 lncRNA targets the enhancer region and positively regulates the gene expression. |
| Only predicted by TDF | | SKA3,ARL16,SLIRP,CLPTM1L,PRPSAP2,MRM2,NUP43,KRT10,MCRS1,DBI,IFT22,TMEM234,POLD2,SPATA13,FASTKD3,PET100,MZF1,MCEE,ATP5MG,C1orf56,TTC31,QPCTL,SRP19,TMUB1,PPP2R3B,N4BP2L2,BCS1L,DMTF1,QPRT,TIMM17B,TRAPPC12,LRRC61,PNKD,ULK3,PIGX,CCT6A,METTL5,ZFP14,CENATAC,NPEPL1,WDR5B,SNRPA,SMUG1,DTYMK,MSANTD2,CCDC14,FAM200A,SUMF2,C6orf136,COMMD7,COA3,SURF2,HUS1,EIF2B5,NDUFA3,VRK3,COA4,TTC14,SLC2A11,TAZ,SUGP1,NABP2,NDUFB2,RNF167,USE1,PPP1R2,DNAJC2,OGT,RCCD1,TAF9,SCML1,POLDIP2,CBX3,ERAL1,UQCC2,TARBP2,ILKAP,LYRM4,CISD3,MPLKIP,POLG2,PSENEN,SSU72,CHKB,METTL17,SNHG32,ABHD14B,SLC12A9,WDR83,OSGEP,CTC1,ACAD10,TIMMDC1,AGBL5,ITGB3BP,ANKRD39,ARMC10,DHPS,MPST,RPAIN,OFD1,HSPE1,MRPS11,ACYP1,FCHSD1,MON1A,TMEM243,IFT172,CDKN2AIPNL,CFAP298,MIS12,DERL2,DDX49,CAMKMT,PFDN6,INO80E,FANCF,HERPUD2,HDAC3,C3orf62,PSMC2,NDUFA2,ORMDL1,MIIP,HDHD3,C22orf39,COQ6,C12orf73,DDX51,MBD4,PSMB3,SRSF2,MRPL32,TSEN54,ABHD16A,ATG4B,SUPT20H,MRPL57,NT5C3A,DCUN1D2,TSSK6,ALG8,KIF9,PAN2,C2orf76,FAM229A,PFDN5,LRTOMT,CCS,SLC25A16,GIGYF1,CCDC167,HMGN3,FAM193B,RBFA,NDUFB1,TMCO6,CZIB,ACOT8,NCAPG2,CDCA7,PDRG1,HDDC2,DMAC2L,RPA3,COA6,SDHAF2,EEFSEC,RPL23A,IDH3B,ANAPC11,RRP7A,CCDC12,PTRHD1,POLM,DECR2,KIF12,THOC7,CDK5,ERCC5,GCA,CYB561D2,PCYT2,IQCC,JMJD4,MRPL52,TMEM168,HIBADH,OARD1,PRADC1,DPM1,NDUFB3,HNF4A,GLI4,MRPL55,EMG1,MED7,DDX56,UBE2G2,TMEM14B,IP6K2,PPOX,SWI5,WDR53,PPWD1,MALSU1,TRMT6,SLC37A4,MRPL20,AGK,ASTE1,EIF2B4,C20orf96,DDX55,HSCB,UCHL3,MIX23,CAPN10,FAM136A,THOC1,LSM3,WDR59,VPS50,AIMP1,TMEM176A,ACBD6,INTS11,EZH2,ZMYM5,ASL,FIS1,MRM1,STYXL1,EEF1B2,PCID2,ZNF44,SMPD2,BORA,TMEM138,TRIM13,DENND11,CHCHD2,LTO1,POLR3K,JTB,AP5Z1,DDC,SLC35B4,TCTA,TMEM251,DNAJB11,CWC15,CPSF4,GGCT,IFT80,HMGB1,RFC4,NELFE,METTL23,TMEM120A,TRMT2B,C17orf75,PCED1A,NHP2,TUSC2,C11orf98,ELP5,MRPS15,DYNLT2,MPC2,ZC3H8,RAB17,ENOSF1,POLRMT,ANKRD49,PAXBP1,DNAJC19,PQBP1,LENG1,CCDC125,COA1,GALT,TADA2A,TGDS,PEX11G,PRMT7,PHF11,RSRP1,SLC35C2,PTRH2,ZSWIM1,BCL7B,TRPT1,EIF3B,MTIF2,AK6,NIT1,HEMK1,UPF3B,TMEM218,IFT20,TMEM199,ALKBH4,C2orf68,FBXL8,MRE11,SND1,LSG1,NDUFAF7,RBM6,HMBS,KRTCAP2,ZNF862,GLYCTK,LRWD1,AK2,MCCC1,POP5,ACP1,PAXIP1,MKKS,NOM1,SCAND1,PSME3IP1,UBXN11,EME2,PTCD1,DDX41,PPCDC,KHDC4,PDCD2L,RSAD1,PNISR,RALY,ZBED6CL,RAB5IF,USP45,NCBP2,ATP5IF1,TBRG4,ATAT1,DUT,TNPO3,NDUFS6,LGALS2,NUDT1,PYM1,PLCG1,ZBTB8OS,TRMU,ATPSCKMT,PSMA2,SEM1,CUTC,STMP1,ARF5,CHTF18,ADPGK,CDPF1,CHDH,UIMC1,MKS1,DNPH1,C1orf35,TTI1,MTIF3,CDK5RAP1,KIAA0895,C7orf26,FOXRED1,BUD23,IFT88,COX11,PSMG1,SLX4IP,NPRL2,PCBD1,COQ3,KLHDC4,CCNL2,POLE2,HNF1A,RNPC3,ANKRD10,OBI1,SLC25A35,ABCB8,CNOT4,MIEN1,LSM5,DDTL,ALG5,TP53I13,COQ4,MPHOSPH9,POM121C,OSBPL7,DHRS12,PTCD3,KAT2A,ACBD4,TMEM209,SNU13,TMEM223,CSTF3,RBM26,SNRPD3,PLA2G6,XRCC2,NAPEPLD,C12orf65,SAP18,PDCD2,ENTR1,C1orf131,SLC25A10,ENDOV,DPY30,CLDN15,MRPL11,POLI,ELP6,PGAP2,PRPF39,MNX1,ERMARD,MRPL22,KIAA0753,GEMIN7,GEMIN6,RNF114,LTV1,PABIR2,HDAC10,HEXIM2,SCRN2,HSF4,ANKS3,ARGLU1,GON7,LIG4,CIAO1,SMDT1,CCNL1,SEC61G,PSPH,VPS33A,ORC5,RNF25,TMEM60,ABCF2,RBM45,HSPBAP1,YAE1,CENPS,OGG1,POLR1C,RNFT1,PSMG4,ZGPAT,TIA1,MED4,HCN3,SFXN4,PREB,ZNF3,IFI27L1,ABCD4,BRAT1,CRCP,MRPL27,PSMG3,TRAPPC3,SAYSD1,WDR46,VOPP1,IPO4,ABHD10,KPTN,MTG2,CKS1B,ZCCHC10,NAT9,NDUFA5,ABHD14A,NUDCD2,LSM2,LUC7L,URGCP,TRMT61A,COA5,DSN1,AIFM1,CENPJ,C14orf93,DPH7,SSBP1,THNSL1,CBX8,TEX30,PMS2,TRA2A,NSMCE4A,CKLF,DPH5,MRPL43,DUS1L,TOMM7,XPA,NR2C1,GPS1,RUVBL2,WBP1,TEPSIN,RBM33,RAD17,AVL9,NOL8,ADAL,NDUFAF8,NADSYN1,IMMP1L,SRRT,AGAP6,BET1,SDSL,NPLOC4,ATXN7L1,NUDT16L1,CFDP1,TRIM66,RBM39,C15orf61,DNAJC30,SLC26A6,ACOT13,HDDC3,POT1,TMEM267,IMP3,CHCHD5,C7orf50,RCC1L,RRNAD1,WDR91,IQCB1,SNF8,PIGL,CHCHD7,PAAF1,MIF4GD,DDX39A,NDUFAF6,ATAD3B,NDUFA4,MUTYH,RBM28,BANF1,DCAF8,SLC25A1,PHYKPL,SRM,RPL27,CINP,GUSB,NUP42,IFT27,PAN3,ZNHIT1,PHKG2,PMF1,HACL1,SARS2,RTN4IP1,ZC3HC1,BUD31,PIGM,POLR2J,SS18L2,SWSAP1,ERCC2,CENPT,G6PC3,PEX1,IAH1,MTPN,MTG1,FAM76B,ANAPC7,HPS1,LSM4,VPS29,APOM,AHCY,MRPS31,ANAPC2,C21orf58,TAF1C,TEFM,BIN1,COX17,ATP5MJ,AAAS,GET3,RNASEH2B,PRIMPOL,ACTR3B,CXXC1,MPV17,TXNL4A,CSTF1,GPATCH3,PUS7,NSUN5,RSBN1L,MTRF1,CEP43,MRPS33,THYN1,EIF2AK1,GCC1,GTF2E1,MCM8,PEX16,MCUR1,WSB1,GPALPP1,GTF2A2,FAM216A,COX15,TRAIP,RHEB,AUP1,ANO9,FAM228B,PDAP1,WDR61,TIGD1,CDC26,RBM10,GPS2,TRIM52,RPL36A,NFS1,NOL12,ARMC7,MOSPD3,LYRM1,CWC25,HMGN1,TTC32,ZMAT1,GOLGA8B,COMMD6,COASY,UTP6,SPATA33,TMEM230,ACP6,GSS,ZNF18,TMA7,DIDO1,ITGAE,PAM16,YBEY,CEP41,TPRKB,SPATA24,CPSF3,RBM48,EDEM2,PSMC5,TYSND1,NEDD8,AARSD1,DUSP28,RBM5,SMIM4,CEP162,THAP8,RNASEH2C,MKRN1,BCDIN3D,TOMM5,TTLL3,GALK1,MICU2,ATP5MC2,PARP6,RHBDD3,HGD,PDCD6,C17orf80,TFB1M,CDCA7L,PIGU,SPSB2,CHMP4B,MRPS14,CLRN3,OXA1L,FASTK,DXO,USPL1,MRPL38,CCDC57,RABL2B,TRAPPC2,KBTBD2,SIRT7,HINT1 | | Exist in public source | | NA |
| lncRNA targets the promoter region and positively regulates the gene expression. |
| Only predicted by TDF | | DCAF8,ANKRD39,DPH7,C22orf39,YDJC,PDCD2L,LSM5,KIZ,G6PC3,ZMAT1,WDR60,DHPS,PEX11G,PSMB3,PAAF1,ZNF3,CCDC167,FAM173B,ACP6,GTF2A2,OXLD1,CTC1,TOMM5,VRK3,STX16,RNF219,PQBP1,HEMK1,GPATCH3,MRPS31,RINT1,E4F1,SLC37A4,AVL9,PDCD6,C7orf50,SNRPC,PMS2,LRWD1,ALKBH4,ACTR3B,NDUFB1,ENOSF1,SHFM1,TIMM17B,TUSC2,COA4,LAMTOR4,MIIP,COQ3,MZF1,LSM2,RAD9A,CENPJ,C3orf62,BANF1,MCM7,FAM122B,GSTK1,QTRT1,C17orf75,KIAA0907,C14orf2,NUDT7,HSCB,MPHOSPH9,PRR13,PPCDC,C2orf68,NT5C,NUDT15,ELAC1,KPTN,WSB1,IFI27L1,NELFCD,ATPIF1,ABCD4,PTCD1,ZDHHC4,CCNL1,NUPL2,AIMP1,NIT2,AARSD1,ARIH2OS,C20orf24,ATP6V0A1,ATIC,SLC25A10,WDR91,AP4B1,TAZ | | 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 | | FAM114A1,SAMD4A,ICAM1,ANTXR2,ITPRIPL2,EMP1,RAB31,FURIN,ANTXR1,MYOF,MYH9,SUSD6,COL6A2,CHP1,HSPG2,PDLIM5,SH3PXD2A,ELK3,NIBAN2,DSE,COL6A1,VCL,ITGA9,LRP1,ITPRIP,ITGAV,GSN,EHD2,FZD6,RPS6KA2,CD276,CLIP1,UNC5B,COL5A1,ITGB1,FBXO32,PHLDA1,CDKN1A,DLC1,DUSP7,HK1,FBN1,MMP14,BMPR2,NFIC,AHNAK,PIP5K1C,APBB2,PSD3,TUBB6,PALLD,LAMA4,TSPAN14 | | 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 | | ENSG00000216895 | ENST00000472015 | exon_skip_382356 | chr3:37091466-37091538 | -6.47 | -0.1294 | LRRFIP2 | ENST00000336686 | In-frame |
| lncRNA targets by miRNA. |
 |
| LncRNA Ensembl ID | miRNA ID | LncRNA ENST ID | Binding site in lncRNA | Score | Energy | Align Len | Public source | | ENSG00000216895 | hsa-mir-574 | ENST00000401694 | chr7:155611311-155611411 | 207.00 | -101.66 | 101 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000401694 | chr7:155611543-155611644 | 158.00 | -113.30 | 91 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000401694 | chr7:155611443-155611542 | 154.00 | -109.16 | 85 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000401694 | chr7:155611644-155611738 | 141.00 | -104.27 | 88 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000460022 | chr7:155642320-155642420 | 207.00 | -101.66 | 101 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000460022 | chr7:155642841-155642939 | 192.00 | -105.95 | 98 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000460022 | chr7:155643002-155643102 | 170.00 | -106.74 | 84 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000460022 | chr7:155642452-155642551 | 154.00 | -109.16 | 85 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000474963 | chr7:155643415-155643506 | 168.00 | -106.61 | 96 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000474963 | chr7:155643317-155643410 | 157.00 | -104.13 | 90 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000474963 | chr7:155643094-155643194 | 156.00 | -106.56 | 90 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000469539 | chr7:155643286-155643386 | 207.00 | -101.66 | 101 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000469539 | chr7:155643680-155643771 | 168.00 | -106.61 | 96 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000469539 | chr7:155643582-155643675 | 157.00 | -104.13 | 90 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000469539 | chr7:155643418-155643517 | 154.00 | -109.16 | 85 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000472015 | chr7:155643567-155643666 | 154.00 | -109.16 | 85 | NA | | ENSG00000216895 | hsa-mir-574 | ENST00000472015 | chr7:155643483-155643575 | 148.00 | -95.21 | 95 | 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 | | ENSG00000216895 | ENSG00000100416 | TRMU | BLCA,BRCA,DLBC,KIRC,LGG,LIHC,PAAD,STAD,THCA,THYM,UCEC | UCEC | | | ENSG00000216895 | ENSG00000167272 | POP5 | BLCA,BRCA,CHOL,DLBC,GBM,KICH,KIRC,LAML,LIHC,PAAD,SKCM,STAD,TGCT,THCA,THYM,UCEC,UCS | UCEC | | | ENSG00000216895 | ENSG00000115541 | HSPE1 | COAD,GBM,KIRC,THCA,UCEC | UCEC | | | ENSG00000216895 | ENSG00000100479 | POLE2 | STAD,TGCT,THYM,UCEC,UCS | UCEC | |
| 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 | | ENSG00000216895 | ENSG00000146757 | ZNF92 | ENSG00000166526 | ZNF3 | 6 | ACC,CHOL,GBM,LGG,MESO,READ |
| 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 | | ENSG00000216895.7 | ENST00000401694.3 | 95 | 452 | 165 | | ENSG00000216895.7 | ENST00000460022.4 | 84 | 253 | 2 | | ENSG00000216895.7 | ENST00000474963.1 | 110 | 510 | 842 | | ENSG00000216895.7 | ENST00000469539.1 | 91 | 492 | 217 | | ENSG00000216895.7 | ENST00000472015.2 | 91 | 274 | 2 |
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