Cancer CRCdb

TF information

TF name:	HOXA9
TF family:	Homeobox
Ensembl gene ID:	ENSG00000078399
Ensembl protein ID:	ENSP00000343619
Entrez gene ID:	3205

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

Frequency of HOXA9 in all biosamples

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Sample ID	Biosample type	Tissue type	Biosample name	TF Frequency
Sample_02_021	Cell line	Colon	V429	0.4635341597002
Sample_02_114	Cell line	Mammary Gland	CAL51	1
Sample_02_179	Cell line	Urinary bladder	T24	0.4367816091954
Sample_02_242	Cell line	Colon	V481	0.71502275203487
Sample_02_268	Cell line	Kidney	A-498	0.54827395237216
Sample_02_323	Cell line	Colon	RKO	0.9
Sample_02_355	Cell line	Colon	HCT15	1
Sample_02_356	Cell line	Colon	Sw480	0.64516129032258
Sample_02_358	Cell line	Colon	LS180	0.99565560821485
Sample_02_424	Cell line	Colon	SW620	1

HOXA9 distribution in samples’ most representative CRC

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Sample ID	Tissue type	Biosample type	Biosample name
Sample_02_114	Mammary Gland	Cell line	CAL51
Sample_02_242	Colon	Cell line	V481
Sample_02_268	Kidney	Cell line	A-498
Sample_02_323	Colon	Cell line	RKO
Sample_02_355	Colon	Cell line	HCT15
Sample_02_356	Colon	Cell line	Sw480
Sample_02_358	Colon	Cell line	LS180
Sample_02_424	Colon	Cell line	SW620

HOXA9 distribution in all CRCs

Genomic distribution of SEs associated with HOXA9

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Mutation of HOXA9

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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 HOXA9

rsID	Chr	Start	Stop	Ref	Alt	Gene_region	Gene_symble	Effect	TCGA_Occurrence
-	chr7	27203284	27203284	A	G	exonic	HOXA9	nonsynonymous	KIPAN\|1\|799\|0.00125,KIRC\|1\|451\|0.00222
-	chr7	27204507	27204507	G	-	exonic	HOXA9	frameshift	LIHC\|1\|373\|0.00268
-	chr7	27204733	27204733	G	C	exonic	HOXA9	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27203353	27203353	A	G	exonic	HOXA9	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr7	27203297	27203297	C	G	exonic	HOXA9	nonsynonymous	PAAD\|1\|185\|0.00541
-	chr7	27205056	27205056	C	G	exonic	HOXA9	synonymous	SKCM\|1\|368\|0.00272
-	chr7	27204695	27204695	G	A	exonic	HOXA9	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr7	27204733	27204733	G	T	exonic	HOXA9	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27204724	27204724	G	A	exonic	HOXA9	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr7	27204563	27204563	C	T	exonic	HOXA9	nonsynonymous	BLCA\|1\|396\|0.00253,SKCM\|3\|368\|0.00815
-	chr7	27204919	27204919	G	A	exonic	HOXA9	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr7	27204507	27204507	G	T	exonic	HOXA9	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr7	27203226	27203226	T	C	exonic	HOXA9	nonsynonymous	LUAD\|1\|543\|0.00184
rs770972572	chr7	27204770	27204770	G	C	exonic	HOXA9	nonsynonymous	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
-	chr7	27204711	27204711	C	T	exonic	HOXA9	synonymous	STAD\|2\|395\|0.00506,STES\|2\|395\|0.00506
-	chr7	27203268	27203268	C	A	exonic	HOXA9	nonsynonymous	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
-	chr7	27204771	27204771	C	T	exonic	HOXA9	synonymous	PAAD\|1\|185\|0.00541
-	chr7	27204564	27204564	G	A	exonic	HOXA9	synonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr7	27204506	27204506	T	C	exonic	HOXA9	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr7	27204787	27204787	G	A	exonic	HOXA9	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr7	27204839	27204839	C	A	exonic	HOXA9	nonsynonymous	SARC\|1\|247\|0.00405
-	chr7	27204900	27204900	C	T	exonic	HOXA9	synonymous	SKCM\|1\|368\|0.00272
-	chr7	27204522	27204522	G	T	exonic	HOXA9	synonymous	LUAD\|1\|543\|0.00184
-	chr7	27203337	27203337	C	G	exonic	HOXA9	nonsynonymous	ACC\|1\|90\|0.01111
rs771349569	chr7	27204508	27204508	G	C	exonic	HOXA9	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27203433	27203433	G	A	exonic	HOXA9	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr7	27203430	27203430	C	G	exonic	HOXA9	nonsynonymous	BLCA\|1\|396\|0.00253
-	chr7	27204514	27204514	T	C	exonic	HOXA9	nonsynonymous	KICH\|1\|66\|0.01515,KIPAN\|1\|799\|0.00125
-	chr7	27203381	27203381	T	A	exonic	HOXA9	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr7	27204581	27204581	T	A	exonic	HOXA9	stopgain	PRAD\|1\|499\|0.00200
rs770207656	chr7	27204938	27204938	C	T	exonic	HOXA9	nonsynonymous	DLBC\|1\|48\|0.02083
rs777202871	chr7	27203337	27203337	C	T	exonic	HOXA9	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr7	27204678	27204678	T	G	exonic	HOXA9	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr7	27203308	27203308	G	T	exonic	HOXA9	nonsynonymous	ESCA\|1\|185\|0.00541
-	chr7	27203249	27203249	G	A	exonic	HOXA9	synonymous	BRCA\|1\|982\|0.00102
-	chr7	27203271	27203271	C	A	exonic	HOXA9	nonsynonymous	UCEC\|1\|248\|0.00403
rs367823279	chr7	27205035	27205035	C	T	exonic	HOXA9	synonymous	LUAD\|1\|543\|0.00184
-	chr7	27203289	27203289	T	-	exonic	HOXA9	frameshift	KIPAN\|2\|799\|0.00250,KIRC\|2\|451\|0.00443
-	chr7	27203258	27203258	C	A	exonic	HOXA9	nonsynonymous	UCS\|1\|57\|0.01754
-	chr7	27203390	27203390	C	A	exonic	HOXA9	nonsynonymous	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
-	chr7	27204557	27204557	C	T	exonic	HOXA9	nonsynonymous	BRCA\|1\|982\|0.00102
-	chr7	27204781	27204781	G	A	exonic	HOXA9	nonsynonymous	GBM\|1\|290\|0.00345,GBMLGG\|1\|820\|0.00122
-	chr7	27204714	27204714	G	A	exonic	HOXA9	synonymous	SKCM\|1\|368\|0.00272
-	chr7	27204776	27204776	C	G	exonic	HOXA9	nonsynonymous	ESCA\|1\|185\|0.00541
rs369971422	chr7	27204577	27204577	T	C	exonic	HOXA9	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr7	27203329	27203329	C	T	exonic	HOXA9	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27204803	27204803	C	T	exonic	HOXA9	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253

Disease information of HOXA9

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TF_name	Disease_name	Disease_class	Disease_semantic_type	TF_disease_source
HOXA9	Malignant neoplasm of urinary bladder	C04;C12;C13	Neoplastic Process	CTD_human
HOXA9	Bladder Neoplasm	C04;C12;C13	Neoplastic Process	CTD_human
HOXA9	Leukemia, Myelocytic, Acute	C04	Neoplastic Process	CTD_human
HOXA9	melanoma	C04	Neoplastic Process	CTD_human
HOXA9	Acute Myeloid Leukemia, M1	C04	Neoplastic Process	CTD_human
HOXA9	Neoplasm Recurrence, Local	C04;C23	Neoplastic Process	CTD_human
HOXA9	Acute Myeloid Leukemia (AML-M2)	C04	Neoplastic Process	CTD_human

Pathway associated with HOXA9

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pathway_ID	pathway_name	pathway_source	gene_number	edge_number

Go term information of HOXA9

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GO_term_name	GO_term_type	TF_name
GO_SINGLE_FERTILIZATION	BP	HOXA9
GO_EMBRYONIC_SKELETAL_SYSTEM_DEVELOPMENT	BP	HOXA9
GO_FORELIMB_MORPHOGENESIS	BP	HOXA9
GO_PROXIMAL_DISTAL_PATTERN_FORMATION	BP	HOXA9
GO_EMBRYONIC_FORELIMB_MORPHOGENESIS	BP	HOXA9
GO_REPRODUCTIVE_SYSTEM_DEVELOPMENT	BP	HOXA9
GO_NEGATIVE_REGULATION_OF_HEMOPOIESIS	BP	HOXA9
GO_APPENDAGE_DEVELOPMENT	BP	HOXA9
GO_SEX_DIFFERENTIATION	BP	HOXA9
GO_NEGATIVE_REGULATION_OF_MYELOID_CELL_DIFFERENTIATION	BP	HOXA9
GO_MULTICELLULAR_ORGANISM_REPRODUCTION	BP	HOXA9
GO_DEFINITIVE_HEMOPOIESIS	BP	HOXA9
GO_UTERUS_DEVELOPMENT	BP	HOXA9

Survival analysis of HOXA9

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 HOXA9

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