Cancer CRCdb

TF information

TF name:	SOX13
TF family:	HMG
Ensembl gene ID:	ENSG00000143842
Ensembl protein ID:	ENSP00000356172, ENSP00000478239
Entrez gene ID:	9580

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

Frequency of SOX13 in all biosamples

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Sample ID	Biosample type	Tissue type	Biosample name	TF Frequency
Sample_01_001	Cell line	Prostate	22Rv1	0.23970944309927
Sample_02_096	Cell line	Mammary Gland	ZR-75-1_1	1
Sample_02_164	Cell line	Lung	H2087_Parental	0.63333333333333
Sample_02_183	Cell line	Skin	SKMEL2	0.76923076923077
Sample_02_184	Cell line	Skin	SKMEL30	0.35048231511254
Sample_02_205	Tissue	Stomach	Gastric_Primary_Sample_T	0.31111111111111
Sample_02_228	Cell line	Oesophagus	KYSE510	0.57222739981361
Sample_02_241	Cell line	Colon	V456	0.36004514672686
Sample_02_242	Cell line	Colon	V481	0.4414535666218
Sample_02_250	Tissue	Brain	tumormodel3691	1
Sample_02_354	Cell line	Colon	Colo205	0.20720720720721
Sample_02_356	Cell line	Colon	Sw480	0.49032258064516
Sample_02_358	Cell line	Colon	LS180	0.6216429699842
Sample_02_361	Cell line	Colon	HT29_DMSO	0.36991150442478
Sample_02_404	Cell line	Mammary Gland	ZR-75-1_2	1
Sample_02_424	Cell line	Colon	SW620	0.47101449275362

SOX13 distribution in samples’ most representative CRC

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Sample ID	Tissue type	Biosample type	Biosample name
Sample_02_096	Mammary Gland	Cell line	ZR-75-1_1
Sample_02_164	Lung	Cell line	H2087_Parental
Sample_02_183	Skin	Cell line	SKMEL2
Sample_02_228	Oesophagus	Cell line	KYSE510
Sample_02_250	Brain	Tissue	tumormodel3691
Sample_02_358	Colon	Cell line	LS180
Sample_02_361	Colon	Cell line	HT29_DMSO
Sample_02_404	Mammary Gland	Cell line	ZR-75-1_2

SOX13 distribution in all CRCs

Genomic distribution of SEs associated with SOX13

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Mutation of SOX13

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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 SOX13

rsID	Chr	Start	Stop	Ref	Alt	Gene_region	Gene_symble	Effect	TCGA_Occurrence
-	chr1	204083468	204083468	G	T	exonic	SOX13	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr1	204093856	204093856	A	G	exonic	SOX13	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
rs761632249	chr1	204093774	204093774	C	T	exonic	SOX13	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	204091372	204091372	C	G	exonic	SOX13	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	204085650	204085650	T	G	exonic	SOX13	nonsynonymous	LUAD\|1\|543\|0.00184
rs202236204	chr1	204091088	204091088	C	T	exonic	SOX13	nonsynonymous	UCEC\|1\|248\|0.00403
rs200693347	chr1	204095205	204095205	C	T	exonic	SOX13	synonymous	COADREAD\|1\|489\|0.00204,READ\|1\|122\|0.00820
-	chr1	204093883	204093883	C	G	exonic	SOX13	nonsynonymous	OV\|1\|469\|0.00213
-	chr1	204085649	204085649	C	A	exonic	SOX13	nonsynonymous	BRCA\|1\|982\|0.00102
-	chr1	204092289	204092289	G	A	exonic	SOX13	nonsynonymous	TGCT\|1\|155\|0.00645
rs377320241	chr1	204085749	204085749	C	T	exonic	SOX13	nonsynonymous	COAD\|2\|367\|0.00545,COADREAD\|2\|489\|0.00409
-	chr1	204095155	204095155	G	A	exonic	SOX13	nonsynonymous	LIHC\|1\|373\|0.00268
-	chr1	204095104	204095104	A	G	exonic	SOX13	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr1	204086775	204086775	C	G	exonic	SOX13	nonsynonymous	CESC\|1\|194\|0.00515
-	chr1	204083516	204083516	C	T	exonic	SOX13	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
rs376615783	chr1	204095168	204095168	C	T	exonic	SOX13	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	204091058	204091058	C	T	exonic	SOX13	nonsynonymous	HNSC\|1\|512\|0.00195
-	chr1	204082093	204082093	G	A	exonic	SOX13	nonsynonymous	PRAD\|1\|499\|0.00200
rs754705581	chr1	204092245	204092245	C	T	exonic	SOX13	synonymous	LUSC\|1\|178\|0.00562
-	chr1	204091488	204091488	A	G	exonic	SOX13	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr1	204091106	204091106	C	A	exonic	SOX13	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
rs761814581	chr1	204094988	204094988	C	T	exonic	SOX13	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr1	204082127	204082127	G	T	exonic	SOX13	nonsynonymous	LUAD\|1\|543\|0.00184
rs774299220	chr1	204091465	204091465	-	C	exonic	SOX13	frameshift	COAD\|4\|367\|0.01090,COADREAD\|4\|489\|0.00818,LUAD\|1\|543\|0.00184
-	chr1	204092806	204092806	G	A	exonic	SOX13	nonsynonymous	BRCA\|1\|982\|0.00102
-	chr1	204086824	204086824	C	T	exonic	SOX13	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	204086747	204086747	C	A	exonic	SOX13	synonymous	UCEC\|1\|248\|0.00403
-	chr1	204083710	204083710	C	A	exonic	SOX13	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr1	204091075	204091075	A	G	exonic	SOX13	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr1	204092250	204092250	G	T	exonic	SOX13	nonsynonymous	HNSC\|1\|512\|0.00195
-	chr1	204092031	204092031	G	C	exonic	SOX13	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr1	204093876	204093876	C	T	exonic	SOX13	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	204085745	204085745	G	A	exonic	SOX13	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
rs756759597	chr1	204092086	204092086	C	T	exonic	SOX13	nonsynonymous	SKCM\|1\|368\|0.00272
rs762506053	chr1	204082087	204082087	G	A	exonic	SOX13	nonsynonymous	BRCA\|1\|982\|0.00102
-	chr1	204085649	204085649	C	T	exonic	SOX13	synonymous	SKCM\|1\|368\|0.00272
-	chr1	204092884	204092884	C	G	exonic	SOX13	nonsynonymous	PRAD\|1\|499\|0.00200
-	chr1	204095239	204095239	G	C	exonic	SOX13	nonsynonymous	LUAD\|1\|543\|0.00184
rs376154453	chr1	204092326	204092326	C	T	exonic	SOX13	synonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr1	204086786	204086786	C	T	exonic	SOX13	synonymous	SKCM\|2\|368\|0.00543
-	chr1	204091518	204091518	C	T	exonic	SOX13	synonymous	SKCM\|1\|368\|0.00272
-	chr1	204086755	204086755	-	C	exonic	SOX13	frameshift	BRCA\|1\|982\|0.00102
-	chr1	204092051	204092051	G	A	exonic	SOX13	nonsynonymous	COADREAD\|1\|489\|0.00204,READ\|1\|122\|0.00820
rs757569889	chr1	204093838	204093838	G	A	exonic	SOX13	nonsynonymous	ESCA\|1\|185\|0.00541
-	chr1	204085665	204085665	T	C	exonic	SOX13	nonsynonymous	HNSC\|1\|512\|0.00195
-	chr1	204082240	204082240	-	T	exonic	SOX13	frameshift	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
-	chr1	204093816	204093816	G	A	exonic	SOX13	nonsynonymous	HNSC\|1\|512\|0.00195
-	chr1	204082212	204082212	G	A	exonic	SOX13	nonsynonymous	HNSC\|1\|512\|0.00195
-	chr1	204091060	204091060	C	T	exonic	SOX13	nonsynonymous	PAAD\|1\|185\|0.00541
-	chr1	204091508	204091508	C	-	exonic	SOX13	frameshift	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr1	204093813	204093813	T	C	exonic	SOX13	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	204085774	204085774	G	T	exonic	SOX13	nonsynonymous	ESCA\|1\|185\|0.00541
-	chr1	204093978	204093978	G	A	exonic	SOX13	nonsynonymous	ACC\|1\|90\|0.01111
-	chr1	204092909	204092909	A	G	exonic	SOX13	nonsynonymous	KICH\|1\|66\|0.01515,KIPAN\|1\|799\|0.00125
-	chr1	204091377	204091377	C	-	exonic	SOX13	frameshift	ESCA\|1\|185\|0.00541
-	chr1	204093858	204093858	C	T	exonic	SOX13	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	204095176	204095176	G	C	exonic	SOX13	nonsynonymous	LUAD\|1\|543\|0.00184
rs200817303	chr1	204082173	204082173	G	A	exonic	SOX13	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
rs200217733	chr1	204092030	204092030	G	A	exonic	SOX13	nonsynonymous	KIPAN\|1\|799\|0.00125,KIRC\|1\|451\|0.00222
-	chr1	204085788	204085788	C	T	exonic	SOX13	nonsynonymous	HNSC\|2\|512\|0.00391
-	chr1	204091466	204091466	C	-	exonic	SOX13	frameshift	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr1	204086823	204086823	C	T	exonic	SOX13	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	204083543	204083543	A	G	exonic	SOX13	nonsynonymous	LIHC\|1\|373\|0.00268
rs370195383	chr1	204095052	204095052	G	A	exonic	SOX13	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
rs764676220	chr1	204086794	204086794	C	T	exonic	SOX13	nonsynonymous	ESCA\|1\|185\|0.00541
-	chr1	204091104	204091104	C	-	exonic	SOX13	frameshift	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr1	204086258	204086259	GC	-	exonic	SOX13	frameshift	GBM\|1\|290\|0.00345,GBMLGG\|1\|820\|0.00122
-	chr1	204082064	204082064	C	G	exonic	SOX13	nonsynonymous	BRCA\|1\|982\|0.00102
-	chr1	204091086	204091086	G	A	exonic	SOX13	synonymous	UCEC\|1\|248\|0.00403
rs199949298	chr1	204095221	204095221	G	A	exonic	SOX13	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr1	204083473	204083473	G	-	exonic	SOX13	frameshift	PCPG\|1\|184\|0.00543
-	chr1	204091084	204091084	G	A	exonic	SOX13	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	204086308	204086308	A	T	exonic	SOX13	nonsynonymous	HNSC\|1\|512\|0.00195
-	chr1	204085730	204085730	G	A	exonic	SOX13	nonsynonymous	HNSC\|1\|512\|0.00195
-	chr1	204082138	204082138	C	A	exonic	SOX13	nonsynonymous	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
-	chr1	204092277	204092277	G	T	exonic	SOX13	nonsynonymous	TGCT\|1\|155\|0.00645
-	chr1	204085765	204085766	GC	-	exonic	SOX13	frameshift	GBM\|1\|290\|0.00345,GBMLGG\|2\|820\|0.00244,LGG\|1\|530\|0.00189
-	chr1	204092852	204092852	T	C	exonic	SOX13	nonsynonymous	LIHC\|1\|373\|0.00268
-	chr1	204091056	204091056	C	-	exonic	SOX13	frameshift	BRCA\|1\|982\|0.00102

Disease information of SOX13

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TF_name	Disease_name	Disease_class	Disease_semantic_type	TF_disease_source

Pathway associated with SOX13

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pathway_ID	pathway_name	pathway_source	gene_number	edge_number
pathway0000549	Deactivation of the beta-catenin transactivating complex	reactome	42	236

Go term information of SOX13

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GO_term_name	GO_term_type	TF_name
GO_REGULATION_OF_CELL_ACTIVATION	BP	SOX13

Survival analysis of SOX13

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 SOX13

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