 lncRNA targets the enhancer region and positively regulates the gene expression. |
| Only predicted by TDF | | PHF1,RNH1,DEAF1,GLI4,DDX49,CENPT,NOL3,MYPOP,HSF4,THOC6,RBM42,IRF3,JMJD6,DDX56,THAP8,MZF1,PHF19,DOT1L,LSM4,PITX1,CREB3,TIGD1,RNPS1,NR2F6,MBD3,PCBP4,THAP3,DHX34,DDX41,HINFP,EIF3B,PPIE,NELFE,IRF7,RALY,USF1,CXXC1,SNRPA | | Exist in public source | | NA |
| lncRNA targets the promoter region and positively regulates the gene expression. |
| Only predicted by TDF | | MYPOP,PHF19,MZF1,RBM42 | | Exist in public source | | NA |
| lncRNA targets the promoter region and negatively regulates the gene expression. |
| Only predicted by TDF | | FLI1 | | Exist in public source | | NA |
| lncRNA targets the 3'UTR region and negatively regulates the mRNA. |
| Only predicted by lncTar | | ZEB2,FLI1,MEF2C,QKI,NCOA1,CSDE1,LARP4,ETS1,ZEB1 | | 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 | | ENSG00000247095 | ENST00000534540 | exon_skip_302276 | chr19:10808568-10808580 | -5.50 | -0.5000 | DNM2 | ENST00000355667 | In-frame |
| -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 | | ENSG00000247095 | ENST00000534540 | exon_skip_48716 | chr10:34372497-34372536 | -6.69 | -0.3186 | PARD3 | ENST00000374789 | In-frame | | ENSG00000247095 | ENST00000534540 | exon_skip_33516 | chr1:156938417-156938513 | -15.50 | -0.1782 | ARHGEF11 | ENST00000361409 | In-frame | | ENSG00000247095 | ENST00000534540 | exon_skip_466113 | chr7:48099669-48099787 | -8.90 | -0.1236 | UPP1 | ENST00000331803,ENST00000395564 | Frame-shift | | ENSG00000247095 | ENST00000533920 | exon_skip_424741 | chr4:83458345-83458429 | -8.51 | -0.1251 | MRPS18C | ENST00000295491 | In-frame | | ENSG00000247095 | ENST00000534540 | exon_skip_305632 | chr19:35262545-35262692 | -18.02 | -0.1234 | LSR | ENST00000361790 | In-frame | | ENSG00000247095 | ENST00000534540 | exon_skip_476181 | chr7:73543547-73543644 | -13.07 | -0.1654 | BCL7B | ENST00000223368 | Frame-shift | | ENSG00000247095 | ENST00000534540 | exon_skip_71438 | chr11:60941121-60941290 | -21.67 | -0.1416 | SLC15A3 | ENST00000227880 | Frame-shift |
| lncRNA targets by miRNA. |
 |
| LncRNA Ensembl ID | miRNA ID | LncRNA ENST ID | Binding site in lncRNA | Score | Energy | Align Len | Public source | | ENSG00000247095 | hsa-mir-139 | ENST00000500447 | chr11:566410-566480 | 179.00 | -55.33 | 70 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000500447 | chr11:567154-567219 | 175.00 | -66.98 | 64 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000500447 | chr11:567520-567591 | 170.00 | -59.42 | 64 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000500447 | chr11:565825-565894 | 166.00 | -66.76 | 67 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000500447 | chr11:567459-567529 | 156.00 | -55.92 | 67 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000500447 | chr11:565679-565745 | 152.00 | -72.42 | 62 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000500447 | chr11:565963-566027 | 151.00 | -61.03 | 60 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000500447 | chr11:566040-566112 | 151.00 | -63.96 | 69 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000500447 | chr11:566743-566809 | 151.00 | -58.03 | 67 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000500447 | chr11:566579-566641 | 148.00 | -51.50 | 59 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000500447 | chr11:566822-566897 | 148.00 | -71.85 | 72 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000500447 | chr11:566483-566550 | 145.00 | -58.00 | 65 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000500447 | chr11:566957-567028 | 145.00 | -71.79 | 69 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000500447 | chr11:566887-566950 | 142.00 | -67.53 | 61 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000528245 | chr11:567090-567161 | 181.00 | -78.53 | 69 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000528245 | chr11:567365-567434 | 166.00 | -66.76 | 67 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000528245 | chr11:567503-567567 | 151.00 | -61.03 | 60 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000528245 | chr11:567580-567652 | 151.00 | -63.96 | 69 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000528245 | chr11:567180-567249 | 145.00 | -59.83 | 66 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000533920 | chr11:567644-567713 | 166.00 | -66.76 | 67 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000533920 | chr11:567320-567386 | 160.00 | -69.79 | 65 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000533920 | chr11:567200-567272 | 152.00 | -73.28 | 69 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000533920 | chr11:567782-567846 | 151.00 | -61.03 | 60 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000533920 | chr11:567859-567931 | 151.00 | -63.96 | 69 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000533920 | chr11:567459-567528 | 145.00 | -59.83 | 66 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000534540 | chr11:567635-567701 | 160.00 | -69.79 | 65 | NA | | ENSG00000247095 | hsa-mir-139 | ENST00000534540 | chr11:567774-567843 | 145.00 | -59.83 | 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 |
| 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 | | ENSG00000247095 | MIR210HG,hsa-mir-139,SAMD10 | CHOL,PAAD,THYM,KIRP,LIHC | | ENSG00000247095 | MIR210HG,hsa-mir-139,TONSL | CHOL,PAAD,THYM,KIRP,LIHC | | ENSG00000247095 | MIR210HG,hsa-mir-139,VMP1 | CHOL,PAAD,THYM,KIRP,LIHC |
| ORFfinder result for the gencode.v22.lncRNA.transcript.fa. |
| lncRNA Ensembl ID | lncRNA ENST ID | length(AA) | start at transcript | end at transcript | | ENSG00000247095.2 | ENST00000500447.1 | 52 | 233 | 75 | | ENSG00000247095.2 | ENST00000528245.1 | 159 | 1877 | 1398 | | ENSG00000247095.2 | ENST00000533920.1 | 119 | 300 | 656 | | ENSG00000247095.2 | ENST00000534540.1 | 134 | 403 | 2 |
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