon_skip_114200 | chr14:73279280-73279424 | -19.54 | -0.1745 | NUMB | ENST00000355058,ENST00000555238 | In-frame | | ENSG00000263050 | ENST00000572790 | exon_skip_11029 | chr1:154989559-154989707 | -19.58 | -0.1764 | FLAD1 | ENST00000292180 | Frame-shift | | ENSG00000263050 | ENST00000572790 | exon_skip_41841 | chr10:68756272-68756483 | -17.88 | -0.1071 | CCAR1 | ENST00000265872 | Frame-shift | | ENSG00000263050 | ENST00000572790 | exon_skip_153767 | chr17:48057031-48057121 | -15.69 | -0.1763 | NFE2L1 | ENST00000362042 | In-frame |
| lncRNA targets by miRNA. |
| LncRNA Ensembl ID | miRNA ID | LncRNA ENST ID | Binding site in lncRNA | Score | Energy | Align Len | Public source | | ENSG00000263050 | hsa-mir-378a | ENST00000572790 | chr17:2043476-2043530 | 167.00 | -51.39 | 60 | NA | | ENSG00000263050 | hsa-mir-378a | ENST00000572790 | chr17:2043767-2043841 | 142.00 | -63.03 | 73 | NA | | ENSG00000263050 | hsa-mir-378a | ENST00000572790 | chr17:2043595-2043669 | 141.00 | -70.16 | 66 | NA |
| RNA A-to-I editing events in lncRNA. |
| LncRNAediting ID | LncRNA Ensembl ID | Chromosome | Editing Position | Strand | Gene Type | Gene Name | Transcript ID | Transcript Type | Transcript Name |
| Edited-associated DElncRNAs in cancer. |
| LncRNA Ensembl ID | LncRNA Index | Cancer Type | Chr_Postion_Strand | AVE1 | AVE2 | log2FC | W-value | P-value | Adjc.p-value | Change |
| Correlation between RNA A-to-I editing events's frequecy and lncRNA expression. |
| LncRNA Ensembl ID | LncRNA Index | Correlation | P-value | Adjc.p-value |
| Cis-expression quantitative trait loci(cis-eQTL) of lncRNA. |
| LncRNA Ensembl ID | LncRNA Name | SNP info | Number of Positive corelated Cancer | Positive corelated Cancer | Number of Negative corelated Cancer | Negative corelated Cancer |
| lncRNA regulates differentially expressed genes by function as enhancer. |
| LncRNA Ensembl ID | PC Gene ID | PC Gene Name | Positive correlated cancers | Cancer with PC gene up-regulation | Cancer with PC gene down-regulation |
| LncRNA-TF complex positively regulates the gene expression by target promoter region (#cancer types with positive correlation >= 5). |
| lncRNA ID | TF ID | TF Name | PCgene ID | PCgene Name | Number of Cancer | Canaer Types | | ENSG00000263050 | ENSG00000112511 | PHF1 | ENSG00000099326 | MZF1 | 6 | CHOL,HNSC,KIRP,PAAD,TGCT,THCA | | ENSG00000263050 | ENSG00000154957 | ZNF18 | ENSG00000099326 | MZF1 | 5 | CHOL,HNSC,KICH,KIRP,PAAD | | ENSG00000263050 | ENSG00000112511 | PHF1 | ENSG00000003756 | RBM5 | 6 | BRCA,CHOL,KIRC,KIRP,LGG,PAAD | | ENSG00000263050 | ENSG00000196378 | ZNF34 | ENSG00000003756 | RBM5 | 5 | KICH,KIRC,KIRP,LGG,PAAD | | ENSG00000263050 | ENSG00000112511 | PHF1 | ENSG00000167967 | E4F1 | 5 | CHOL,HNSC,KIRP,LGG,THCA | | ENSG00000263050 | ENSG00000174282 | ZBTB4 | ENSG00000129245 | FXR2 | 5 | CHOL,KICH,KIRP,PAAD,READ | | ENSG00000263050 | ENSG00000112511 | PHF1 | ENSG00000004534 | RBM6 | 5 | BRCA,CHOL,KIRC,KIRP,LGG | | ENSG00000263050 | ENSG00000112511 | PHF1 | ENSG00000041988 | THAP3 | 6 | CHOL,DLBC,HNSC,KIRP,PAAD,THCA | | ENSG00000263050 | ENSG00000125817 | CENPB | ENSG00000041988 | THAP3 | 5 | CHOL,DLBC,TGCT,THCA,THYM | | ENSG00000263050 | ENSG00000099326 | MZF1 | ENSG00000099622 | CIRBP | 5 | CHOL,HNSC,KIRP,PAAD,TGCT | | ENSG00000263050 | ENSG00000112511 | PHF1 | ENSG00000099622 | CIRBP | 10 | BRCA,CHOL,DLBC,HNSC,KIRC,KIRP,LGG,PAAD,TGCT,THCA | | ENSG00000263050 | ENSG00000130254 | SAFB2 | ENSG00000099622 | CIRBP | 6 | CHOL,HNSC,KIRC,KIRP,MESO,PAAD |
| LncRNA-TF complex negatively regulates the gene expression by target promoter region (#cancer types with negative correlation >= 5). |
| lncRNA ID | TF ID | TF Name | PCgene ID | PCgene Name | Number of Cancer | Canaer Types |
| LncRNA-RBP complex positively regulates the exon skippping events by target skipped eoxon region. |
| LncRNA Ensembl ID | RBP ID | RBP Gene Name | Exon Skipping ID | Skipped Exon | EX Gene Name | EX Affected TransID | ORF_anno | Cancer Type |
| LncRNA-RBP complex negatively regulates the exon skippping events by target skipped eoxon region. |
| LncRNA Ensembl ID | RBP ID | RBP Gene Name | Exon Skipping ID | Skipped Exon | EX Gene Name | EX Affected TransID | ORF_anno | Cancer Type |
| lncRNA regulates differential expressed mRNA by directly targeting 3' UTR region. |
| LncRNA Ensembl ID | LncRNA ENST ID | PC Gene Name | PC Gene ID | PC ENST ID | dG | nDG | Cancer with PC gene up-regulation | Cancer with PC gene Down-regulation |
| lncRNA regulates mRNA by competing the miRNA binding site with mRNA. |
| LncRNA Ensembl ID | lncRNA-miRNA-mRNA | Cancer Types | | ENSG00000263050 | RP11-667K14.3,hsa-mir-378a,DXO | TGCT,CHOL,ACC,PAAD,KIRP | | ENSG00000263050 | RP11-667K14.3,hsa-mir-378a,SNAPIN | TGCT,CHOL,ACC,DLBC,KIRP | | ENSG00000263050 | RP11-667K14.3,hsa-mir-378a,BRSK1 | TGCT,CHOL,ACC,DLBC,PAAD,KIRP | | ENSG00000263050 | RP11-667K14.3,hsa-mir-378a,PIP4K2B | TGCT,CHOL,ACC,PAAD,KIRP | | ENSG00000263050 | RP11-667K14.3,hsa-mir-378a,TSPOAP1 | TGCT,CHOL,DLBC,PAAD,KIRP | | ENSG00000263050 | RP11-667K14.3,hsa-mir-378a,DTX3 | TGCT,CHOL,ACC,PAAD,KIRP | | ENSG00000263050 | RP11-667K14.3,hsa-mir-378a,POFUT2 | TGCT,CHOL,ACC,PAAD,KIRP |
| ORFfinder result for the gencode.v22.lncRNA.transcript.fa. |
| lncRNA Ensembl ID | lncRNA ENST ID | length(AA) | start at transcript | end at transcript | | ENSG00000263050.1 | ENST00000572790.1 | 96 | 414 | 124 |
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