Cancer CRCdb

TF information

TF name:	SOX10
TF family:	HMG
Ensembl gene ID:	ENSG00000100146
Ensembl protein ID:	ENSP00000354130, ENSP00000399777, ENSP00000380093, ENSP00000414853
Entrez gene ID:	6663

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

Frequency of SOX10 in all biosamples

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Sample ID	Biosample type	Tissue type	Biosample name	TF Frequency
Sample_02_180	Cell line	Human melanoma	CJM	1
Sample_02_181	Cell line	Human melanoma	COLO679	0.52906666666667
Sample_02_183	Cell line	Skin	SKMEL2	0.79487179487179
Sample_02_184	Cell line	Skin	SKMEL30	0.62700964630225
Sample_02_359	Cell line	Colon	Colo741	0.30722891566265
Sample_02_406	Cell line	Mammary Gland	ZR-75-30_parental	0.78260869565217

SOX10 distribution in samples’ most representative CRC

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Sample ID	Tissue type	Biosample type	Biosample name
Sample_02_180	Human melanoma	Cell line	CJM
Sample_02_183	Skin	Cell line	SKMEL2
Sample_02_184	Skin	Cell line	SKMEL30
Sample_02_406	Mammary Gland	Cell line	ZR-75-30_parental

SOX10 distribution in all CRCs

Genomic distribution of SEs associated with SOX10

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Mutation of SOX10

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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 SOX10

rsID	Chr	Start	Stop	Ref	Alt	Gene_region	Gene_symble	Effect	TCGA_Occurrence
-	chr22	38369790	38369790	G	T	exonic	SOX10	nonsynonymous	TGCT\|1\|155\|0.00645
rs754480545	chr22	38369876	38369876	G	T	exonic	SOX10	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr22	38373922	38373922	G	A	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr22	38379425	38379425	C	T	exonic	SOX10	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr22	38370170	38370180	GGGTGGTTGGA	-	exonic	SOX10	frameshift	HNSC\|1\|512\|0.00195
-	chr22	38369836	38369836	A	C	exonic	SOX10	nonsynonymous	BRCA\|1\|982\|0.00102
rs776999856	chr22	38369821	38369821	G	A	exonic	SOX10	nonsynonymous	UCEC\|1\|248\|0.00403
rs770105416	chr22	38369822	38369822	C	T	exonic	SOX10	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr22	38369509	38369509	C	T	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr22	38373478	38375254	CCACCACGCCCAGCTAATTTTTTTTATTTTTAGTAGAGATGGGATTTCACCATGTTAGCCAGGATGGTCTCGATCTCCTGACCTCGTGATCTGCCCTCCTCGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCACACCCGGCGGCCTCCACAGTCTTTAACTGGCCCTCTTTGCCCAGTAGGATCAGCCCTGGCCAGAGCCATCTCACCCAGCCACTTCCCCTGGCACCGGAACCCCCATGGAGCTCCC	-	exonic	SOX10	frameshift	-
-	chr22	38369604	38369604	C	T	exonic	SOX10	synonymous	LIHC\|1\|373\|0.00268
-	chr22	38379572	38379572	C	T	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272
rs774324385	chr22	38369997	38369997	C	T	exonic	SOX10	synonymous	ESCA\|1\|185\|0.00541
-	chr22	38373997	38373997	C	A	exonic	SOX10	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr22	38374019	38374019	G	C	exonic	SOX10	synonymous	LUAD\|1\|543\|0.00184
-	chr22	38374132	38374132	C	T	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr22	38374016	38374016	C	T	exonic	SOX10	synonymous	KIPAN\|1\|799\|0.00125,KIRP\|1\|282\|0.00355
-	chr22	38379476	38379476	G	A	exonic	SOX10	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
rs761741529	chr22	38369863	38369863	G	A	exonic	SOX10	nonsynonymous	LUSC\|1\|178\|0.00562
-	chr22	38373993	38373993	C	T	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr22	38369569	38369569	G	C	exonic	SOX10	stopgain	BLCA\|1\|396\|0.00253
-	chr22	38369635	38369635	G	A	exonic	SOX10	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr22	38373873	38373873	C	T	splicing	SOX10	splicing	SKCM\|1\|368\|0.00272
-	chr22	38379617	38379617	G	A	exonic	SOX10	stopgain	SKCM\|1\|368\|0.00272
-	chr22	38369508	38369508	C	T	exonic	SOX10	synonymous	SKCM\|1\|368\|0.00272
-	chr22	38379483	38379483	G	A	exonic	SOX10	synonymous	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
-	chr22	38379719	38379719	G	A	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr22	38370098	38370098	G	A	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr22	38369605	38369605	C	T	exonic	SOX10	nonsynonymous	UCEC\|1\|248\|0.00403
rs752595410	chr22	38379482	38379482	C	T	exonic	SOX10	nonsynonymous	ESCA\|1\|185\|0.00541
-	chr22	38374047	38374047	G	A	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr22	38373874	38373874	C	T	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr22	38374040	38374040	C	-	exonic	SOX10	frameshift	BLCA\|1\|396\|0.00253
-	chr22	38374042	38374042	G	T	exonic	SOX10	synonymous	LUAD\|1\|543\|0.00184
-	chr22	38369825	38369825	T	C	exonic	SOX10	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr22	38369715	38369715	G	A	exonic	SOX10	synonymous	SKCM\|1\|368\|0.00272
rs367743809	chr22	38370125	38370125	C	T	exonic	SOX10	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
rs762449567	chr22	38370168	38370168	C	T	exonic	SOX10	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr22	38369502	38369502	T	G	exonic	SOX10	stoploss	GBM\|1\|290\|0.00345,GBMLGG\|1\|820\|0.00122
-	chr22	38379397	38379397	G	A	exonic	SOX10	nonsynonymous	ACC\|1\|90\|0.01111
-	chr22	38373947	38373947	C	T	exonic	SOX10	synonymous	LUAD\|1\|543\|0.00184
-	chr22	38379438	38379438	C	T	exonic	SOX10	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr22	38370136	38370136	G	-	exonic	SOX10	frameshift	BRCA\|1\|982\|0.00102
-	chr22	38369706	38369715	CTGGGGGCGG	-	exonic	SOX10	frameshift	SKCM\|1\|368\|0.00272
-	chr22	38373922	38373922	G	T	exonic	SOX10	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr22	38379437	38379437	G	A	exonic	SOX10	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr22	38374057	38374057	T	C	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr22	38369999	38369999	G	A	exonic	SOX10	nonsynonymous	BRCA\|1\|982\|0.00102
-	chr22	38374042	38374042	G	A	exonic	SOX10	nonsynonymous	COADREAD\|1\|489\|0.00204,READ\|1\|122\|0.00820
rs549034055	chr22	38369885	38369885	C	T	exonic	SOX10	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr22	38373929	38373929	G	A	exonic	SOX10	synonymous	UCEC\|1\|248\|0.00403
-	chr22	38373898	38373898	-	A	exonic	SOX10	stopgain	BRCA\|1\|982\|0.00102
-	chr22	38370097	38370097	G	A	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr22	38379576	38379576	G	A	exonic	SOX10	synonymous	SKCM\|1\|368\|0.00272
-	chr22	38374120	38374120	G	C	exonic	SOX10	nonsynonymous	ESCA\|1\|185\|0.00541
-	chr22	38379656	38379656	G	C	exonic	SOX10	nonsynonymous	ESCA\|1\|185\|0.00541
-	chr22	38369571	38369571	G	T	exonic	SOX10	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr22	38369841	38369841	G	A	exonic	SOX10	synonymous	SKCM\|1\|368\|0.00272
-	chr22	38374051	38374051	-	TACTT	exonic	SOX10	frameshift	SARC\|1\|247\|0.00405
-	chr22	38369614	38369614	G	A	exonic	SOX10	nonsynonymous	PAAD\|1\|185\|0.00541
-	chr22	38370153	38370153	C	A	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr22	38369821	38370945	GCGGTCTCTGTCTTCACCTGGGCTTTGGCATCCACACCAGGTGGTGAGACCGTGGGCAGAGCCACGCCTGGTGGCTTGGAGATCCAGGCGGAGTGTCCACTGGCCACGGCCAGGGCACTGCCCAGCCCATAGCCGGCTGCTGAGTAGCTGCTCACATGGCCTGGGTGCCCATTGGGCGGCAGGTACTGGTCCAACTCAGCCACATCAAAGGTCTCCATGTTGGACATTACCTCGTGGCTGATCTCACCAATGTCC	-	exonic	SOX10	frameshift	-
-	chr22	38369573	38369573	G	A	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr22	38370151	38370151	G	A	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr22	38369534	38369534	G	T	exonic	SOX10	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr22	38369659	38369659	G	T	exonic	SOX10	stopgain	LUAD\|1\|543\|0.00184
-	chr22	38370059	38370059	T	C	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272
rs779933527	chr22	38373927	38373927	C	T	exonic	SOX10	nonsynonymous	KIPAN\|1\|799\|0.00125,KIRC\|1\|451\|0.00222
-	chr22	38369875	38369875	G	T	exonic	SOX10	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr22	38369664	38369664	G	A	exonic	SOX10	synonymous	BRCA\|1\|982\|0.00102
rs766407815	chr22	38374133	38374133	G	A	exonic	SOX10	synonymous	ACC\|1\|90\|0.01111
rs773109683	chr22	38370135	38370135	C	T	exonic	SOX10	synonymous	BRCA\|1\|982\|0.00102
-	chr22	38379616	38379616	T	C	exonic	SOX10	nonsynonymous	LIHC\|1\|373\|0.00268
-	chr22	38379424	38379424	G	A	exonic	SOX10	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
rs73415876	chr22	38379543	38379543	G	A	exonic	SOX10	synonymous	DLBC\|1\|48\|0.02083
-	chr22	38369572	38369572	G	A	exonic	SOX10	nonsynonymous	SKCM\|1\|368\|0.00272

Disease information of SOX10

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TF_name	Disease_name	Disease_class	Disease_semantic_type	TF_disease_source
SOX10	Charcot-Marie-Tooth Disease	C10;C16	Disease or Syndrome	GENOMICS_ENGLAND
SOX10	Leukodystrophy		Disease or Syndrome	GENOMICS_ENGLAND
SOX10	Schizophrenia	F03	Mental or Behavioral Dysfunction	PSYGENET
SOX10	Disorders of Sex Development	C12;C13;C16;C19	Congenital Abnormality	GENOMICS_ENGLAND
SOX10	Kallmann Syndrome	C12;C13;C16;C19	Disease or Syndrome	ORPHANET
SOX10	Idiopathic hypogonadotropic hypogonadism	C19	Disease or Syndrome	GENOMICS_ENGLAND
SOX10	Early onset schizophrenia		Mental or Behavioral Dysfunction	PSYGENET
SOX10	Peripheral Demyelinating Neuropathy, Central Dysmyelination, Waardenburg Syndrome, and Hirschsprung Disease	C06;C10;C16	Disease or Syndrome	CTD_human;ORPHANET;UNIPROT
SOX10	WAARDENBURG SYNDROME, TYPE 4A	C06;C16	Disease or Syndrome	ORPHANET
SOX10	Waardenburg Syndrome Type 2	C16	Disease or Syndrome	CTD_human;ORPHANET
SOX10	WAARDENBURG SYNDROME, TYPE IIE	C16	Disease or Syndrome	CTD_human;UNIPROT
SOX10	Waardenburg Syndrome, Type 4c	C06;C16	Disease or Syndrome	CLINGEN;CTD_human;UNIPROT
SOX10	Waardenburg Syndrome	C16	Disease or Syndrome	ORPHANET
SOX10	Intellectual Disability	C10;C23;F01;F03	Mental or Behavioral Dysfunction	GENOMICS_ENGLAND

Pathway associated with SOX10

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pathway_ID	pathway_name	pathway_source	gene_number	edge_number
pathway0002747	Hs_Neural_Crest_Differentiation_WP2064_79263	wikipathways	40	129

Go term information of SOX10

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GO_term_name	GO_term_type	TF_name
GO_POSITIVE_REGULATION_OF_NEUROBLAST_PROLIFERATION	BP	SOX10
GO_DIGESTIVE_SYSTEM_DEVELOPMENT	BP	SOX10
GO_NEURAL_CREST_CELL_MIGRATION	BP	SOX10
GO_CELL_MATURATION	BP	SOX10
GO_GLIOGENESIS	BP	SOX10
GO_DIGESTIVE_TRACT_MORPHOGENESIS	BP	SOX10
GO_POSITIVE_REGULATION_OF_NEURAL_PRECURSOR_CELL_PROLIFERATION	BP	SOX10
GO_EXOCRINE_SYSTEM_DEVELOPMENT	BP	SOX10
GO_PIGMENT_CELL_DIFFERENTIATION	BP	SOX10
GO_REGULATION_OF_NEUROBLAST_PROLIFERATION	BP	SOX10
GO_NEGATIVE_REGULATION_OF_CANONICAL_WNT_SIGNALING_PATHWAY	BP	SOX10
GO_COLUMNAR_CUBOIDAL_EPITHELIAL_CELL_DIFFERENTIATION	BP	SOX10
GO_DEVELOPMENTAL_PIGMENTATION	BP	SOX10
GO_ENTERIC_NERVOUS_SYSTEM_DEVELOPMENT	BP	SOX10
GO_AUTONOMIC_NERVOUS_SYSTEM_DEVELOPMENT	BP	SOX10
GO_OLIGODENDROCYTE_DIFFERENTIATION	BP	SOX10
GO_POSITIVE_REGULATION_OF_STEM_CELL_PROLIFERATION	BP	SOX10
GO_MELANOCYTE_DIFFERENTIATION	BP	SOX10
GO_REGULATION_OF_GLIOGENESIS	BP	SOX10
GO_REGULATION_OF_NEURAL_PRECURSOR_CELL_PROLIFERATION	BP	SOX10
GO_DEVELOPMENTAL_MATURATION	BP	SOX10
GO_NEURAL_CREST_CELL_DIFFERENTIATION	BP	SOX10
GO_POSITIVE_REGULATION_OF_GLIOGENESIS	BP	SOX10
GO_EXTRINSIC_COMPONENT_OF_ORGANELLE_MEMBRANE	CC	SOX10
GO_TRANSCRIPTION_FACTOR_ACTIVITY_RNA_POLYMERASE_II_DISTAL_ENHANCER_SEQUENCE_SPECIFIC_BINDING	MF	SOX10
GO_DOUBLE_STRANDED_DNA_BINDING	MF	SOX10
GO_TRANSCRIPTIONAL_REPRESSOR_ACTIVITY_RNA_POLYMERASE_II_ACTIVATING_TRANSCRIPTION_FACTOR_BINDING	MF	SOX10
GO_MACROMOLECULAR_COMPLEX_BINDING	MF	SOX10
GO_RNA_POLYMERASE_II_DISTAL_ENHANCER_SEQUENCE_SPECIFIC_DNA_BINDING	MF	SOX10

Survival analysis of SOX10

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 SOX10

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