 lncRNA targets the enhancer region and positively regulates the gene expression. |
| Only predicted by TDF | | SLIRP,GLI4,FOXJ1,THAP4,MYPOP,IRF3,CIRBP,DDX56,IMP3,TIGD5,OVOL2,MZF1,TRUB2,HES6,CENPB,SNRPA,LSM3,LSM5,EIF3G,MRM1,PUF60,LSM4,CREB3,RNPS1,ERAL1,NR2F6,ZBTB3,CWC15,CPSF4,PPIE,SF3B6,NELFE,USF1,CXXC1,MOV10,THYN1,DEAF1,DDX49,THOC6,RBM42,ZNF48,PARN,REXO4,MBD3,PCBP4,THAP3,MESP1,FIZ1,PREB,ZNF18,SOX12,HMGN3,NOL3,THAP8,LSM2,PIN1,RRP7A,NAIF1,DDX41,XPA,THOC7,USF2,RALY,NR1H2 | | Exist in public source | | NA |
| lncRNA targets the promoter region and positively regulates the gene expression. |
| Only predicted by TDF | | MZF1,EIF3G,LSM2,CENPB,E4F1,RBM42,CIRBP,SRP14 | | Exist in public source | | NA |
| lncRNA targets the promoter region and negatively regulates the gene expression. |
| Only predicted by TDF | | ELF1,AGO2,GTF2I,REST,DDX46,PATL1,BACH1 | | Exist in public source | | NA |
| lncRNA targets the 3'UTR region and negatively regulates the mRNA. |
| Only predicted by lncTar | | SMAD1,ZFP1,CELF2,SON,AGFG1,GTF2I,SYNJ1,QKI,REST,CDC5L,CSDE1,SP4,ZEB1,ZEB2,BBX,CPEB4,NAF1,UHMK1,SATB1,TCF20,ELF1,BACH1,DDX50,FOXN3,FOXJ3,CPEB2,MBNL1,IREB2,SP2,AGO2,BCL6,EEA1,XRN1,ELK4,STAT3,ARNT,PRDM2,KLF7,DDX6,DNMT1,FOSL2,KAT7,BPTF,SKI,NCOA2,DDX3X,DDX46,PUM1,KDM2A,NR2C2,NCOA3,PPARA,FOXN2,KLF13 | | 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 | | ENSG00000260136 | ENST00000562842 | exon_skip_75223 | chr11:72012400-72012442 | -8.97 | -0.2136 | NUMA1 | ENST00000393695 | In-frame | | ENSG00000260136 | ENST00000562842 | exon_skip_29583 | chr1:114780109-114780215 | -11.70 | -0.1232 | SIKE1 | ENST00000060969 | Frame-shift |
| lncRNA targets by miRNA. |
| LncRNA Ensembl ID | miRNA ID | LncRNA ENST ID | Binding site in lncRNA | Score | Energy | Align Len | Public source |
| 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 | | LncEditing_306978 | ENSG00000260136.4 | chr16 | 23455641 | + | lincRNA | CTD-2270L9.4 | ENST00000570080.1 | lincRNA | CTD-2270L9.4-001 |
| 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 | | ENSG00000260136 | LncEditing_306978 | GBM | chr16_23455641_+ | 2.853679e+00 | 1.927627e+00 | 1.766794e+00 | 4.157962e+00 | 3.210996e-05 | 4.828430e-05 | UP |
| 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 | | ENSG00000260136 | ENSG00000126456 | IRF3 | ENSG00000130811 | EIF3G | 7 | BRCA,CHOL,KIRC,LGG,LIHC,MESO,THCA | | ENSG00000260136 | ENSG00000126456 | IRF3 | ENSG00000204392 | LSM2 | 6 | CHOL,LIHC,MESO,PCPG,SARC,THCA | | ENSG00000260136 | ENSG00000126456 | IRF3 | ENSG00000125817 | CENPB | 8 | BRCA,CESC,CHOL,LGG,LIHC,MESO,TGCT,THCA | | ENSG00000260136 | ENSG00000126456 | IRF3 | ENSG00000167967 | E4F1 | 7 | BRCA,CHOL,LGG,LIHC,MESO,PCPG,THCA | | ENSG00000260136 | ENSG00000126456 | IRF3 | ENSG00000126254 | RBM42 | 10 | BRCA,CESC,CHOL,KIRC,LGG,LIHC,MESO,PCPG,TGCT,THCA |
| 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 |
| ORFfinder result for the gencode.v22.lncRNA.transcript.fa. |
| lncRNA Ensembl ID | lncRNA ENST ID | length(AA) | start at transcript | end at transcript | | ENSG00000260136.4 | ENST00000570080.1 | 78 | 604 | 368 | | ENSG00000260136.4 | ENST00000565747.4 | 84 | 383 | 637 | | ENSG00000260136.4 | ENST00000562842.1 | 78 | 256 | 20 |
|
