 lncRNA targets the enhancer region and positively regulates the gene expression. |
| Only predicted by TDF | | ZNF30,RBM19,DNMT1,ILF3,GLI4,EDC3,MYPOP,IRF3,DDX56,TIGD5,MZF1,NRF1,PHF19,RBM23,ZNF2,MAFG,MAZ,GLI3,CENPB,RBM28,ZNF74,DDX24,ZBED4,KMT2B,SAFB2,NOP9,MNT,CNOT4,TFAP4,LSM5,EIF3G,NOL6,SUGP1,PUF60,DDX54,LSM4,CREB3,U2AF2,TCFL5,CPSF1,RNPS1,RBM14,PURB,ZBTB3,ADNP,SURF6,NFYC,DHX34,CPSF4,PPIE,TCF20,CXXC1,ZNF71,PATZ1,CSTF1,PUS7,HSF1,ZHX3,MECP2,DEAF1,TGIF2,DDX49,TTF1,NOL9,RBM42,FOXM1,KLF16,ZNF48,SGSM2,CENPA,WIZ,REXO4,RBM10,DDX51,E2F4,MBD3,PCBP4,THAP3,APEX1,DDX31,FIZ1,EIF3B,PREB,ZNF3,SOX12,KDM2B,CPSF3,RBM48,E2F1,GMEB2,XPO1,THAP8,DOT1L,PIN1,THOC5,RXRB,RBM8A,CSTF2,NACC2,NAIF1,DDX41,USF2,SFPQ,RALY,XPO5 | | Exist in public source | | NA |
| lncRNA targets the promoter region and positively regulates the gene expression. |
| Only predicted by TDF | | AGO1,SFPQ,DOT1L,THOC5,ZNF48,MZF1,EIF3G,MLXIP,CENPB,MECP2,E4F1,PUS7,CXXC1,U2AF2,PHF19,THAP7,TFAP4,ZNF3,RBM19,FOXK1,DNMT1,E2F4,RBM42,MYPOP,DHX30,WIZ,ZNF71,USF2,ZNF30,FOXK2,THAP3,CENPA | | 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 | | SP100,ATF3 | | 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 | | ENSG00000230733 | ENST00000444210 | exon_skip_136020 | chr16:31186801-31186836 | -10.18 | -0.9255 | FUS | ENST00000254108 | Frame-shift | | ENSG00000230733 | ENST00000444210 | exon_skip_378467 | chr3:143023974-143024018 | -9.48 | -0.2873 | U2SURP | ENST00000473835 | Frame-shift | | ENSG00000230733 | ENST00000444210 | exon_skip_353171 | chr20:58898940-58898985 | -13.96 | -0.4106 | GNAS | ENST00000371085,ENST00000371100 | 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 | | ENSG00000230733 | ENST00000444210 | exon_skip_476029 | chr7:65974918-65975071 | -20.68 | -0.1436 | GUSB | ENST00000304895 | In-frame |
| lncRNA targets by miRNA. |
 |
| LncRNA Ensembl ID | miRNA ID | LncRNA ENST ID | Binding site in lncRNA | Score | Energy | Align Len | Public source | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5477762-5477855 | 216.00 | -84.40 | 91 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5476012-5476108 | 186.00 | -94.21 | 93 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5475878-5475961 | 185.00 | -81.65 | 77 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5478431-5478522 | 183.00 | -83.04 | 82 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5478189-5478282 | 182.00 | -75.03 | 89 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5478856-5478942 | 182.00 | -93.72 | 76 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5477987-5478077 | 181.00 | -83.23 | 88 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5477634-5477714 | 180.00 | -85.43 | 83 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5477108-5477187 | 179.00 | -87.02 | 72 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5478565-5478645 | 178.00 | -84.63 | 83 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5477435-5477523 | 175.00 | -93.90 | 88 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5478287-5478367 | 173.00 | -72.47 | 84 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5476401-5476495 | 171.00 | -84.88 | 93 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5478763-5478851 | 171.00 | -92.72 | 80 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5476313-5476409 | 169.00 | -96.01 | 94 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5478646-5478732 | 169.00 | -86.33 | 90 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5477325-5477419 | 167.00 | -87.36 | 95 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5477913-5477996 | 165.00 | -74.10 | 79 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5477002-5477097 | 163.00 | -91.45 | 92 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5478953-5479041 | 163.00 | -89.93 | 87 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5475805-5475894 | 161.00 | -69.42 | 87 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5477527-5477616 | 160.00 | -91.07 | 81 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5476802-5476884 | 158.00 | -84.58 | 83 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5476525-5476614 | 153.00 | -79.43 | 91 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5478076-5478164 | 153.00 | -86.04 | 89 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5476650-5476751 | 150.00 | -90.26 | 97 | NA | | ENSG00000230733 | hsa-mir-3614 | ENST00000444210 | chr7:5477202-5477285 | 147.00 | -93.35 | 84 | 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 | | ENSG00000230733 | ENSG00000071655 | MBD3 | ENSG00000100296 | THOC5 | 6 | ACC,CHOL,LIHC,MESO,PAAD,THYM | | ENSG00000230733 | ENSG00000071655 | MBD3 | ENSG00000180035 | ZNF48 | 9 | CHOL,COAD,GBM,KICH,LAML,LIHC,PAAD,PCPG,THYM | | ENSG00000230733 | ENSG00000166526 | ZNF3 | ENSG00000180035 | ZNF48 | 5 | CHOL,KICH,LIHC,PCPG,PRAD | | ENSG00000230733 | ENSG00000167967 | E4F1 | ENSG00000180035 | ZNF48 | 5 | CHOL,COAD,GBM,KICH,LAML | | ENSG00000230733 | ENSG00000176182 | MYPOP | ENSG00000180035 | ZNF48 | 6 | CHOL,COAD,KICH,LIHC,PAAD,PCPG | | ENSG00000230733 | ENSG00000177030 | DEAF1 | ENSG00000180035 | ZNF48 | 5 | CHOL,COAD,GBM,KICH,LIHC | | ENSG00000230733 | ENSG00000185670 | ZBTB3 | ENSG00000180035 | ZNF48 | 6 | CHOL,KICH,LAML,LIHC,PAAD,PCPG | | ENSG00000230733 | ENSG00000197951 | ZNF71 | ENSG00000180035 | ZNF48 | 5 | CHOL,KICH,LAML,PAAD,PCPG | | ENSG00000230733 | ENSG00000071655 | MBD3 | ENSG00000130811 | EIF3G | 5 | CHOL,COAD,LIHC,PCPG,THYM | | ENSG00000230733 | ENSG00000071655 | MBD3 | ENSG00000125817 | CENPB | 8 | CHOL,COAD,KICH,LIHC,MESO,PAAD,PCPG,THYM | | ENSG00000230733 | ENSG00000176182 | MYPOP | ENSG00000125817 | CENPB | 6 | CHOL,COAD,KICH,LIHC,PAAD,PCPG | | ENSG00000230733 | ENSG00000071655 | MBD3 | ENSG00000167967 | E4F1 | 6 | CHOL,COAD,GBM,KICH,LAML,THYM | | ENSG00000230733 | ENSG00000071655 | MBD3 | ENSG00000154832 | CXXC1 | 8 | CHOL,COAD,GBM,LAML,LIHC,LUAD,PAAD,THYM | | ENSG00000230733 | ENSG00000011451 | WIZ | ENSG00000063244 | U2AF2 | 5 | CHOL,COAD,LAML,LIHC,PCPG | | ENSG00000230733 | ENSG00000071655 | MBD3 | ENSG00000119403 | PHF19 | 5 | ACC,CHOL,COAD,LIHC,STAD | | ENSG00000230733 | ENSG00000071655 | MBD3 | ENSG00000184436 | THAP7 | 5 | CHOL,KICH,LIHC,PAAD,THYM | | ENSG00000230733 | ENSG00000185670 | ZBTB3 | ENSG00000166526 | ZNF3 | 5 | CHOL,KICH,KIRP,LIHC,PCPG | | ENSG00000230733 | ENSG00000011451 | WIZ | ENSG00000164916 | FOXK1 | 6 | CHOL,GBM,KICH,LAML,LIHC,PCPG | | ENSG00000230733 | ENSG00000100207 | TCF20 | ENSG00000164916 | FOXK1 | 5 | ACC,CHOL,GBM,KICH,LIHC | | ENSG00000230733 | ENSG00000100426 | ZBED4 | ENSG00000164916 | FOXK1 | 5 | CHOL,KIRC,LIHC,MESO,OV | | ENSG00000230733 | ENSG00000146676 | PURB | ENSG00000164916 | FOXK1 | 8 | ACC,CHOL,ESCA,GBM,HNSC,KIRP,LIHC,LUSC | | ENSG00000230733 | ENSG00000166526 | ZNF3 | ENSG00000164916 | FOXK1 | 6 | ACC,CHOL,KICH,KIRP,LIHC,PCPG | | ENSG00000230733 | ENSG00000011451 | WIZ | ENSG00000130816 | DNMT1 | 5 | CHOL,COAD,GBM,LIHC,LUAD | | ENSG00000230733 | ENSG00000100207 | TCF20 | ENSG00000130816 | DNMT1 | 5 | ACC,CHOL,GBM,KICH,LIHC | | ENSG00000230733 | ENSG00000071655 | MBD3 | ENSG00000126254 | RBM42 | 6 | CHOL,COAD,KICH,LIHC,READ,THYM | | ENSG00000230733 | ENSG00000071655 | MBD3 | ENSG00000176182 | MYPOP | 7 | CHOL,COAD,KICH,LIHC,PAAD,PCPG,THYM | | ENSG00000230733 | ENSG00000177030 | DEAF1 | ENSG00000176182 | MYPOP | 5 | CHOL,COAD,GBM,KICH,LIHC | | ENSG00000230733 | ENSG00000011451 | WIZ | ENSG00000132153 | DHX30 | 6 | CHOL,COAD,GBM,KICH,LAML,LIHC | | ENSG00000230733 | ENSG00000176182 | MYPOP | ENSG00000132153 | DHX30 | 5 | CHOL,COAD,GBM,LIHC,PAAD | | ENSG00000230733 | ENSG00000197951 | ZNF71 | ENSG00000132153 | DHX30 | 5 | CHOL,KICH,LAML,PAAD,TGCT | | ENSG00000230733 | ENSG00000071655 | MBD3 | ENSG00000105698 | USF2 | 7 | CHOL,COAD,LIHC,PAAD,PCPG,READ,THYM | | ENSG00000230733 | ENSG00000176182 | MYPOP | ENSG00000105698 | USF2 | 6 | CHOL,COAD,KICH,LIHC,PAAD,PCPG |
| 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 | | ENSG00000230733 | AC092171.4,hsa-mir-3614,MEGF8 | UCEC,SKCM,CHOL,UCS,PAAD,LIHC | | ENSG00000230733 | AC092171.4,hsa-mir-3614,VAPB | UCEC,SKCM,CHOL,UCS,LIHC | | ENSG00000230733 | AC092171.4,hsa-mir-3614,UNC119B | UCEC,SKCM,CHOL,PAAD,LIHC | | ENSG00000230733 | AC092171.4,hsa-mir-3614,FAM168B | UCEC,SKCM,CHOL,UCS,LIHC |
| ORFfinder result for the gencode.v22.lncRNA.transcript.fa. |
| lncRNA Ensembl ID | lncRNA ENST ID | length(AA) | start at transcript | end at transcript | | ENSG00000230733.2 | ENST00000444210.2 | 178 | 52 | 588 |
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