 lncRNA targets the enhancer region and positively regulates the gene expression. |
| Only predicted by TDF | | CCDC65,TSPYL2,GSDMB,ARL16,VAMP1,EPOR,SLIRP,TCEA2,ABHD17A,TMEM234,TXNL4B,CIRBP,PET100,RNF166,MZF1,SART1,CMC2,SHARPIN,CFAP20,MAPK8IP3,PPP2R3B,BCS1L,DMTF1,CTU1,ACD,XAB2,LMBR1L,TRAPPC12,HSDL1,ULK3,BCL7A,METTL5,CENATAC,NPEPL1,SNRPA,SMUG1,SAFB2,KCTD13,MSANTD2,TRAPPC2L,TUBGCP6,CCDC14,HIRIP3,CHKA,CLK4,COMMD7,USP30,TERF2IP,ZBED5,NDUFA3,PPIH,KNTC1,CDK2AP2,GKAP1,SUGP1,TAZ,SPG7,GINS2,FAM104B,C19orf44,SRSF4,SIAH1,RCCD1,CCNB1IP1,TMEM208,ZFP1,RAB4B,COX19,CLK2,ILKAP,MPLKIP,POLG2,DHX34,MST1,PSENEN,CHKB,METTL17,CBY1,WDR83,OSGEP,USF1,ACAD10,CTC1,CLK1,ITGB3BP,GABPB1,RABL2A,NASP,H3-3A,ANKRD39,DHPS,RPAIN,WASHC3,OFD1,ACYP1,SLC25A29,IFT172,CTU2,CFAP298,XPNPEP3,DERL2,PFDN6,INO80E,NAPB,NPIPA5,C3orf62,YJU2,C17orf97,ALKBH2,ZBED8,ORMDL1,DHODH,C18orf21,C22orf39,C12orf73,DDX51,DONSON,AGER,FUZ,ESS2,SSBP2,SRSF2,C1orf52,CDK11A,C17orf67,TSEN54,LRRC37B,ATG4B,SUPT20H,MRPL57,PAFAH1B3,CCDC191,ADHFE1,NXF1,DCUN1D2,EIF2B1,PAN2,C2orf76,FAM229A,PFDN5,CCDC159,GIGYF1,HMGN3,EBPL,NOP2,FAM193B,NDUFB1,ABCA7,NOL3,SLC25A28,CZIB,PDRG1,KLHL17,ARHGAP33,MBTD1,DMAC2L,N4BP2L1,ELOF1,DNASE1,SEPSECS,HEXD,HDAC8,GAS8,VCPKMT,SCNN1D,CCDC24,CCDC12,DECR2,ERCC5,RSL24D1,IQCC,RNFT2,ZNF30,SKA2,FAAP100,SCNM1,IST1,PYROXD2,FANCL,GLI4,DNAJC4,NMRAL1,SH2B1,SNRNP25,C1orf159,DDX56,PRR3,FAM98C,UBE2G2,IP6K2,PPOX,NPRL3,IFTAP,ASTE1,BIVM,TIMM44,C20orf96,ADPRM,ARFGAP1,MIX23,CAPN10,AP1G2,METTL21A,THOC1,WDR59,CCDC59,TMEM175,NUBP2,GNPTG,NUTF2,INTS11,TAMM41,GDPD3,PCBP2,TMEM116,RIMKLB,LTO1,PIDD1,NME4,TPT1,CWC15,IFT80,CEP83,NAA10,FBXO44,METTL23,C17orf75,PATZ1,ABTB1,PCED1A,C11orf98,ELP5,DYNLT2,BRF1,ZC3H8,GRIPAP1,THOC6,ENOSF1,ANKRD49,PAXBP1,LENG1,TADA2A,DENND6B,ATF4,PRMT7,ZFYVE19,PHF11,RSRP1,SGF29,NAP1L1,MBD3,CLEC2D,ZSWIM1,FIZ1,CHRAC1,TRPT1,SUMO2,LTB4R,KIFC2,PSPN,VPS4A,HEMK1,UPF3B,RABEP2,IFT20,PTOV1,PCSK4,DDX11,FRS3,C2orf68,FBXL8,MFF,ZNRF1,RBM6,TRMT13,ZNF862,KHDC1,IDUA,SREK1IP1,POP5,CDIPT,ORAI3,MYL5,ABCB6,SCAND1,PSME3IP1,WDR27,EME2,SSBP3,KHDC4,DCAF15,CROCC,CERS5,RSAD1,EP400P1,NCAPH2,PNISR,RP9,SFPQ,RALY,AMT,TRIOBP,LRRC27,CARD8,MVD,ENKD1,FAM3A,ZDHHC1,ZNF10,ATAT1,C11orf1,DUT,STMN1,PYM1,ZBTB8OS,TRMU,MYPOP,CTBP1,BICRA,ATXN7L2,MDM1,SEM1,TIGD5,STMP1,CHTF18,CDPF1,DPY19L2,NAT14,SMARCE1,TAF1D,KATNBL1,MKS1,C1orf35,CCDC174,HES6,MTIF3,CDK5RAP1,C7orf26,NDUFA7,MARCHF9,SLX4IP,NPRL2,ZCWPW1,KLHDC4,KLHDC1,CCNL2,DCAKD,FBXO46,DMPK,CCDC115,CLK3,C14orf28,ANKRD10,VPS9D1,GFER,TIMM9,CCDC77,TFAP4,MIEN1,LSM5,RFNG,MED25,DDTL,H2AJ,MC1R,OSBPL7,DHRS12,ZMAT5,STX10,SEPTIN1,KAT2A,ECI1,UBALD1,ACBD4,TMEM223,RBM26,PLA2G6,TMEM86B,RNPS1,ZBTB3,ENTR1,CEBPZOS,ENDOV,DPY30,SETD6,POLI,CHMP1A,PRPF39,ARMH1,ZNF34,ERMARD,MRPL22,TRIM45,GEMIN6,MIB2,ZNF22,PHF1,HIRA,HDAC10,HEXIM2,CEP44,SCRN2,HSF4,ANKS3,ARGLU1,YJEFN3,CCNL1,ANKRD54,SGSM2,KRI1,RNF25,COX4I1,RBM45,HSPBAP1,CRYGS,YAE1,DYRK4,R3HDM2,CENPS,EGFL8,NR2C2AP,MZT2A,PSMG4,PBX4,TIA1,ZNF83,HCN3,RETREG3,NSUN6,CIAO2B,ABCD4,BRAT1,CDK2,PELP1,MEN1,MYL6B,C19orf47,SAYSD1,NEIL1,POLE,ABHD10,DTX3,ZMYND19,MTG2,RNF215,NAT9,LIPT1,CPNE1,NDUFA5,ABHD14A,CRAMP1,LUC7L,NKIRAS2,PNN,COA5,DSN1,CENPJ,C14orf93,COQ9,DPH7,CBX8,POU6F1,TRA2A,RNF126,NSMCE4A,ATP5F1D,ATP5PF,MAPKAPK5,CEP131,DUS1L,HINFP,NR2C1,APBB3,AMY2B,GPS1,CNTROB,CYTH2,C8orf76,WDR74,SMIM19,WBP1,NADSYN1,IMMP1L,AGAP6,RPS17,WRAP73,CFDP1,RBM39,SLC25A27,MRPS26,IRF3,ZCCHC8,RIBC1,NRF1,TMEM44,ITFG2,RRNAD1,CCDC92,COQ5,KAT8,ZSWIM7,TRIM39,PIGL,HSBP1,ERH,GCSH,RP11-523H20.5,CSAD,KIAA0895L,DDX39A,ATAD3B,SAMD10,MUTYH,BANF1,DCAF8,OBSL1,ABCA5,FRA10AC1,LIN37,OGA,PYCR2,IFT27,RECQL5,PAN3,NARF,PHKG2,PMF1,LRRC75B,SS18L2,SWSAP1,TBC1D17,PA2G4,CENPT,S100PBP,CFAP410,VAMP2,MTG1,FAM76B,ANAPC7,RBM4B,EXOG,TMEM99,MRPS31,BEND5,C21orf58,TAF1C,TMEM143,LCAT,TEFM,SAMD1,AAAS,KPTN,PRIMPOL,UBL5,CXXC1,EZH1,ELMOD3,GSTM2,NDUFB7,ING4,HAUS5,SENP7,MTRF1,RAD52,CEP43,THYN1,LIAS,NINL,FBXL12,CEP290,SDR39U1,TELO2,CDAN1,PCYOX1L,LRRC29,AUP1,C12orf76,FAM228B,WASHC1,USP21,TIGD1,KLC1,RBM10,E2F4,GPS2,TRIM52,RPL36A,COA8,NDUFC1,NCBP3,THAP3,NOL12,PCP2,CLASRP,CWC25,STK36,ANKRD16,TTC32,FBXO31,ZMAT1,GOLGA8B,SPATA33,TAPT1,ZNF18,TMA7,GOLGA8A,ITGAE,PAM16,SETD4,SPIRE2,CNOT2,TPRKB,AARSD1,DUSP28,NACA,RBM5,BOLA1,RPS19BP1,YPEL3,BCDIN3D,TTLL3,ZNF84,ATP5MC2,PARP6,RHBDD3,TUBD1,C19orf18,PDCD6,REX1BD,PIAS2,LRP5L,FASTK,CYHR1,SIRT6,NAE1,DXO,HSPB11,PDCD7,USPL1,USP20,ANKRD13D,LIG1,NELFA,EMC8,CCDC57,RABL2B,TRAPPC2,SIRT7,MRFAP1L1 | | Exist in public source | | NA |
| lncRNA targets the promoter region and positively regulates the gene expression. |
| Only predicted by TDF | | DPH7,C14orf93,APITD1,PMF1,E2F4,EFHC1,TRA2A,METTL5,SART1,OFD1,ABCA5,STX16,HEMK1,IST1,DGCR14,PDCD6,SETD6,COX6A1,TCTE3,MAPK8IP3,CCDC66,MZF1,VAMP2,C3orf62,ZSWIM1,LRRC37B,MYL5,FBXO46,TMEM44,TFAP4,CFDP1,CPNE1,CEBPZOS,MARCH9,TBKBP1,NAA10,NT5M,GRIPAP1,NT5C,NINL,PKIG,CDIPT,WDR74,CARD8,ARGLU1,AP4B1,CEP44,TAZ,DCAF8,C22orf39,YDJC,TNFRSF25,ZNF18,ATAT1,KIZ,DHPS,KHDC1,DMPK,LMBR1L,TMEM99,CTC1,FBXL12,COX7C,SNTA1,EP400NL,LIMD2,E4F1,KLHDC4,DYRK4,THAP7,RBM10,CEP131,GFER,NDUFB1,GOLGA8A,RIMKLB,SRP14,CLASRP,SDR39U1,EMC8,RAD9A,NOL3,ZNF22,CXXC1,QTRT1,C17orf75,SEPSECS,ACCS,ZSWIM7,ENGASE,C2orf68,FAM127B,XPNPEP3,HIST3H2A,GSTM2,SCNM1,CYTH2,COMMD3,HSDL1,ING5,WDR13,KNTC1,KRT10,TIMM9,AARSD1,POP5,MZT2A,SGF29,PAN3,C8orf76,ZMYND19,NMRAL1,MDM4,EIF2B1,SUPT20H,TTC32,RPS23,RP9,N4BP2L1,CCDC174,ZMAT1,HAUS5,KAT2A,TAF1C,RAD52,CHRAC1,EID2B,CLK2,TRMU,MRPS31,D2HGDH,C19orf44,TERF2IP,ZNRF1,ZNF83,EVL,PRPF3,BIVM,SHFM1,THAP3,SUMO2,LUC7L,MTG2,TXNL4B,OCEL1,SLC25A14,BANF1,METTL21A,SAYSD1,TSPYL2,NUDT7,RNF126,PBX4,FAM98C,GGA1,CCDC130,MAGEF1,ECI1,CWC15,ABCD4,C21orf59,TRIOBP,STK36,NR2C2AP,CCNL1,S100PBP,TUBD1,ARIH2OS,RBM6,ALKBH2,C20orf96,RBM39,PDCD7,DCAF15,CDAN1,CDK5RAP1,ANKRD39,GABPB1,TRAPPC2,VPS4A,ZNHIT3,GTF2H4,EID2,COQ10A,OXLD1,ZNF30,DUS1L,C1orf52,EPOR,HSPBAP1,METTL17,ELOF1,EBPL,TIA1,RBM5,CEP290,CCDC53,NCBP3,MDM1,KPNA5,ING4,LRRC27,ATP5D,CWC25,AP1G2,USF1,BEND5,MPLKIP,CCNB1IP1,ENOSF1,NADSYN1,DNAJC4,FRA10AC1,ANAPC7,C14orf79,PYCR2,CENPJ,VAMP1,TMEM120B,KIAA0907,SRSF5,NDUFA3,PRR14,TRAF5,SETD4,NME4,HCN3,EZH1,C19orf18,KPTN,NDUFA5,R3HDM2,RNF25,HSF4,FAM193B,FUZ,CCDC65,RNPS1,IDUA,HIRA,DERL2,WDR59,TRMT112,ERMARD,PCBP2,MRFAP1L1,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 | | ECPAS,COPB2,TNPO1,PRKAR2A,TUBA1B,KIF2A,CTNNB1,SLC35E1,PSMD2,CCDC47,TMEM184B,TGOLN2,GNPNAT1,FLNA,HSPA8,CSNK1A1,NIPA2,USP9X,UHRF1BP1L,MYOF,MYH9,TMOD3,PCYT1A,SMG8,SETD7,SCARB2,TMEM127,HUWE1,BECN1,ACTN4,RDX,FTH1,ATG7,CTNNA1,KPNA6,SSR3,OPTN,SNX6,USP32,COPA,LRP10,GNL3L,IQGAP1,NOCT,PCCB,CAST,DOCK7,GBA,TRIP11,TPM3,MID2,RNF19B,KIAA0100,PLEKHB2,EIF4G1,TUBA1C,SEC23A,SARS1,SLC31A1,PRMT5,ABHD5,AZI2,CLCC1,ZNFX1,OS9,MAN2B2,AP5B1,RPN2,CAP1,MTMR12,ACTR2,CLTC,ATRN,NOMO2 | | 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 | | ENSG00000276007 | ENST00000612986 | exon_skip_1234 | chr1:11658532-11658628 | -16.35 | -0.1777 | FBXO44 | ENST00000251547,ENST00000376770 | 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 | | ENSG00000276007 | ENST00000612986 | exon_skip_382458 | chr3:38131595-38131638 | -9.73 | -0.3604 | ACAA1 | ENST00000333167 | Frame-shift | | ENSG00000276007 | ENST00000612986 | exon_skip_108095 | chr14:73955450-73955509 | -10.22 | -0.2044 | COQ6 | ENST00000334571 | Frame-shift | | ENSG00000276007 | ENST00000612986 | exon_skip_319223 | chr19:43526200-43526349 | -21.70 | -0.1644 | ETHE1 | ENST00000292147 | Frame-shift | | ENSG00000276007 | ENST00000612986 | exon_skip_470226 | chr7:103307595-103307708 | -10.56 | -0.1160 | PMPCB | ENST00000249269 | Frame-shift | | ENSG00000276007 | ENST00000612986 | exon_skip_511212 | chrX:71555189-71555385 | -18.11 | -0.1154 | OGT | ENST00000373719 | Frame-shift | | ENSG00000276007 | ENST00000612986 | exon_skip_445390 | chr5:150403120-150403312 | -20.19 | -0.1392 | CD74 | ENST00000009530 | In-frame | | ENSG00000276007 | ENST00000612986 | exon_skip_476061 | chr7:65979726-65979911 | -19.15 | -0.1212 | GUSB | ENST00000304895 | Frame-shift |
| lncRNA targets by miRNA. |
| LncRNA Ensembl ID | miRNA ID | LncRNA ENST ID | Binding site in lncRNA | Score | Energy | Align Len | Public source | | ENSG00000276007 | hsa-mir-22 | ENST00000612986 | chr16:78123985-78124079 | 200.00 | -74.85 | 90 | NA | | ENSG00000276007 | hsa-mir-22 | ENST00000612986 | chr16:78123496-78123579 | 191.00 | -85.14 | 81 | NA | | ENSG00000276007 | hsa-mir-22 | ENST00000612986 | chr16:78123809-78123898 | 185.00 | -67.99 | 88 | NA | | ENSG00000276007 | hsa-mir-22 | ENST00000612986 | chr16:78123244-78123323 | 182.00 | -78.29 | 87 | NA | | ENSG00000276007 | hsa-mir-22 | ENST00000612986 | chr16:78123601-78123696 | 167.00 | -79.31 | 92 | NA | | ENSG00000276007 | hsa-mir-22 | ENST00000612986 | chr16:78124223-78124315 | 159.00 | -78.58 | 92 | NA | | ENSG00000276007 | hsa-mir-22 | ENST00000612986 | chr16:78124104-78124188 | 140.00 | -58.97 | 76 | 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 |
| ORFfinder result for the gencode.v22.lncRNA.transcript.fa. |
| lncRNA Ensembl ID | lncRNA ENST ID | length(AA) | start at transcript | end at transcript | | ENSG00000276007.1 | ENST00000612986.1 | 65 | 260 | 457 |
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