 lncRNA targets the enhancer region and positively regulates the gene expression. |
| Only predicted by TDF | | ARL16,UXT,SLIRP,TCEA2,NDUFS3,KRT10,TMEM234,C12orf57,CIRBP,PET100,WDR83OS,PEBP1,DPM2,HINT2,PNKD,DNAJC1,NDUFA11,CENATAC,NPEPL1,SNRPA,SAFB2,TRAPPC2L,FAAP20,COMMD7,LAMTOR2,SURF2,NDUFA3,PPIH,SVBP,GKAP1,MICOS13,SUGP1,TAZ,FAM104B,NDUFB2,GTF2H5,USE1,ECHDC2,TMEM208,RAB4B,TARBP2,ILKAP,PSENEN,SSU72,CHKB,CBY1,WDR83,ANKRD39,MPST,PIH1D1,CFAP298,TSSC4,DDX49,CAMKMT,PFDN6,ATP5MK,C3orf62,YJU2,RPL35,NDUFA2,TMEM160,FDX2,MCAT,PSMB3,MTLN,FBXW4,GCAT,FAM229B,ZNF593,ATG4B,MRPL57,C2orf76,PFDN5,CCS,COX6C,CCDC159,HMGN3,NDUFB1,PNKP,CZIB,ACOT8,ELOF1,HEXD,SDHAF2,CCDC24,CCDC12,EIF3K,PTRHD1,ERCC5,MCRIP1,TRIR,MRPL52,PRADC1,MMAB,GLI4,NMRAL1,SSR4,COX6B1,SNRNP25,C1orf159,DDX56,FAM98C,TECR,NDUFB11,MALSU1,MRPL20,HSCB,ACYP2,THOC1,LSM3,SURF1,NUBP2,LCMT1,NUTF2,INTS11,SRP14,SMPD2,NAA38,CWC15,CCDC106,NAA10,FBXO44,STX8,CHMP2A,MRPS15,UBOX5,LENG1,PEX11G,PRMT7,ZFYVE19,SGF29,SF3A2,MBD3,COMMD1,PSPN,VPS4A,CD2BP2,RABEP2,PTOV1,PYURF,KRTCAP2,SREK1IP1,POP5,ORAI3,TMEM91,NTHL1,MYL5,UBXN6,SOD1,COX14,NDUFA6,HSPBP1,PPCDC,ISOC2,S100A13,RP9,COPRS,JOSD2,SPAG7,SRA1,NOSIP,ENKD1,FAM3A,ATP5IF1,BLOC1S1,NDUFS6,PYM1,ATP5F1E,ZBTB8OS,TRMU,CCDC107,NFKBIB,PSMA2,SEM1,CDPF1,DPY19L2,UBE2J2,NAT14,TIMM13,MTIF3,BUD23,NPRL2,ZCWPW1,KLHDC4,GFER,MIEN1,H2AJ,COQ4,COPS9,ECI1,ARMC5,ACBD4,LRRC23,RHPN1,ENDOV,BSG,PPIE,MAP2K2,BAD,ELP6,ALKBH7,MYL6,MIB2,HDAC10,SCRN2,ATRAID,ANKS3,SMDT1,ANKRD54,TXNRD2,RNF25,COX4I1,NFKBIL1,HSPBAP1,DYRK4,CENPS,MZT2A,RETREG3,ARFRP1,MCRIP2,IFI27L1,BRAT1,AAMDC,MRPL27,PSMG3,MYL6B,UQCR10,C19orf25,FAM234A,MYG1,PSMB1,TLE5,NDUFA1,ABHD14A,LUC7L,MICOS10,PPAN,TRA2A,ATP5PF,UBE2M,TOMM7,XPA,NDUFAF1,B9D2,NDUFAF8,FKBP2,IMMP1L,MRPS26,IRF3,IMP3,SERGEF,NDUFA13,CHCHD5,C7orf50,PPFIA3,SNRPD2,KAT8,ZSWIM7,SNF8,HRAS,CSAD,ATAD3B,MUTYH,LIN37,IFT27,ZNHIT1,PHKG2,PMF1,SARS2,BUD31,POLR2J,SS18L2,SWSAP1,CLN3,UBE2D4,CFAP410,C1orf50,DNAJB2,SERPINB6,LCAT,C12orf43,ATP5MJ,RABAC1,UBL5,GAMT,PLEKHJ1,CXXC1,GPATCH3,ETFB,FAM228B,CHCHD10,KLC1,PTMS,RPL36A,NDUFC1,COA8,THAP3,NOL12,MTFR1L,CLASRP,ATOX1,COMMD6,SPATA33,TMA7,EMC9,YBEY,TPRKB,PSMC5,NEDD8,DUSP28,BOLA1,SMIM4,YPEL3,RNASEH2C,BCDIN3D,ATP5MC2,NDUFV3,REX1BD,TFPT,FASTK,CYHR1,HSPB11,MRPL54,CCDC57 | | Exist in public source | | NA |
| lncRNA targets the promoter region and positively regulates the gene expression. |
| Only predicted by TDF | | ANKRD39,APITD1,VPS4A,PMF1,NDUFAF1,PEX11G,PSMB3,RWDD1,MYL6B,TMEM91,UXT,TRA2A,MRPL52,NFKBIB,COX7C,PARK7,TRMU,NR2F6,GPATCH3,ELOF1,UBE2M,NOSIP,E4F1,DYNLRB1,PFDN5,KLHDC4,UBXN6,PSMB1,DYRK4,THAP7,TMEM234,C7orf50,CHMP2A,PIH1D1,ATRAID,COX6A1,NDUFB1,SHFM1,TMEM160,THAP3,SRP14,CLASRP,LUC7L,LAMTOR4,C14orf79,HINT2,OCEL1,C3orf62,ANKRD54,C6orf203,C12orf43,CXXC1,QTRT1,MYL5,PTDSS2,NDUFA3,SSU72,B9D2,C14orf2,CCDC94,HSCB,MANBAL,PSMA2,NDUFB11,MYL6,PPCDC,SURF1,ZSWIM7,SAT2,FAM98C,NDUFS5,FAM234A,CCDC130,C19orf25,ECI1,CWC15,C12orf10,IFI27L1,ATPIF1,S100A13,FAM195B,C21orf59,RPL35,COMMD3,POLR2J,GTF2H5,WDR13,TFPT,MAP2K2,POP5,MZT2A,SGF29,ARIH2OS,USMG5,ATP5I,ZFAND2A,NMRAL1,CIRBP,TAZ | | Exist in public source | | NA |
| lncRNA targets the promoter region and negatively regulates the gene expression. |
| Only predicted by TDF | | KIDINS220,VPS37C,MINK1,SF3B3,CLTC,SEC24B,IARS2,NUP98,SMARCC2,AMBRA1,VPRBP,ACLY,SMAD1,ACTR3,SF3A1,UBAP2L,MID2,SDAD1,ITCH,UBQLN2,CERS6,EPRS,GTF3C3,PLS1,EIF2S3,KPNA4,CBL,UHRF1BP1L,VRK2,USP32,MAP3K3,EP300,CTTNBP2NL,BTBD10,DIEXF,RAB3GAP1,SNX27,LDOC1L,BCL9,ATP2C1,GFPT1,ADNP,PJA2,USP4,EIF4G2,RPRD1A,EXOC6B,ZFP91,USP9X,KIF2A,SEC31A,ACBD3,TMEM131,HEATR6,CTNNB1,PIK3R4,USP10,TOPBP1,YEATS2,NIPA2,EIF2AK4,TRAPPC10,METTL13,FNDC3B,PARP1,SGTB,EXOC5,COPA,MLX,UGGT1,SLC25A24,BCL9L,TM9SF4,POLR3D,URB1,TICAM1,MED1,YWHAB,IPO5,G3BP2,PATL1,WDR43,SRP72,PRRC2B,FLII,DHX9,CDC27,IPO7,PCYT1A,NEK4 | | Exist in public source | | NA |
| lncRNA targets the 3'UTR region and negatively regulates the mRNA. |
| Only predicted by lncTar | | CNOT1,PARP1,TMEM87B,NEK4,INTS7,SLC35E1,CBL,USP4,VPS26C,PSMD2,HEATR1,GNPNAT1,EXOC5,CEP170,UHRF1BP1L,MYH9,RNF123,SNX12,NAF1,UHMK1,BECN1,LNX2,NUP155,FAM104A,SMCR8,SNX6,ACTR3,GNL3L,EDC4,RAB3GAP1,APLP2,TSR1,TRIM37,ACTN1,MID2,KIAA0100,ITGB1,EDEM1,PLEKHB2,RNF214,EIF4G1,SLAIN2,CDV3,PCBP1,HEATR6,PSMC1,SRP72,SGTB,CAP1,SEC24B,CLTC,ATRN,SMC4,FLII,GMPS,ATP2A2,GFPT1,YEATS2,DHX8,CTNNB1,TRAPPC8,M6PR,ATP2C1,PAK2,TMEM127,STRN,RNF111,POLR3D,UBE2Z,SEC24D,PHF20,USP32,LRP10,KIDINS220,IQGAP1,CDC27,DYNC1I2,AP4E1,ARNT,BTBD10,DOP1B,RPS6KA3,GANAB,SEC23A,RAI1,RFX5,MINK1,STK24,PRMT5,GFM1,IPO5,SDE2,ROCK1,AP2B1,CFAP97,SMAD1,UBN1,CNIH1,METAP1,RAB5C,BRCC3,USP9X,NIPA2,TP53BP2,MTDH,VPS35,FXR1,KPNA4,MAP3K3,CAND1,GTF3C3,TMEM131,MAN2B1,NFKB1,SF3A1,SF3B3,TICAM1,NUP98,ABHD5,AZI2,KDM2A,ACTR2,TRIP12,AKT3,OGFOD1,TM9SF4,GTF2A1,TFIP11,MED1,KIF2A,PLS1,EIF3L,TGOLN2,EIF2S3,HBP1,EIF4G2,IPO9,LARS2,THRAP3,NAA50,PCYT1A,CAPN1,SEC31A,FAM20B,CYFIP1,UGGT1,RPE,VRK2,CARM1,ARL2BP,UTP25,CPD,SNX27,FYTTD1,CHM,ITFG1,AMBRA1,EIF2AK4,USP10,FNDC3B,ARCN1,HAUS2,CSTF2,AFAP1,RPRD1A,POLG,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 |
| -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 | | ENSG00000272368 | ENST00000552815 | exon_skip_41813 | chr10:68337857-68337996 | -16.65 | -0.1365 | HNRNPH3 | ENST00000265866 | Frame-shift | | ENSG00000272368 | ENST00000552815 | exon_skip_494079 | chr8:144099080-144099205 | -18.09 | -0.1865 | SHARPIN | ENST00000398712 | 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 |
| 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 | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000172590 | MRPL52 | 5 | KICH,KIRP,LGG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000130165 | ELOF1 | 5 | KIRP,LGG,PCPG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000142546 | NOSIP | 5 | KICH,KIRP,LGG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000184436 | THAP7 | 6 | KICH,KIRP,LGG,PCPG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000130724 | CHMP2A | 5 | KIRP,LGG,PCPG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000099330 | OCEL1 | 5 | KICH,KIRP,LGG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000100124 | ANKRD54 | 5 | KICH,KIRP,PCPG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000213339 | QTRT1 | 6 | KICH,KIRP,LGG,PCPG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000215375 | MYL5 | 5 | KICH,KIRP,LGG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000105248 | YJU2 | 5 | KIRP,LGG,PCPG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000138621 | PPCDC | 5 | KICH,KIRP,LGG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000104957 | CCDC130 | 5 | KIRP,LGG,PCPG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000167969 | ECI1 | 5 | KIRP,LGG,PCPG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000139637 | MYG1 | 5 | KICH,KIRP,LGG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000176476 | SGF29 | 5 | KICH,KIRP,LGG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000102125 | TAZ | 5 | KIRP,LGG,PCPG,PRAD,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 | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000141367 | CLTC | 5 | KIRP,LGG,PCPG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000188021 | UBQLN2 | 5 | KIRP,LGG,PCPG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000170832 | USP32 | 5 | KIRP,LGG,PCPG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000124486 | USP9X | 5 | KIRP,LGG,PCPG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000160218 | TRAPPC10 | 5 | KIRP,LGG,PCPG,PRAD,THCA | | ENSG00000272368 | ENSG00000167967 | E4F1 | ENSG00000070367 | EXOC5 | 5 | KIRP,LGG,PCPG,PRAD,THCA |
| 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 | | ENSG00000272368.2 | ENST00000548468.2 | 98 | 266 | 559 | | ENSG00000272368.2 | ENST00000552815.1 | 63 | 499 | 308 |
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