Cancer CRCdb

TF information

TF name:	HOXA1
TF family:	Homeobox
Ensembl gene ID:	ENSG00000105991
Ensembl protein ID:	ENSP00000494260, ENSP00000343246
Entrez gene ID:	3198

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

Frequency of HOXA1 in all biosamples

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Sample ID	Biosample type	Tissue type	Biosample name	TF Frequency
Sample_02_069	Cell line	Brain	SF268	0.18320610687023
Sample_02_114	Cell line	Mammary Gland	CAL51	0.37688442211055

HOXA1 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

HOXA1 distribution in all CRCs

Genomic distribution of SEs associated with HOXA1

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Mutation of HOXA1

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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 HOXA1

rsID	Chr	Start	Stop	Ref	Alt	Gene_region	Gene_symble	Effect	TCGA_Occurrence
-	chr7	27134078	27134078	G	C	exonic	HOXA1	nonsynonymous	LUAD\|1\|543\|0.00184
rs751378994	chr7	27135348	27135348	C	T	exonic	HOXA1	nonsynonymous	HNSC\|1\|512\|0.00195
-	chr7	27134095	27134095	C	G	exonic	HOXA1	synonymous	ESCA\|1\|185\|0.00541
-	chr7	27135318	27135319	GG	-	exonic	HOXA1	frameshift	DLBC\|1\|48\|0.02083,LUAD\|1\|543\|0.00184,PAAD\|4\|185\|0.02162
-	chr7	27134229	27134229	G	A	exonic	HOXA1	nonsynonymous	BRCA\|1\|982\|0.00102
-	chr7	27135443	27135443	G	C	exonic	HOXA1	nonsynonymous	BLCA\|1\|396\|0.00253
-	chr7	27135101	27135101	T	A	exonic	HOXA1	nonsynonymous	OV\|1\|469\|0.00213
-	chr7	27135357	27135357	C	-	exonic	HOXA1	frameshift	COAD\|2\|367\|0.00545,COADREAD\|2\|489\|0.00409,STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr7	27134301	27134301	G	A	exonic	HOXA1	nonsynonymous	LUSC\|1\|178\|0.00562
-	chr7	27134354	27134354	G	T	exonic	HOXA1	nonsynonymous	KIPAN\|1\|799\|0.00125,KIRC\|1\|451\|0.00222
-	chr7	27134370	27134370	G	A	exonic	HOXA1	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204,GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189,STAD\|2\|395\|0.00506,STES\|2\|395\|0.00506,UCEC\|1\|248\|0.00403
-	chr7	27134145	27134145	C	T	exonic	HOXA1	nonsynonymous	HNSC\|1\|512\|0.00195
rs749684801	chr7	27134298	27134298	C	T	exonic	HOXA1	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr7	27134117	27134117	G	A	exonic	HOXA1	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr7	27135119	27135119	G	A	exonic	HOXA1	nonsynonymous	SKCM\|1\|368\|0.00272
rs770180375	chr7	27134078	27134078	G	A	exonic	HOXA1	nonsynonymous	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
-	chr7	27135327	27135327	G	T	exonic	HOXA1	nonsynonymous	LUAD\|6\|543\|0.01105
-	chr7	27134888	27134888	G	T	exonic	HOXA1	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27134105	27134105	G	T	exonic	HOXA1	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27134894	27134894	T	C	exonic	HOXA1	nonsynonymous	THCA\|1\|504\|0.00198
-	chr7	27134979	27134979	C	T	exonic	HOXA1	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr7	27135352	27135352	C	A	exonic	HOXA1	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr7	27135011	27135011	G	A	exonic	HOXA1	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr7	27135197	27135197	G	A	exonic	HOXA1	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr7	27135005	27135010	TACGTA	-	exonic	HOXA1	nonframeshift	BLCA\|1\|396\|0.00253
-	chr7	27134950	27134950	G	A	exonic	HOXA1	nonsynonymous	BRCA\|1\|982\|0.00102
-	chr7	27134375	27134375	G	A	exonic	HOXA1	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr7	27135330	27135330	G	T	exonic	HOXA1	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27134936	27134936	G	A	exonic	HOXA1	nonsynonymous	BLCA\|1\|396\|0.00253
-	chr7	27134880	27134880	C	A	exonic	HOXA1	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27135198	27135198	C	T	exonic	HOXA1	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr7	27135385	27135385	G	A	exonic	HOXA1	synonymous	CESC\|1\|194\|0.00515
rs762883582	chr7	27134329	27134329	C	T	exonic	HOXA1	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr7	27134339	27134339	T	A	exonic	HOXA1	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr7	27134213	27134213	T	A	exonic	HOXA1	nonsynonymous	UCEC\|1\|248\|0.00403
rs868863680	chr7	27134949	27134949	C	T	exonic	HOXA1	nonsynonymous	BRCA\|1\|982\|0.00102
-	chr7	27134229	27134229	G	C	exonic	HOXA1	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27134281	27134281	G	A	exonic	HOXA1	synonymous	SKCM\|1\|368\|0.00272
-	chr7	27135159	27135159	G	A	exonic	HOXA1	stopgain	KIPAN\|1\|799\|0.00125,KIRP\|1\|282\|0.00355
-	chr7	27135309	27135309	G	A	exonic	HOXA1	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27135134	27135134	C	T	exonic	HOXA1	nonsynonymous	BLCA\|1\|396\|0.00253,OV\|1\|469\|0.00213
-	chr7	27135485	27135485	C	G	exonic	HOXA1	nonsynonymous	OV\|1\|469\|0.00213
-	chr7	27135155	27135155	C	A	exonic	HOXA1	nonsynonymous	LUAD\|4\|543\|0.00737
-	chr7	27134334	27134334	C	T	exonic	HOXA1	nonsynonymous	KIPAN\|1\|799\|0.00125,KIRP\|1\|282\|0.00355
-	chr7	27134936	27134936	G	T	exonic	HOXA1	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27135120	27135120	G	A	exonic	HOXA1	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr7	27135311	27135311	T	C	exonic	HOXA1	nonsynonymous	UCEC\|1\|248\|0.00403
rs146782650	chr7	27135338	27135338	T	G	exonic	HOXA1	nonsynonymous	COADREAD\|1\|489\|0.00204,READ\|1\|122\|0.00820
-	chr7	27135347	27135347	C	A	exonic	HOXA1	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27135176	27135176	A	T	splicing	HOXA1	splicing	LUAD\|1\|543\|0.00184
-	chr7	27135315	27135316	GA	-	exonic	HOXA1	frameshift	KIPAN\|2\|799\|0.00250,KIRC\|2\|451\|0.00443,PAAD\|28\|185\|0.15135,SKCM\|1\|368\|0.00272,UCS\|1\|57\|0.01754
-	chr7	27135135	27135135	C	T	exonic	HOXA1	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
rs762135120	chr7	27135441	27135441	C	T	exonic	HOXA1	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr7	27135154	27135154	G	A	exonic	HOXA1	synonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr7	27135306	27135306	G	-	exonic	HOXA1	frameshift	COAD\|2\|367\|0.00545,COADREAD\|2\|489\|0.00409
-	chr7	27135012	27135012	C	A	exonic	HOXA1	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr7	27134298	27134298	C	-	exonic	HOXA1	frameshift	LUAD\|1\|543\|0.00184
-	chr7	27135420	27135420	G	A	exonic	HOXA1	stopgain	SKCM\|2\|368\|0.00543
-	chr7	27134227	27134227	G	A	exonic	HOXA1	synonymous	SKCM\|1\|368\|0.00272
-	chr7	27134253	27134253	G	C	exonic	HOXA1	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27135386	27135386	C	T	exonic	HOXA1	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
rs138651027	chr7	27134302	27134302	C	T	exonic	HOXA1	synonymous	HNSC\|1\|512\|0.00195
-	chr7	27134902	27134902	G	A	exonic	HOXA1	synonymous	THYM\|1\|123\|0.00813
-	chr7	27135411	27135411	C	T	exonic	HOXA1	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr7	27134302	27134302	C	A	exonic	HOXA1	synonymous	LUAD\|2\|543\|0.00368
-	chr7	27135248	27135248	C	T	exonic	HOXA1	nonsynonymous	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
rs777453698	chr7	27134177	27134177	G	A	exonic	HOXA1	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr7	27134270	27134270	A	T	exonic	HOXA1	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27135178	27135178	G	T	exonic	HOXA1	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27135378	27135378	G	A	exonic	HOXA1	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr7	27135188	27135188	T	A	exonic	HOXA1	nonsynonymous	PCPG\|1\|184\|0.00543
-	chr7	27134178	27134178	G	A	exonic	HOXA1	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr7	27135444	27135444	-	T	exonic	HOXA1	frameshift	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr7	27134297	27134297	G	C	exonic	HOXA1	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr7	27134952	27134952	G	A	exonic	HOXA1	nonsynonymous	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
-	chr7	27135409	27135409	C	A	exonic	HOXA1	synonymous	LUAD\|2\|543\|0.00368
-	chr7	27134413	27134413	C	T	exonic	HOXA1	synonymous	SKCM\|2\|368\|0.00543
-	chr7	27135528	27135528	C	T	exonic	HOXA1	nonsynonymous	SKCM\|1\|368\|0.00272
rs763360242	chr7	27134945	27134945	G	A	exonic	HOXA1	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr7	27134238	27134238	A	G	exonic	HOXA1	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr7	27135316	27135316	-	GG	exonic	HOXA1	frameshift	STAD\|3\|395\|0.00759,STES\|3\|395\|0.00759
-	chr7	27135272	27135272	C	T	exonic	HOXA1	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr7	27134120	27134120	G	T	exonic	HOXA1	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr7	27134294	27134294	C	T	exonic	HOXA1	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr7	27135199	27135199	G	A	exonic	HOXA1	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr7	27134977	27134977	G	T	exonic	HOXA1	synonymous	OV\|1\|469\|0.00213
-	chr7	27135406	27135406	G	A	exonic	HOXA1	synonymous	BLCA\|1\|396\|0.00253
-	chr7	27135410	27135410	G	A	exonic	HOXA1	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr7	27135377	27135377	C	T	exonic	HOXA1	nonsynonymous	PAAD\|1\|185\|0.00541
rs765261087	chr7	27135280	27135280	C	T	exonic	HOXA1	synonymous	SKCM\|1\|368\|0.00272
rs2074398	chr7	27135319	27135319	G	A	exonic	HOXA1	synonymous	ESCA\|2\|185\|0.01081,THYM\|1\|123\|0.00813

Disease information of HOXA1

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TF_name	Disease_name	Disease_class	Disease_semantic_type	TF_disease_source
HOXA1	Autistic Disorder	F03	Mental or Behavioral Dysfunction	CTD_human
HOXA1	Congenital Heart Defects	C14;C16	Congenital Abnormality	CTD_human
HOXA1	Cranioschisis	C10;C16	Congenital Abnormality	CTD_human
HOXA1	Craniofacial Abnormalities	C05;C16	Congenital Abnormality	CTD_human
HOXA1	Congenital neurologic anomalies	C10;C16	Congenital Abnormality	CTD_human
HOXA1	Epileptic encephalopathy		Disease or Syndrome	GENOMICS_ENGLAND
HOXA1	Athabaskan brainstem dysgenesis	C09;C10;C11;C16;C23	Disease or Syndrome	CTD_human;ORPHANET
HOXA1	Bosley-Salih-Alorainy Syndrome	C09;C10;C11;C16;C23	Disease or Syndrome	CTD_human;ORPHANET
HOXA1	Intellectual Disability	C10;C23;F01;F03	Mental or Behavioral Dysfunction	GENOMICS_ENGLAND

Pathway associated with HOXA1

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pathway_ID	pathway_name	pathway_source	gene_number	edge_number
pathway0002035	Signaling events mediated by HDAC Class III	pid	41	421
pathway0002740	Hs_Endoderm_Differentiation_WP2853_88152	wikipathways	62	260
pathway0002747	Hs_Neural_Crest_Differentiation_WP2064_79263	wikipathways	40	129

Go term information of HOXA1

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GO_term_name	GO_term_type	TF_name
GO_SINGLE_FERTILIZATION	BP	HOXA1
GO_METANEPHROS_DEVELOPMENT	BP	HOXA1
GO_REGULATION_OF_CARTILAGE_DEVELOPMENT	BP	HOXA1
GO_SENSORY_PERCEPTION_OF_MECHANICAL_STIMULUS	BP	HOXA1
GO_EMBRYONIC_DIGIT_MORPHOGENESIS	BP	HOXA1
GO_EMBRYONIC_SKELETAL_SYSTEM_DEVELOPMENT	BP	HOXA1
GO_EMBRYONIC_SKELETAL_SYSTEM_MORPHOGENESIS	BP	HOXA1
GO_MORPHOGENESIS_OF_AN_EPITHELIUM	BP	HOXA1
GO_DEVELOPMENTAL_INDUCTION	BP	HOXA1
GO_ARTERY_DEVELOPMENT	BP	HOXA1
GO_CRANIAL_NERVE_MORPHOGENESIS	BP	HOXA1
GO_POSITIVE_REGULATION_OF_BIOSYNTHETIC_PROCESS	BP	HOXA1
GO_FORELIMB_MORPHOGENESIS	BP	HOXA1
GO_KIDNEY_EPITHELIUM_DEVELOPMENT	BP	HOXA1
GO_CRANIAL_NERVE_DEVELOPMENT	BP	HOXA1
GO_DORSAL_VENTRAL_PATTERN_FORMATION	BP	HOXA1
GO_REGULATION_OF_ORGAN_FORMATION	BP	HOXA1
GO_PROXIMAL_DISTAL_PATTERN_FORMATION	BP	HOXA1
GO_REGULATION_OF_BEHAVIOR	BP	HOXA1
GO_EAR_DEVELOPMENT	BP	HOXA1
GO_ARTERY_MORPHOGENESIS	BP	HOXA1
GO_EMBRYONIC_FORELIMB_MORPHOGENESIS	BP	HOXA1
GO_CELL_FATE_COMMITMENT_INVOLVED_IN_FORMATION_OF_PRIMARY_GERM_LAYER	BP	HOXA1
GO_REPRODUCTIVE_SYSTEM_DEVELOPMENT	BP	HOXA1
GO_NEPHRON_EPITHELIUM_DEVELOPMENT	BP	HOXA1
GO_BRANCHING_INVOLVED_IN_URETERIC_BUD_MORPHOGENESIS	BP	HOXA1
GO_APPENDAGE_DEVELOPMENT	BP	HOXA1
GO_REGULATION_OF_CHONDROCYTE_DIFFERENTIATION	BP	HOXA1
GO_MESONEPHRIC_TUBULE_MORPHOGENESIS	BP	HOXA1
GO_ORGAN_INDUCTION	BP	HOXA1
GO_MESODERM_MORPHOGENESIS	BP	HOXA1
GO_CRANIAL_SKELETAL_SYSTEM_DEVELOPMENT	BP	HOXA1
GO_EMBRYONIC_MORPHOGENESIS	BP	HOXA1
GO_POSITIVE_REGULATION_OF_CARTILAGE_DEVELOPMENT	BP	HOXA1
GO_EMBRYONIC_SKELETAL_JOINT_DEVELOPMENT	BP	HOXA1
GO_EAR_MORPHOGENESIS	BP	HOXA1
GO_MESODERMAL_CELL_DIFFERENTIATION	BP	HOXA1
GO_CARTILAGE_DEVELOPMENT_INVOLVED_IN_ENDOCHONDRAL_BONE_MORPHOGENESIS	BP	HOXA1
GO_SEX_DIFFERENTIATION	BP	HOXA1
GO_COCHLEA_DEVELOPMENT	BP	HOXA1
GO_MORPHOGENESIS_OF_A_BRANCHING_STRUCTURE	BP	HOXA1
GO_COCHLEA_MORPHOGENESIS	BP	HOXA1
GO_VISUAL_BEHAVIOR	BP	HOXA1
GO_BONE_MORPHOGENESIS	BP	HOXA1
GO_CELL_FATE_SPECIFICATION	BP	HOXA1
GO_ENDOCHONDRAL_BONE_MORPHOGENESIS	BP	HOXA1
GO_KIDNEY_MORPHOGENESIS	BP	HOXA1
GO_NEUROMUSCULAR_PROCESS	BP	HOXA1
GO_POSITIVE_REGULATION_OF_CHONDROCYTE_DIFFERENTIATION	BP	HOXA1
GO_MESONEPHROS_DEVELOPMENT	BP	HOXA1
GO_MESODERMAL_CELL_FATE_COMMITMENT	BP	HOXA1
GO_CIRCULATORY_SYSTEM_DEVELOPMENT	BP	HOXA1
GO_UTERUS_DEVELOPMENT	BP	HOXA1
GO_EMBRYONIC_CRANIAL_SKELETON_MORPHOGENESIS	BP	HOXA1
GO_PROTEIN_DNA_COMPLEX	CC	HOXA1

Survival analysis of HOXA1

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 HOXA1

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