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lncRNA: ENSG00000233429

Summary for HOTAIRM1

Gene summary

Gene information	Ensembl ID	ENSG00000233429
	Gene symbol	HOTAIRM1
	Gene name	HOXA transcript antisense RNA, myeloid-specific 1
	HGNC	37117
	Entrez ID	100506311
	Gene type	antisense
	Synonyms	HOTAIRM1\|07p15.2
	UniProtAcc

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Structure and expression level for HOTAIRM1

Differentially expressed gene analysis between cancer and normal samples.

Ensembl ID	Base mean	log2FC(AD/control)	lfcSE	Stat	P-value	Adjc.p-value	DEG direction	Cancer type
ENSG00000233429	3.791788e+02	5.865801e+00	6.594098e-01	8.895532e+00	5.810000e-19	4.630000e-17	UP	GBM
ENSG00000233429	3.179319e+02	-1.379120e+00	2.760753e-01	-4.995449e+00	5.870000e-07	2.340000e-06	DOWN	KICH
ENSG00000233429	9.159001e+02	1.524472e+00	2.354792e-01	6.473912e+00	9.550000e-11	7.720000e-10	UP	KIRP
ENSG00000233429	1.964870e+02	1.042201e+00	3.287504e-01	3.170190e+00	1.523393e-03	3.772731e-03	UP	UCEC
ENSG00000233429	5.905405e+02	1.040308e+00	3.168955e-01	3.282812e+00	1.027773e-03	8.079279e-03	UP	ESCA
ENSG00000233429	3.881243e+02	1.178660e+00	1.607074e-01	7.334198e+00	2.230000e-13	9.880000e-13	UP	LUSC
ENSG00000233429	1.662257e+02	-1.483966e+00	1.246972e-01	-1.190056e+01	1.180000e-32	1.330000e-31	DOWN	BRCA

Correlation between lncRNAs and cancer stages.

LncRNA Ensembl ID	Correlation	P-value	Cancer Type	Adjc.p-value
ENSG00000233429	3.108411e-01	3.768149e-02	CHOL	3.874100e-02
ENSG00000233429	-4.716731e-01	3.073891e-06	KICH	7.576625e-06

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lncRNA-Protein interaction for HOTAIRM1

lncRNA-epigenetic factor interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID	LncRNA ENST ID	LncRNA Name	Protein Ensembl ID	Protein Name	CatRAPID Score	Lncpro Score	UniPortID	Gene Subtype	Public source
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000078487	ZCWPW1	44.94	90.5873	Q9H0M4	Epi	NA
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000143033	MTF2	8.32	92.0908	Q9Y483	TF,Epi	NA
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000112511	PHF1	4.47	91.4814	O43189	TF,Epi	NA
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000275023	MLLT6	72.17	92.7881	P55198	Epi	NA
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000116560	SFPQ	44.88	93.0156	P23246	RBP,Epi	NA
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000153487	ING1	16.21	90.6918	Q9UK53	Epi	NA

lncRNA-transcript factor interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID	LncRNA ENST ID	LncRNA Name	Protein Ensembl ID	Protein Name	CatRAPID Score	Lncpro Score	UniPortID	Gene Subtype	Public source
ENSG00000233429	ENST00000593300	HOTAIRM1	ENSG00000166987	MBD6	49.03	90.3179	Q96DN6	TF,Epi	NA
ENSG00000233429	ENST00000593300	HOTAIRM1	ENSG00000177426	TGIF1	3.64	90.2549	Q15583	TF	NA
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000130254	SAFB2	78.24	92.1699	Q14151	TF,RBP	Predict
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000065029	ZNF76	21.83	91.2984	P36508	TF	NA
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000166526	ZNF3	19.49	90.2683	P17036	TF	ChIP-seq
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000167766	ZNF83	12.92	91.3358	P51522	TF	NA
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000143033	MTF2	8.32	91.1674	Q9Y483	TF,Epi	NA

lncRNA-RNA binding protein interaction (#cancer types with positive correlation >= 5).

LncRNA Ensembl ID	LncRNA ENST ID	LncRNA Name	Protein Ensembl ID	Protein Name	CatRAPID Score	Lncpro Score	UniPortID	Gene Subtype	Public source
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000130254	SAFB2	78.24	92.9766	Q14151	TF,RBP	Predict
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000004534	RBM6	77.55	91.6609	P78332	RBP	Predict
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000116560	SFPQ	44.88	93.2412	P23246	RBP,Epi	NA
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000160917	CPSF4	29.39	90.8264	O95639	RBP	PAR-CLIP
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000070495	JMJD6	20.16	90.0012	Q6NYC1	RBP,Epi	NA
ENSG00000233429	ENST00000428939	HOTAIRM1	ENSG00000134597	RBMX2	16.95	90.3669	Q9Y388	RBP	NA
ENSG00000233429	ENST00000593300	HOTAIRM1	ENSG00000070495	JMJD6	5.93	90.7188	Q6NYC1	RBP,Epi	NA

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lncRNA-DNA interaction for HOTAIRM1

lncRNA targets the enhancer region and positively regulates the gene expression.

Only predicted by TDF

ARHGEF1,GSDMB,VAMP1,TCEA2,KRT10,ABHD17A,IFT22,TMEM234,CIRBP,PET100,RNF166,MZF1,TTC31,MAPK8IP3,TMUB1,N4BP2L2,DMTF1,L3HYPDH,ACD,RPS27A,ING1,LMBR1L,B3GAT3,GPCPD1,VMP1,CENATAC,NPEPL1,SNRPA,SAFB2,MSANTD2,CCDC14,FAAP20,CLK4,LAMTOR2,ZBED5,TTC14,RAB34,TRIP10,TAZ,SUGP1,SPG7,SRSF4,DNAJC2,ECHDC2,OGT,NOD1,RAB4B,CDC42EP5,COX19,SKAP2,CLK2,TARBP2,ILKAP,MPLKIP,POLG2,DHX34,MST1,CHKB,JAK3,BBIP1,SLC12A9,WDR83,USF1,CLK1,NASP,MOV10,CARS2,FCHSD1,CTU2,RASIP1,B3GALT6,PFDN6,INO80E,NAPB,C3orf62,LPCAT4,ORMDL1,MIIP,LPAR2,SH2D3A,AGER,MBD4,PSMB3,SPOUT1,C1orf52,CDK11A,PLD2,ATG4B,SUPT20H,FADS3,CCDC191,NXF1,DCUN1D2,PAN2,PFDN5,CCS,GIGYF1,FAM193B,PNKP,TMCO6,SLC25A28,CZIB,KLHL17,RPA3,HEXD,VCPKMT,EIF4A1,CCDC24,CCDC12,POLM,ERCC5,TRIR,FAAP100,SCNM1,GLI4,DNAJC4,LENG8,NDUFB8,JMJD6,PPP1R12C,C1orf159,DDX56,DGKA,PRR3,FAM98C,IP6K2,PPOX,MLLT6,AK1,AGK,EIF2B4,C20orf96,CAPN10,PFDN2,TMEM175,GPN2,INTS11,CTDNEP1,DUS2,SMPD2,LTO1,TRAF1,PIDD1,AP5Z1,CCDC137,CPSF4,IFT80,NAA10,FBXO44,METTL23,EXD3,NFKBID,PCED1A,ABTB1,C11orf98,CHMP2A,THOC6,ANKRD49,LEMD2,ACOT9,LENG1,FNBP4,DENND6B,CCHCR1,PLEKHA8,TRADD,PHF11,RSRP1,IL11RA,NEK8,NXT1,MBD3,TATDN2,LTB4R,ODF3B,HEMK1,RABEP2,IFT20,OGFR,PTOV1,GSAP,FBXL8,AP4M1,RBM6,TRMT13,ZNF862,S100A4,IDUA,TMEM134,POP5,MYL5,NLRP1,CNPY4,PDGFA,TNFRSF14,SCAND1,PSME3IP1,STK32C,WDR27,CASP1,UBXN11,EME2,KHDC4,CROCC,PLXNB1,R3HDM4,PNISR,RP9,SFPQ,ARHGEF25,AMT,TRIOBP,NOSIP,ENKD1,ZNF10,SRSF7,BLOC1S1,ATAT1,IFFO1,NUDT1,ZBTB8OS,RASSF1,TRMU,MYPOP,PSMA2,SEM1,STARD3,CHTF18,HES1,CDPF1,C1orf35,C7orf26,BUD23,TBRG1,ZCWPW1,EML3,KLHDC4,CCNL2,CLK3,RNPC3,ANKRD10,INCA1,VPS9D1,GABBR1,CHTOP,ZDHHC8,LSM5,RFNG,DDTL,SGSM3,TP53I13,C1orf174,COQ4,CCNT2,OSBPL7,STX10,SEPTIN1,KAT2A,ACBD4,SIPA1,RBM26,RNPS1,RBM25,ENTR1,CYBC1,SLC27A3,RHPN1,CLDN15,FAM50A,PRPF39,ERMARD,MIB2,PHF1,HDAC10,SCRN2,GMFG,HSF4,ANKS3,ARGLU1,NOXA1,MAPK7,CCNL1,PIGQ,ANKRD54,RASSF7,VMAC,TAF10,RNF25,BCL2L12,HSPBAP1,CRYGS,MOB3C,PSMG4,PPM1M,TIA1,MED4,ZNF83,TMUB2,ARFRP1,NSUN6,ZNF3,BRAT1,PELP1,PSMG3,VOPP1,NEIL1,ZMYND19,RNF215,PLCB2,NAT9,UBA7,ABHD14A,LUC7L,LSM2,PNN,COA5,DPH7,POU6F1,TRA2A,NSMCE4A,CEP131,DUS1L,TOMM7,NR2C1,CRTC2,APBB3,WBP1,RBM33,LRCH4,SRRT,AGAP6,GGA3,WRAP73,RBM39,ODF2L,SLC26A6,SLC25A27,IRF3,TMEM267,C7orf50,RRNAD1,PIGL,NEK3,CSAD,KIAA0895L,DDX39A,ATAD3B,SAMD10,MUTYH,BCL7C,DCAF8,PHYKPL,RPL27,NUP42,IFT27,RECQL5,PAN3,ZNHIT1,PHKG2,NARF,ARHGAP4,POLR2J,SS18L2,SWSAP1,SENP3,CENPT,MTG1,HSPA1A,POGZ,ARRDC2,SH2B2,RHOG,ANAPC2,TAF1C,LCAT,ARHGAP45,RPS11,CXXC1,MRNIP,MPV17,ELMOD3,NSUN5,MTRF1,ZYX,HDAC7,PGLS,PGGHG,TELO2,WSB1,STK19,AUP1,ARPC1B,WASHC1,TIGD1,KLC1,GPS2,TRIM52,RPL36A,PCBP4,THAP3,NOL12,CLASRP,TTC13,MBD6,STK36,TRAF4,TTC32,GOLGA8B,COMMD6,UTP6,ACP6,TMA7,GOLGA8A,PAM16,TCIRG1,TGIF1,AARSD1,DUSP28,SEPTIN7,RBM5,NKTR,YPEL3,RBMS1,PLEKHO1,TTLL3,REX1BD,RCBTB2,DENND4B,FASTK,CYHR1,SIRT6,MAN2C1,DXO,USPL1,ANKRD13D,MRPL38,CCDC57,RABL2B,KBTBD2,SIRT7

Exist in public source

HOXA1

lncRNA targets the promoter region and positively regulates the gene expression.

Only predicted by TDF

DCAF8,CCDC14,POU6F1,SGSM3,DPH7,RP9,LAMTOR2,TNFRSF25,GTF2H4,DGKA,WBP1,C1orf174,CCDC88B,CNPY4,DTX2,PSMB3,JMJD6,C16orf13,ZNF3,PGLS,IFT80,EFHC1,ACP6,OXLD1,LPAR2,TGIF1,STX16,TNFSF12,CRTC2,HEMK1,LIMD2,TIA1,UBA7,NOSIP,E4F1,RBM5,INO80B,IRF5,HES1,KLHDC4,IER5,AIP,C9orf114,C7orf50,HSPA1A,CCHCR1,ZNF83,USF1,MPLKIP,TATDN2,SHFM1,DNAJC4,THAP3,TRAF1,MED4,DCUN1D2,ZYX,CLASRP,LUC7L,MAP3K6,MAPK8IP3,MIIP,TMCO6,LAMTOR4,TRABD,MZF1,ARHGAP4,LSM2,RAD9A,TMEM134,C3orf62,SLC25A14,VAMP1,CXXC1,QTRT1,PRR5,RPSA,MYL5,INO80E,KIAA0907,PRR14,CARD16,PSMA2,RBMX2,NAA10,BBIP1,ACCS,ENGASE,CCDC137,ARFRP1,DHX34,NT5C,LEMD2,CSAD,GGA1,WSB1,CCDC130,RNF25,FBXL8,RABL2B,SCNM1,RHOG,ARRDC2,JUND,COMMD3,TRIOBP,ING5,STK36,POLR2J,CCNL1,NUPL2,CCDC61,AARSD1,POP5,SUN1,NEK8,PAN3,PPP1R12C,RBM6,PLCB2,ZMYND19,TRADD,C20orf96,UFSP1,ERMARD,NUDT1,FOXK2,AP4B1,ZFAND2A,MDM4,CIRBP,TAZ,C9orf16

Exist in public source

lncRNA targets the promoter region and negatively regulates the gene expression.

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lncRNA-RNA interaction for HOTAIRM1

lncRNA targets the 3'UTR region and negatively regulates the mRNA.

Only predicted by lncTar

DDB1,CANX,NCBP1,IDH2,MFAP3,LMAN1,LPCAT3,PJA2,HSPA8

Exist in public source

lncRNA targets the skipped exon region.

-lncRNA and exonskipping events are positively correlated.

LncRNA Ensembl ID

LncRNA ENST ID

Exon ID

Skipped Exon

ndG

Gene name with skipped exon

TransID with skipped exon

ORF mutation

-lncRNA and exonskipping events are negatively correlated.

lncRNA and exonskipping events negative correlated

LncRNA Ensembl ID	LncRNA ENST ID	Exon ID	Skipped Exon	dG	ndG	Gene name with skipped exon	TransID with skipped exon	LOF
ENSG00000233429	ENST00000593300	exon_skip_387016	chr3:121788283-121788432	-15.78	-0.1372	IQCB1	ENST00000310864	Frame-shift
ENSG00000233429	ENST00000428939	exon_skip_441368	chr5:32380074-32380172	-13.96	-0.1623	ZFR	ENST00000265069	Frame-shift
ENSG00000233429	ENST00000593300	exon_skip_370518	chr22:50247691-50247776	-9.71	-0.1471	HDAC10	ENST00000216271	Frame-shift
ENSG00000233429	ENST00000593300	exon_skip_377198	chr3:123130479-123130616	-14.95	-0.1124	PDIA5	ENST00000316218	Frame-shift
ENSG00000233429	ENST00000593300	exon_skip_382458	chr3:38131595-38131638	-9.13	-0.2536	ACAA1	ENST00000333167	Frame-shift
ENSG00000233429	ENST00000425358	exon_skip_442657	chr5:74730259-74730398	-11.09	-0.1246	GFM2	ENST00000296805,ENST00000509430	Frame-shift
ENSG00000233429	ENST00000593300	exon_skip_470226	chr7:103307595-103307708	-11.98	-0.1346	PMPCB	ENST00000249269	Frame-shift
ENSG00000233429	ENST00000593300	exon_skip_13857	chr1:168038370-168038488	-19.21	-0.2022	DCAF6	ENST00000312263	Frame-shift

lncRNA targets by miRNA.

LncRNA Ensembl ID

miRNA ID

LncRNA ENST ID

Binding site in lncRNA

Score

Energy

Align Len

Public source

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Variants for HOTAIRM1

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

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lncRNAs regulate the target genes through functioning as enhancers

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
ENSG00000233429	ENSG00000005075	POLR2J	ACC,GBM,HNSC,KIRC,KIRP,LAML,TGCT	GBM,KIRP
ENSG00000233429	ENSG00000006025	OSBPL7	ACC,BLCA,CHOL,DLBC,KICH,KIRC,KIRP	KIRP
ENSG00000233429	ENSG00000071859	FAM50A	ACC,HNSC,KIRC,KIRP,LAML	KIRP
ENSG00000233429	ENSG00000100429	HDAC10	ACC,BLCA,CHOL,DLBC,HNSC,KIRC,KIRP,LAML,SARC,TGCT	KIRP
ENSG00000233429	ENSG00000102125	TAZ	ACC,BLCA,CHOL,GBM,HNSC,KICH,KIRC,KIRP,LAML,PAAD,SKCM	KIRP
ENSG00000233429	ENSG00000105538	RASIP1	ACC,BRCA,CHOL,KICH,PAAD		BRCA,KICH
ENSG00000233429	ENSG00000106268	NUDT1	ACC,CHOL,GBM,HNSC,KIRP	GBM,KIRP
ENSG00000233429	ENSG00000108773	KAT2A	ACC,BLCA,CHOL,HNSC,KICH,KIRC,KIRP,PAAD	KIRP
ENSG00000233429	ENSG00000127922	SEM1	ACC,DLBC,GBM,HNSC,KIRC,KIRP,SKCM,TGCT	GBM,KIRP
ENSG00000233429	ENSG00000130305	NSUN5	ACC,CHOL,GBM,HNSC,KIRC,KIRP,LGG	KIRP
ENSG00000233429	ENSG00000130313	PGLS	ACC,HNSC,KIRP,LAML,SARC	KIRP
ENSG00000233429	ENSG00000130429	ARPC1B	ACC,CHOL,KICH,KIRP,LAML	KIRP
ENSG00000233429	ENSG00000132522	GPS2	ACC,BLCA,BRCA,CHOL,GBM,KIRC,KIRP,LAML,PAAD,SKCM	KIRP
ENSG00000233429	ENSG00000143554	SLC27A3	ACC,KICH,KIRC,KIRP,LGG,THYM	KIRP
ENSG00000233429	ENSG00000158062	UBXN11	ACC,CHOL,DLBC,HNSC,KICH,KIRC,KIRP,LAML,SKCM	KIRP	KICH
ENSG00000233429	ENSG00000168096	ANKS3	ACC,BLCA,DLBC,GBM,HNSC,KIRC,KIRP,PAAD,SKCM,STAD	KIRP
ENSG00000233429	ENSG00000177595	PIDD1	ACC,CHOL,DLBC,KIRC,KIRP,PAAD,SKCM	KIRP
ENSG00000233429	ENSG00000184465	WDR27	ACC,BRCA,CHOL,KIRC,KIRP,PAAD	KIRP
ENSG00000233429	ENSG00000186166	CENATAC	ACC,BLCA,BRCA,CHOL,COAD,GBM,KIRC,KIRP,PAAD,SKCM,STAD	KIRP
ENSG00000233429	ENSG00000197948	FCHSD1	ACC,BLCA,BRCA,CHOL,COAD,KICH,KIRC,KIRP,LAML,LGG,PAAD	KIRP
ENSG00000233429	ENSG00000204149	AGAP6	ACC,BLCA,CHOL,COAD,KIRC,KIRP,PAAD,SKCM,STAD,UCS	KIRP
ENSG00000233429	ENSG00000204305	AGER	ACC,BLCA,BRCA,CHOL,HNSC,KIRC,KIRP,PAAD,UCS	KIRP
ENSG00000233429	ENSG00000204389	HSPA1A	ACC,CHOL,ESCA,KICH,LAML,READ	ESCA	KICH
ENSG00000233429	ENSG00000204681	GABBR1	ACC,COAD,HNSC,KICH,KIRC,KIRP,STAD	KIRP
ENSG00000233429	ENSG00000214021	TTLL3	ACC,BLCA,CHOL,KIRC,KIRP,PAAD,SKCM,STAD,UCS	KIRP
ENSG00000233429	ENSG00000215252	GOLGA8B	ACC,BLCA,BRCA,CHOL,COAD,KIRC,KIRP,PAAD,SKCM,STAD,UCS	KIRP
ENSG00000233429	ENSG00000221978	CCNL2	ACC,BLCA,BRCA,CHOL,COAD,HNSC,KICH,KIRC,KIRP,PAAD,SKCM,UCS	KIRP
ENSG00000233429	ENSG00000277791	PSMB3	ACC,HNSC,KICH,KIRP,LAML	KIRP
ENSG00000233429	ENSG00000073605	GSDMB	BLCA,CHOL,KIRC,KIRP,UCS	KIRP
ENSG00000233429	ENSG00000091592	NLRP1	BLCA,BRCA,CHOL,KIRC,KIRP		BRCA
ENSG00000233429	ENSG00000105991	HOXA1	BLCA,CESC,DLBC,ESCA,HNSC,KIRP,SKCM,STAD,TGCT,UCS	ESCA,KIRP
ENSG00000233429	ENSG00000121310	ECHDC2	BLCA,BRCA,KICH,KIRC,KIRP,LGG,STAD,THYM		KICH
ENSG00000233429	ENSG00000127415	IDUA	BLCA,KICH,KIRC,KIRP,SARC	KIRP
ENSG00000233429	ENSG00000135722	FBXL8	BLCA,CHOL,HNSC,KICH,KIRC,KIRP,PAAD,SARC	KIRP
ENSG00000233429	ENSG00000138834	MAPK8IP3	BLCA,CHOL,KIRC,KIRP,SKCM	KIRP
ENSG00000233429	ENSG00000157873	TNFRSF14	BLCA,CHOL,KIRP,LGG,PAAD	KIRP
ENSG00000233429	ENSG00000158106	RHPN1	BLCA,KIRC,KIRP,SARC,UCS	KIRP
ENSG00000233429	ENSG00000164050	PLXNB1	BLCA,KICH,KIRC,KIRP,THYM		KICH
ENSG00000233429	ENSG00000167617	CDC42EP5	BLCA,CHOL,HNSC,KICH,SARC		KICH
ENSG00000233429	ENSG00000173531	MST1	BLCA,KICH,KIRP,THYM,UCS		KICH
ENSG00000233429	ENSG00000175265	GOLGA8A	BLCA,BRCA,CHOL,KICH,KIRC,KIRP,PAAD,SKCM,STAD,UCS	KIRP	BRCA
ENSG00000233429	ENSG00000181513	ACBD4	BLCA,KICH,KIRP,LAML,UCS		KICH
ENSG00000233429	ENSG00000196123	KIAA0895L	BLCA,HNSC,KICH,KIRC,KIRP,SKCM,UCS	KIRP
ENSG00000233429	ENSG00000197774	EME2	BLCA,CHOL,DLBC,GBM,KIRC,KIRP,PAAD,SKCM	KIRP
ENSG00000233429	ENSG00000205593	DENND6B	BLCA,HNSC,KICH,KIRC,KIRP,THYM,UCS		KICH
ENSG00000233429	ENSG00000215375	MYL5	BLCA,DLBC,KICH,KIRC,KIRP,LAML	KIRP
ENSG00000233429	ENSG00000005020	SKAP2	BRCA,CHOL,COAD,GBM,LAML,LGG,OV,READ,SARC,SKCM,STAD,UCEC,UCS		BRCA
ENSG00000233429	ENSG00000010295	IFFO1	BRCA,CHOL,KICH,KIRC,KIRP,PAAD	KIRP
ENSG00000233429	ENSG00000105643	ARRDC2	BRCA,DLBC,KICH,KIRP,LAML	KIRP
ENSG00000233429	ENSG00000106404	CLDN15	BRCA,DLBC,KICH,KIRC,KIRP,SKCM		KICH
ENSG00000233429	ENSG00000125733	TRIP10	BRCA,KICH,KIRC,KIRP,LGG		KICH
ENSG00000233429	ENSG00000129219	PLD2	BRCA,KICH,KIRP,LAML,PAAD,UCS	KIRP
ENSG00000233429	ENSG00000136161	RCBTB2	BRCA,CHOL,GBM,KICH,KIRP		BRCA
ENSG00000233429	ENSG00000137070	IL11RA	BRCA,HNSC,KICH,KIRC,KIRP		BRCA
ENSG00000233429	ENSG00000159840	ZYX	BRCA,KICH,KIRP,LAML,PAAD	KIRP
ENSG00000233429	ENSG00000167604	NFKBID	BRCA,CHOL,KIRC,KIRP,PAAD	KIRP
ENSG00000233429	ENSG00000184271	POU6F1	BRCA,CHOL,KIRC,KIRP,THYM		BRCA
ENSG00000233429	ENSG00000197461	PDGFA	BRCA,KICH,KIRC,KIRP,LGG,READ	KIRP	BRCA,KICH
ENSG00000233429	ENSG00000213398	LCAT	BRCA,HNSC,KICH,KIRC,KIRP,PAAD,STAD	KIRP
ENSG00000233429	ENSG00000240771	ARHGEF25	BRCA,KICH,KIRC,KIRP,LGG		KICH
ENSG00000233429	ENSG00000102871	TRADD	CHOL,HNSC,KICH,KIRP,LAML	KIRP
ENSG00000233429	ENSG00000105639	JAK3	CHOL,KIRP,PAAD,TGCT,UCS	KIRP
ENSG00000233429	ENSG00000106009	BRAT1	CHOL,GBM,HNSC,KICH,KIRC,KIRP,LAML,LGG,SARC,SKCM	GBM
ENSG00000233429	ENSG00000106399	RPA3	CHOL,GBM,HNSC,KICH,KIRP,LGG,SKCM	GBM
ENSG00000233429	ENSG00000122417	ODF2L	CHOL,KICH,KIRC,KIRP,PAAD		KICH
ENSG00000233429	ENSG00000127586	CHTF18	CHOL,HNSC,KICH,KIRC,KIRP,SKCM	KIRP
ENSG00000233429	ENSG00000142102	PGGHG	CHOL,KICH,KIRC,KIRP,TGCT,UCS	KIRP
ENSG00000233429	ENSG00000161960	EIF4A1	CHOL,KIRC,KIRP,PAAD,SKCM,UCS	KIRP
ENSG00000233429	ENSG00000167543	TP53I13	CHOL,DLBC,HNSC,KICH,KIRC,KIRP,LGG	KIRP
ENSG00000233429	ENSG00000175455	CCDC14	CHOL,COAD,GBM,KICH,KIRC,KIRP,PAAD,SKCM	KIRP
ENSG00000233429	ENSG00000180448	ARHGAP45	CHOL,KIRP,LAML,PAAD,TGCT	KIRP
ENSG00000233429	ENSG00000186088	GSAP	CHOL,COAD,KIRC,KIRP,LGG	KIRP
ENSG00000233429	ENSG00000196154	S100A4	CHOL,DLBC,KICH,LAML,LGG,TGCT		KICH
ENSG00000233429	ENSG00000213139	CRYGS	CHOL,DLBC,KIRP,PAAD,TGCT	KIRP
ENSG00000233429	ENSG00000256525	POLG2	CHOL,COAD,KICH,KIRC,KIRP,PAAD,STAD	KIRP
ENSG00000233429	ENSG00000137343	ATAT1	COAD,DLBC,KICH,KIRC,KIRP,PAAD,SKCM		KICH
ENSG00000233429	ENSG00000124074	ENKD1	DLBC,HNSC,KICH,KIRC,KIRP	KIRP
ENSG00000233429	ENSG00000128581	IFT22	DLBC,KICH,KIRP,LGG,SKCM		KICH
ENSG00000233429	ENSG00000186395	KRT10	DLBC,KICH,KIRC,KIRP,LGG	KIRP
ENSG00000233429	ENSG00000213903	LTB4R	DLBC,KIRC,KIRP,LAML,THYM,UCS	KIRP
ENSG00000233429	ENSG00000221838	AP4M1	DLBC,GBM,KICH,KIRC,KIRP,LGG,SKCM	GBM
ENSG00000233429	ENSG00000115204	MPV17	GBM,KICH,KIRP,LGG,PAAD	KIRP
ENSG00000233429	ENSG00000167272	POP5	GBM,HNSC,KICH,KIRC,KIRP	GBM
ENSG00000233429	ENSG00000062716	VMP1	HNSC,KICH,KIRC,KIRP,LAML,PAAD	KIRP	KICH
ENSG00000233429	ENSG00000109113	RAB34	HNSC,KICH,KIRP,LGG,PAAD	KIRP	KICH
ENSG00000233429	ENSG00000177989	ODF3B	HNSC,KICH,KIRC,KIRP,LAML,TGCT	KIRP

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lncRNAs regulate the target genes through recruiting transcript factors

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
ENSG00000233429	ENSG00000167766	ZNF83	ENSG00000175455	CCDC14	6	CHOL,COAD,KICH,KIRC,KIRP,SKCM
ENSG00000233429	ENSG00000167766	ZNF83	ENSG00000096093	EFHC1	6	CHOL,COAD,KICH,KIRC,KIRP,SKCM
ENSG00000233429	ENSG00000167766	ZNF83	ENSG00000124222	STX16	5	CHOL,COAD,KICH,KIRC,KIRP
ENSG00000233429	ENSG00000167766	ZNF83	ENSG00000116001	TIA1	5	CHOL,KICH,KIRC,KIRP,SKCM
ENSG00000233429	ENSG00000167766	ZNF83	ENSG00000150401	DCUN1D2	5	CHOL,COAD,KIRC,KIRP,SKCM
ENSG00000233429	ENSG00000167766	ZNF83	ENSG00000104859	CLASRP	5	CHOL,KICH,KIRC,KIRP,SKCM
ENSG00000233429	ENSG00000167766	ZNF83	ENSG00000007392	LUC7L	6	CHOL,COAD,KICH,KIRC,KIRP,SKCM
ENSG00000233429	ENSG00000167766	ZNF83	ENSG00000099326	MZF1	5	KICH,KIRC,KIRP,PRAD,SKCM
ENSG00000233429	ENSG00000167766	ZNF83	ENSG00000132680	KHDC4	5	CHOL,COAD,KICH,KIRC,KIRP
ENSG00000233429	ENSG00000167766	ZNF83	ENSG00000109046	WSB1	5	CHOL,COAD,KICH,KIRC,KIRP
ENSG00000233429	ENSG00000167766	ZNF83	ENSG00000104957	CCDC130	5	CHOL,KICH,KIRC,KIRP,SKCM
ENSG00000233429	ENSG00000167766	ZNF83	ENSG00000163660	CCNL1	5	CHOL,COAD,KIRC,KIRP,SKCM
ENSG00000233429	ENSG00000167766	ZNF83	ENSG00000136243	NUP42	5	CHOL,COAD,KIRC,KIRP,SKCM
ENSG00000233429	ENSG00000065029	ZNF76	ENSG00000004534	RBM6	5	CHOL,KICH,KIRC,KIRP,MESO
ENSG00000233429	ENSG00000167766	ZNF83	ENSG00000004534	RBM6	6	CHOL,KICH,KIRC,KIRP,PRAD,SKCM
ENSG00000233429	ENSG00000167766	ZNF83	ENSG00000198625	MDM4	6	CHOL,COAD,KICH,KIRC,KIRP,SKCM

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

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lncRNAs regulate the alternative splicing event through interacting with splicing factor

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

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lncRNAs regulate mRNA through targeting the 3'-UTR region

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
ENSG00000233429	ENST00000495032	IDH2	ENSG00000182054	ENST00000330062	-0.1855	1	KICH,BRCA	KIRP,ESCA
ENSG00000233429	ENST00000495032	IDH2	ENSG00000182054	ENST00000560061	-0.1986	1	KICH,BRCA	KIRP,ESCA
ENSG00000233429	ENST00000495032	IDH2	ENSG00000182054	ENST00000559482	-0.1736	1	KICH,BRCA	KIRP,ESCA
ENSG00000233429	ENST00000495032	IDH2	ENSG00000182054	ENST00000540499	-0.3419	83	KICH,BRCA	KIRP,ESCA
ENSG00000233429	ENST00000495032	LPCAT3	ENSG00000111684	ENST00000535479	-0.1309	1	KICH	-
ENSG00000233429	ENST00000495032	LPCAT3	ENSG00000111684	ENST00000261407	-0.1309	1	KICH	-
ENSG00000233429	ENST00000495032	LPCAT3	ENSG00000111684	ENST00000540090	-0.1231	1	KICH	-
ENSG00000233429	ENST00000495032	LPCAT3	ENSG00000111684	ENST00000543794	-0.1231	1	KICH	-
ENSG00000233429	ENST00000495032	LPCAT3	ENSG00000111684	ENST00000536797	-0.1471	1	KICH	-
ENSG00000233429	ENST00000495032	LPCAT3	ENSG00000111684	ENST00000538910	-0.1237	22	KICH	-
ENSG00000233429	ENST00000434063	IDH2	ENSG00000182054	ENST00000559482	-0.1151	19	KICH,BRCA	KIRP,ESCA
ENSG00000233429	ENST00000434063	IDH2	ENSG00000182054	ENST00000540499	-0.2536	174	KICH,BRCA	KIRP,ESCA
ENSG00000233429	ENST00000429611	IDH2	ENSG00000182054	ENST00000559482	-0.1557	135	KICH,BRCA	KIRP,ESCA
ENSG00000233429	ENST00000429611	IDH2	ENSG00000182054	ENST00000540499	-0.3134	243	KICH,BRCA	KIRP,ESCA
ENSG00000233429	ENST00000425358	IDH2	ENSG00000182054	ENST00000559482	-0.1402	1	KICH,BRCA	KIRP,ESCA
ENSG00000233429	ENST00000425358	IDH2	ENSG00000182054	ENST00000540499	-0.3131	158	KICH,BRCA	KIRP,ESCA
ENSG00000233429	ENST00000428939	IDH2	ENSG00000182054	ENST00000559482	-0.1054	129	KICH,BRCA	KIRP,ESCA
ENSG00000233429	ENST00000428939	IDH2	ENSG00000182054	ENST00000540499	-0.3131	237	KICH,BRCA	KIRP,ESCA
ENSG00000233429	ENST00000593300	IDH2	ENSG00000182054	ENST00000540499	-0.1799	360	KICH,BRCA	KIRP,ESCA

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lncRNAs regulate mRNA by competing with miRNA

lncRNA regulates mRNA by competing the miRNA binding site with mRNA.

LncRNA Ensembl ID

lncRNA-miRNA-mRNA

Cancer Types

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lncRNA coding potential

ORFfinder result for the gencode.v22.lncRNA.transcript.fa.

lncRNA Ensembl ID	lncRNA ENST ID	length(AA)	start at transcript	end at transcript
ENSG00000233429.8	ENST00000495032.1	169	688	1197
ENSG00000233429.8	ENST00000434063.3	39	45	161
ENSG00000233429.8	ENST00000429611.6	96	337	47
ENSG00000233429.8	ENST00000425358.2	138	433	17
ENSG00000233429.8	ENST00000428939.3	116	348	1
ENSG00000233429.8	ENST00000593300.1	80	416	658

	lncRNA summary
	lncRNA structure and expression level
	lncRNA-Protein interaction
	lncRNA-DNA interaction
	lncRNA-RNA interaction
	Variants in lncRNA
	lncRNAs regulate the target genes through functioning as enhancers
	lncRNAs regulate the target genes through recruiting transcript factors
	lncRNAs regulate the alternative splicing events through interacting with splicing factor
	lncRNAs regulate mRNA through targeting the 3'-UTR region
	lncRNAs regulate mRNA by competing with miRNA
	lncRNA coding potential