Cancer CRCdb

TF information

TF name:	RFX2
TF family:	RFX
Ensembl gene ID:	ENSG00000087903
Ensembl protein ID:	ENSP00000306335, ENSP00000467166, ENSP00000352076, ENSP00000467736, ENSP00000465122
Entrez gene ID:	5990

Database name	Link	Database name	Link
NCBI Gene:		Genecards:
Uniprot:		Wikipedia:
Cosmic 3D:		Geneontology:
CCLE:

Frequency of RFX2 in all biosamples

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Sample ID	Biosample type	Tissue type	Biosample name	TF Frequency
Sample_02_021	Cell line	Colon	V429	0.5577976362064
Sample_02_069	Cell line	Brain	SF268	0.31297709923664
Sample_02_196	Cell line	Stomach	NCC59	0.57142857142857
Sample_02_198	Cell line	Stomach	SNU16	1
Sample_02_199	Cell line	Stomach	KATO3	0.66666666666667
Sample_02_204	Cell line	Stomach	IM95	0.63636363636364
Sample_02_236	Cell line	Colon	V206	0.65424430641822
Sample_02_237	Cell line	Colon	V389	0.40570587152586
Sample_02_241	Cell line	Colon	V456	0.48645598194131
Sample_02_268	Cell line	Kidney	A-498	0.39708325641499
Sample_02_430	Cell line	Kidney	12364284	0.125

RFX2 distribution in samples’ most representative CRC

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Sample ID	Tissue type	Biosample type	Biosample name
Sample_02_021	Colon	Cell line	V429
Sample_02_198	Stomach	Cell line	SNU16
Sample_02_204	Stomach	Cell line	IM95
Sample_02_236	Colon	Cell line	V206
Sample_02_241	Colon	Cell line	V456

RFX2 distribution in all CRCs

Genomic distribution of SEs associated with RFX2

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Mutation of RFX2

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Database name	Link
gnomAD:	gnomAD
ExAC:	ExAC
ICGC:

Database name	Link
Cosmic:
Cosmic cell lines:
Depmap:

TCGA somatic mutations and clinical variants of RFX2

rsID	Chr	Start	Stop	Ref	Alt	Gene_region	Gene_symble	Effect	TCGA_Occurrence
-	chr19	6042128	6042128	G	A	exonic	RFX2	nonsynonymous	CESC\|1\|194\|0.00515
-	chr19	6040087	6040087	G	C	exonic	RFX2	nonsynonymous	LUSC\|1\|178\|0.00562
-	chr19	5997073	5997073	C	T	exonic	RFX2	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr19	6040081	6040081	G	A	exonic	RFX2	synonymous	SKCM\|1\|368\|0.00272
rs774312384	chr19	5997146	5997146	G	A	exonic	RFX2	synonymous	GBM\|1\|290\|0.00345,GBMLGG\|1\|820\|0.00122
-	chr19	6001886	6001886	G	T	exonic	RFX2	nonsynonymous	BRCA\|2\|982\|0.00204
rs113109060	chr19	6047439	6047439	C	T	exonic	RFX2	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr19	6040245	6040245	C	G	exonic	RFX2	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr19	6004288	6004288	C	T	exonic	RFX2	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr19	6040096	6040096	G	A	exonic	RFX2	synonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr19	6002856	6002856	T	C	exonic	RFX2	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr19	6001995	6001995	C	T	exonic	RFX2	nonsynonymous	HNSC\|1\|512\|0.00195
-	chr19	6026250	6026250	T	A	splicing	RFX2	splicing	LUAD\|1\|543\|0.00184
-	chr19	6007099	6007099	C	T	exonic	RFX2	stopgain	BLCA\|1\|396\|0.00253
-	chr19	6004277	6004277	T	A	exonic	RFX2	stopgain	HNSC\|1\|512\|0.00195
-	chr19	6026217	6026217	-	T	exonic	RFX2	frameshift	ESCA\|1\|185\|0.00541,KIPAN\|1\|799\|0.00125,KIRC\|1\|451\|0.00222
-	chr19	6016244	6016244	A	C	exonic	RFX2	synonymous	LUAD\|1\|543\|0.00184
rs200898749	chr19	5997113	5997113	G	A	exonic	RFX2	synonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr19	6007126	6007126	C	A	exonic	RFX2	synonymous	LUAD\|1\|543\|0.00184
rs762884348	chr19	6013057	6013057	C	T	exonic	RFX2	nonsynonymous	DLBC\|1\|48\|0.02083
rs772420460	chr19	6013025	6013025	G	T	exonic	RFX2	synonymous	LIHC\|1\|373\|0.00268
rs773748953	chr19	6002844	6002844	C	T	exonic	RFX2	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr19	6016190	6016190	C	T	exonic	RFX2	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr19	5997222	5997222	G	A	exonic	RFX2	nonsynonymous	SKCM\|1\|368\|0.00272
rs767084173	chr19	6001988	6001988	C	T	exonic	RFX2	nonsynonymous	STAD\|3\|395\|0.00759,STES\|3\|395\|0.00759
-	chr19	6016224	6016224	G	T	exonic	RFX2	nonsynonymous	COADREAD\|1\|489\|0.00204,READ\|1\|122\|0.00820,STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253,UCEC\|1\|248\|0.00403
-	chr19	5994902	5994902	C	T	exonic	RFX2	nonsynonymous	BLCA\|2\|396\|0.00505
rs371410292	chr19	6007164	6007164	C	T	exonic	RFX2	nonsynonymous	HNSC\|1\|512\|0.00195,STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr19	6016170	6016170	T	C	exonic	RFX2	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
rs777061029	chr19	6004252	6004252	T	C	exonic	RFX2	nonsynonymous	KICH\|1\|66\|0.01515,KIPAN\|1\|799\|0.00125
rs200963067	chr19	6040007	6040007	C	T	exonic	RFX2	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr19	5997168	5997168	T	A	exonic	RFX2	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr19	6040054	6040054	G	T	exonic	RFX2	synonymous	HNSC\|2\|512\|0.00391
rs752822956	chr19	6002804	6002804	C	T	exonic	RFX2	synonymous	UCEC\|1\|248\|0.00403
-	chr19	6001944	6001944	G	C	exonic	RFX2	nonsynonymous	ESCA\|1\|185\|0.00541
-	chr19	6004218	6004218	C	G	exonic	RFX2	nonsynonymous	BRCA\|1\|982\|0.00102
rs759734629	chr19	6010242	6010242	G	A	exonic	RFX2	nonsynonymous	ESCA\|1\|185\|0.00541
-	chr19	6004294	6004294	G	A	exonic	RFX2	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
rs111454935	chr19	6042053	6042053	A	G	splicing	RFX2	splicing	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr19	6040129	6040129	G	A	exonic	RFX2	synonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr19	6042100	6042100	A	G	exonic	RFX2	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
rs764867079	chr19	5997191	5997191	G	A	exonic	RFX2	synonymous	KIPAN\|1\|799\|0.00125,KIRC\|1\|451\|0.00222,LUAD\|1\|543\|0.00184
rs770280050	chr19	6002838	6002838	G	A	exonic	RFX2	nonsynonymous	PRAD\|1\|499\|0.00200
-	chr19	6016273	6016273	G	A	exonic	RFX2	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr19	6040227	6040227	C	T	exonic	RFX2	nonsynonymous	BLCA\|1\|396\|0.00253
rs373007421	chr19	5995648	5995648	C	T	exonic	RFX2	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr19	6042117	6042117	G	A	exonic	RFX2	synonymous	PAAD\|1\|185\|0.00541
rs775896111	chr19	6013034	6013034	T	C	exonic	RFX2	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr19	6004297	6004297	T	C	exonic	RFX2	nonsynonymous	PRAD\|1\|499\|0.00200
rs200247864	chr19	5994940	5994940	C	T	exonic	RFX2	nonsynonymous	BLCA\|1\|396\|0.00253
rs779277930	chr19	6013023	6013023	C	T	exonic	RFX2	synonymous	KIPAN\|2\|799\|0.00250,KIRC\|2\|451\|0.00443
rs147306532	chr19	5997179	5997179	G	A	exonic	RFX2	synonymous	LUAD\|1\|543\|0.00184
-	chr19	6007048	6007048	G	A	exonic	RFX2	synonymous	SKCM\|1\|368\|0.00272
-	chr19	6007781	6007781	G	A	exonic	RFX2	synonymous	BRCA\|1\|982\|0.00102
-	chr19	6004311	6004311	T	C	splicing	RFX2	splicing	UCEC\|1\|248\|0.00403
rs149347777	chr19	6007159	6007159	G	A	exonic	RFX2	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr19	5997151	5997151	A	G	exonic	RFX2	nonsynonymous	SKCM\|1\|368\|0.00272
rs753387032	chr19	6016119	6016119	G	A	exonic	RFX2	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
rs571540930	chr19	5997117	5997117	C	T	exonic	RFX2	nonsynonymous	PRAD\|1\|499\|0.00200
-	chr19	6013117	6013117	C	A	splicing	RFX2	splicing	ESCA\|1\|185\|0.00541
-	chr19	6016274	6016274	C	T	exonic	RFX2	stopgain	SKCM\|1\|368\|0.00272
rs368023215	chr19	5994951	5994951	G	A	exonic	RFX2	synonymous	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
-	chr19	5997222	5997222	G	T	exonic	RFX2	nonsynonymous	ESCA\|1\|185\|0.00541
-	chr19	6001899	6001899	G	A	exonic	RFX2	synonymous	SKCM\|1\|368\|0.00272
rs140937075	chr19	6002737	6002737	C	G	exonic	RFX2	nonsynonymous	OV\|1\|469\|0.00213
-	chr19	6040131	6040131	G	A	exonic	RFX2	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr19	6040251	6040251	G	A	exonic	RFX2	stopgain	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr19	6047473	6047473	G	A	exonic	RFX2	nonsynonymous	ACC\|1\|90\|0.01111
rs781080292	chr19	6047497	6047497	G	T	exonic	RFX2	nonsynonymous	CESC\|1\|194\|0.00515
rs765417588	chr19	6040136	6040136	G	A	exonic	RFX2	nonsynonymous	HNSC\|1\|512\|0.00195
-	chr19	6013025	6013025	G	A	exonic	RFX2	nonsynonymous	PAAD\|1\|185\|0.00541
-	chr19	6004263	6004263	G	A	exonic	RFX2	synonymous	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
-	chr19	6013017	6013017	C	T	exonic	RFX2	synonymous	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
rs770152245	chr19	6040186	6040186	G	A	exonic	RFX2	synonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr19	6013026	6013026	C	T	exonic	RFX2	nonsynonymous	KIPAN\|1\|799\|0.00125,KIRP\|1\|282\|0.00355
rs371891474	chr19	6047472	6047472	C	T	exonic	RFX2	synonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr19	5994918	5994918	G	A	exonic	RFX2	synonymous	BLCA\|1\|396\|0.00253
-	chr19	6016249	6016249	C	T	exonic	RFX2	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr19	5997178	5997178	C	T	exonic	RFX2	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr19	6040210	6040210	G	A	exonic	RFX2	synonymous	SKCM\|1\|368\|0.00272
rs753097280	chr19	6007158	6007158	C	T	exonic	RFX2	nonsynonymous	GBM\|1\|290\|0.00345,GBMLGG\|1\|820\|0.00122
-	chr19	6016117	6016117	G	A	exonic	RFX2	nonsynonymous	DLBC\|1\|48\|0.02083
rs762621238	chr19	6026192	6026192	G	A	exonic	RFX2	synonymous	UCEC\|1\|248\|0.00403
-	chr19	6004219	6004219	T	A	exonic	RFX2	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
rs751599890	chr19	6040144	6040144	G	A	exonic	RFX2	synonymous	SKCM\|1\|368\|0.00272
-	chr19	6040132	6040132	G	A	exonic	RFX2	synonymous	SKCM\|1\|368\|0.00272
-	chr19	6001834	6001834	G	A	exonic	RFX2	synonymous	SKCM\|1\|368\|0.00272
-	chr19	6007026	6007026	G	A	exonic	RFX2	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr19	6016164	6016164	G	A	exonic	RFX2	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr19	6040090	6040090	C	-	exonic	RFX2	frameshift	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr19	6008155	6008155	C	T	exonic	RFX2	nonsynonymous	HNSC\|2\|512\|0.00391

Disease information of RFX2

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TF_name	Disease_name	Disease_class	Disease_semantic_type	TF_disease_source
RFX2	Malignant neoplasm of breast	C04;C17	Neoplastic Process	UNIPROT

Pathway associated with RFX2

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pathway_ID	pathway_name	pathway_source	gene_number	edge_number

Go term information of RFX2

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GO_term_name	GO_term_type	TF_name
GO_SECRETORY_GRANULE_ORGANIZATION	BP	RFX2
GO_CILIUM_MORPHOGENESIS	BP	RFX2
GO_ACROSOME_ASSEMBLY	BP	RFX2
GO_CELLULAR_PROCESS_INVOLVED_IN_REPRODUCTION_IN_MULTICELLULAR_ORGANISM	BP	RFX2
GO_ENDOMEMBRANE_SYSTEM_ORGANIZATION	BP	RFX2
GO_SPERMATID_DIFFERENTIATION	BP	RFX2
GO_CELL_DEVELOPMENT	BP	RFX2

Survival analysis of RFX2

Methods

Overall Survival

Disease Free Survival (RFS)

Group Cutoff

Median

Quartile

Custom

Cutoff-High(%)

Hazards Ratio (HR) Calculate the hazards ratio based on Cox PH Model.

95% Confidence Interval Add the 95% CI as dotted line.

Axis Units

Expression of RFX2

Pan cancer (TCGA) Cell line (ENCODE) In vitro differentiated cell (ENCODE) Primary cell (ENCODE) Tissue (NCBI) Normal tissue (GTEx) Cell line (CCLE)