Cancer CRCdb

TF information

TF name:	LHX1
TF family:	Homeobox
Ensembl gene ID:	ENSG00000273706
Ensembl protein ID:	ENSP00000477829
Entrez gene ID:	3975

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

Frequency of LHX1 in all biosamples

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Sample ID	Biosample type	Tissue type	Biosample name	TF Frequency
Sample_02_096	Cell line	Mammary Gland	ZR-75-1_1	0.39130434782609
Sample_02_268	Cell line	Kidney	A-498	0.060734724016984

LHX1 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

LHX1 distribution in all CRCs

Genomic distribution of SEs associated with LHX1

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Mutation of LHX1

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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 LHX1

rsID	Chr	Start	Stop	Ref	Alt	Gene_region	Gene_symble	Effect	TCGA_Occurrence
-	chr17	35297654	35297654	C	T	exonic	LHX1	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr17	35300261	35300261	G	A	exonic	LHX1	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr17	35300239	35300239	C	T	exonic	LHX1	synonymous	ESCA\|1\|185\|0.00541
-	chr17	35300087	35300087	G	A	exonic	LHX1	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr17	35298037	35298037	G	T	exonic	LHX1	synonymous	LUAD\|1\|543\|0.00184
rs199559106	chr17	35300172	35300172	C	T	exonic	LHX1	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr17	35295511	35295511	G	A	exonic	LHX1	nonsynonymous	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
-	chr17	35300494	35300494	-	A	UTR3	LHX1	unknown	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr17	35295520	35295520	G	-	exonic	LHX1	frameshift	KIPAN\|1\|799\|0.00125,KIRC\|1\|451\|0.00222
-	chr17	35300123	35300123	C	T	exonic	LHX1	stopgain	SKCM\|1\|368\|0.00272
-	chr17	35297980	35297980	G	A	exonic	LHX1	synonymous	SKCM\|2\|368\|0.00543
-	chr17	35298160	35298160	C	A	exonic	LHX1	synonymous	HNSC\|1\|512\|0.00195
-	chr17	35297661	35297661	A	T	exonic	LHX1	nonsynonymous	PRAD\|2\|499\|0.00401
-	chr17	35297614	35297614	C	G	exonic	LHX1	nonsynonymous	HNSC\|1\|512\|0.00195
-	chr17	35300131	35300131	A	G	exonic	LHX1	synonymous	LIHC\|1\|373\|0.00268
-	chr17	35299527	35299527	C	T	exonic	LHX1	nonsynonymous	HNSC\|2\|512\|0.00391
-	chr17	35299578	35299578	C	T	exonic	LHX1	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr17	35297689	35297689	C	T	exonic	LHX1	synonymous	LIHC\|1\|373\|0.00268
-	chr17	35300290	35300290	G	T	exonic	LHX1	synonymous	LUAD\|1\|543\|0.00184,OV\|1\|469\|0.00213
-	chr17	35298051	35298051	G	A	exonic	LHX1	nonsynonymous	ACC\|1\|90\|0.01111,GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
-	chr17	35295563	35295563	C	T	exonic	LHX1	synonymous	HNSC\|1\|512\|0.00195
-	chr17	35297966	35297966	G	A	exonic	LHX1	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204,PAAD\|1\|185\|0.00541
rs371390635	chr17	35298007	35298007	G	A	exonic	LHX1	synonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr17	35300353	35300353	G	A	exonic	LHX1	synonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr17	35300422	35300422	G	T	exonic	LHX1	synonymous	LUAD\|1\|543\|0.00184
-	chr17	35299591	35299591	G	A	exonic	LHX1	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr17	35295625	35295625	C	G	exonic	LHX1	nonsynonymous	BLCA\|1\|396\|0.00253
-	chr17	35300095	35300095	C	-	exonic	LHX1	frameshift	LIHC\|1\|373\|0.00268
rs773502109	chr17	35300397	35300397	C	A	exonic	LHX1	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr17	35297911	35297911	C	G	exonic	LHX1	synonymous	LUAD\|1\|543\|0.00184
-	chr17	35298006	35298006	C	T	exonic	LHX1	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr17	35297814	35297814	G	C	splicing	LHX1	splicing	HNSC\|1\|512\|0.00195
-	chr17	35298050	35298050	C	T	exonic	LHX1	nonsynonymous	LIHC\|1\|373\|0.00268
-	chr17	35297671	35297671	C	T	exonic	LHX1	synonymous	OV\|1\|469\|0.00213
-	chr17	35298099	35298099	C	T	exonic	LHX1	nonsynonymous	PAAD\|1\|185\|0.00541
-	chr17	35299571	35299571	C	T	exonic	LHX1	synonymous	SARC\|1\|247\|0.00405
-	chr17	35300496	35300496	A	-	UTR3	LHX1	unknown	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr17	35297675	35297675	A	C	exonic	LHX1	nonsynonymous	KIPAN\|1\|799\|0.00125,KIRC\|1\|451\|0.00222
-	chr17	35300134	35300134	G	A	exonic	LHX1	synonymous	SKCM\|1\|368\|0.00272
-	chr17	35300203	35300203	G	T	exonic	LHX1	synonymous	LUAD\|1\|543\|0.00184
-	chr17	35300496	35300497	AA	-	UTR3	LHX1	unknown	STAD\|2\|395\|0.00506,STES\|2\|395\|0.00506
rs775415590	chr17	35298151	35298151	G	A	exonic	LHX1	synonymous	CESC\|1\|194\|0.00515
-	chr17	35299535	35299535	G	A	exonic	LHX1	nonsynonymous	BLCA\|1\|396\|0.00253
-	chr17	35300395	35300395	C	-	exonic	LHX1	frameshift	COAD\|4\|367\|0.01090,COADREAD\|4\|489\|0.00818,STAD\|7\|395\|0.01772,STES\|7\|395\|0.01772
-	chr17	35295497	35295497	G	A	exonic	LHX1	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr17	35298090	35298090	C	T	exonic	LHX1	nonsynonymous	BLCA\|1\|396\|0.00253
-	chr17	35299554	35299554	G	A	exonic	LHX1	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr17	35299544	35299544	G	A	exonic	LHX1	synonymous	HNSC\|1\|512\|0.00195
-	chr17	35300411	35300411	G	A	exonic	LHX1	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr17	35299577	35299577	C	T	exonic	LHX1	synonymous	KIPAN\|1\|799\|0.00125,KIRC\|1\|451\|0.00222
-	chr17	35300213	35300213	C	A	exonic	LHX1	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr17	35300345	35300345	T	C	exonic	LHX1	nonsynonymous	LIHC\|1\|373\|0.00268
-	chr17	35297719	35297719	C	T	exonic	LHX1	synonymous	BLCA\|1\|396\|0.00253
-	chr17	35300245	35300245	C	T	exonic	LHX1	synonymous	SKCM\|2\|368\|0.00543
rs775423572	chr17	35300394	35300394	-	C	exonic	LHX1	frameshift	COAD\|3\|367\|0.00817,COADREAD\|3\|489\|0.00613,SARC\|1\|247\|0.00405,STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr17	35297618	35297618	C	G	exonic	LHX1	nonsynonymous	GBM\|1\|290\|0.00345,GBMLGG\|1\|820\|0.00122
-	chr17	35300402	35300402	G	A	exonic	LHX1	nonsynonymous	UCEC\|1\|248\|0.00403
rs546566090	chr17	35300104	35300104	C	T	exonic	LHX1	synonymous	SARC\|1\|247\|0.00405
-	chr17	35299500	35299500	T	G	exonic	LHX1	nonsynonymous	ESCA\|1\|185\|0.00541
-	chr17	35297710	35297710	C	T	exonic	LHX1	synonymous	HNSC\|1\|512\|0.00195
rs755972632	chr17	35298029	35298029	C	A	exonic	LHX1	nonsynonymous	PCPG\|1\|184\|0.00543
-	chr17	35300251	35300251	G	A	exonic	LHX1	synonymous	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
-	chr17	35300496	35300498	AAA	-	UTR3	LHX1	unknown	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr17	35300117	35300117	C	T	exonic	LHX1	stopgain	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr17	35300098	35300098	G	A	exonic	LHX1	synonymous	BLCA\|1\|396\|0.00253
-	chr17	35295534	35295534	C	A	exonic	LHX1	nonsynonymous	PRAD\|1\|499\|0.00200
-	chr17	35297586	35297586	-	C	splicing	LHX1	unknown	KICH\|1\|66\|0.01515,KIPAN\|1\|799\|0.00125
-	chr17	35298024	35298024	A	T	exonic	LHX1	nonsynonymous	BRCA\|1\|982\|0.00102
-	chr17	35297717	35297717	G	T	exonic	LHX1	nonsynonymous	KIPAN\|1\|799\|0.00125,KIRP\|1\|282\|0.00355
rs150197430	chr17	35300318	35300318	G	A	exonic	LHX1	nonsynonymous	BLCA\|1\|396\|0.00253
-	chr17	35298106	35298106	C	T	exonic	LHX1	synonymous	BLCA\|2\|396\|0.00505
-	chr17	35300221	35300221	C	G	exonic	LHX1	nonsynonymous	LUAD\|1\|543\|0.00184
rs780940543	chr17	35300279	35300279	G	A	exonic	LHX1	nonsynonymous	BLCA\|2\|396\|0.00505
-	chr17	35298059	35298059	C	T	exonic	LHX1	nonsynonymous	STAD\|2\|395\|0.00506,STES\|2\|395\|0.00506
-	chr17	35300370	35300370	C	A	exonic	LHX1	nonsynonymous	LUAD\|1\|543\|0.00184

Disease information of LHX1

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TF_name	Disease_name	Disease_class	Disease_semantic_type	TF_disease_source
LHX1	Female Urogenital Diseases	C13	Disease or Syndrome	CTD_human
LHX1	CHROMOSOME 17q12 DELETION SYNDROME		Disease or Syndrome	ORPHANET

Pathway associated with LHX1

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pathway_ID	pathway_name	pathway_source	gene_number	edge_number
pathway0002740	Hs_Endoderm_Differentiation_WP2853_88152	wikipathways	62	260
pathway0002841	Hs_Ectoderm_Differentiation_WP2858_89329	wikipathways	56	137

Go term information of LHX1

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GO_term_name	GO_term_type	TF_name
GO_POSITIVE_REGULATION_OF_EPITHELIAL_CELL_DIFFERENTIATION	BP	LHX1
GO_METANEPHRIC_NEPHRON_MORPHOGENESIS	BP	LHX1
GO_AXIS_SPECIFICATION	BP	LHX1
GO_REGULATION_OF_MORPHOGENESIS_OF_A_BRANCHING_STRUCTURE	BP	LHX1
GO_METANEPHROS_DEVELOPMENT	BP	LHX1
GO_EMBRYONIC_AXIS_SPECIFICATION	BP	LHX1
GO_EMBRYONIC_SKELETAL_SYSTEM_DEVELOPMENT	BP	LHX1
GO_POSITIVE_REGULATION_OF_KIDNEY_DEVELOPMENT	BP	LHX1
GO_CEREBELLAR_PURKINJE_CELL_LAYER_FORMATION	BP	LHX1
GO_PRIMITIVE_STREAK_FORMATION	BP	LHX1
GO_RENAL_VESICLE_DEVELOPMENT	BP	LHX1
GO_CEREBELLAR_CORTEX_MORPHOGENESIS	BP	LHX1
GO_NEURAL_RETINA_DEVELOPMENT	BP	LHX1
GO_KIDNEY_EPITHELIUM_DEVELOPMENT	BP	LHX1
GO_REGULATION_OF_EPITHELIAL_CELL_DIFFERENTIATION_INVOLVED_IN_KIDNEY_DEVELOPMENT	BP	LHX1
GO_GASTRULATION_WITH_MOUTH_FORMING_SECOND	BP	LHX1
GO_CELL_DIFFERENTIATION_IN_SPINAL_CORD	BP	LHX1
GO_DORSAL_VENTRAL_PATTERN_FORMATION	BP	LHX1
GO_REGULATION_OF_MESONEPHROS_DEVELOPMENT	BP	LHX1
GO_FOREBRAIN_REGIONALIZATION	BP	LHX1
GO_EMBRYONIC_VISCEROCRANIUM_MORPHOGENESIS	BP	LHX1
GO_VENTRAL_SPINAL_CORD_DEVELOPMENT	BP	LHX1
GO_MOTOR_NEURON_AXON_GUIDANCE	BP	LHX1
GO_ECTODERM_DEVELOPMENT	BP	LHX1
GO_NEPHRIC_DUCT_DEVELOPMENT	BP	LHX1
GO_REGULATION_OF_KIDNEY_DEVELOPMENT	BP	LHX1
GO_CEREBELLAR_CORTEX_DEVELOPMENT	BP	LHX1
GO_REPRODUCTIVE_SYSTEM_DEVELOPMENT	BP	LHX1
GO_NEPHRON_EPITHELIUM_DEVELOPMENT	BP	LHX1
GO_METANEPHRIC_RENAL_VESICLE_MORPHOGENESIS	BP	LHX1
GO_EMBRYONIC_PATTERN_SPECIFICATION	BP	LHX1
GO_BRANCHING_INVOLVED_IN_URETERIC_BUD_MORPHOGENESIS	BP	LHX1
GO_CELL_DIFFERENTIATION_IN_HINDBRAIN	BP	LHX1
GO_GLOMERULUS_DEVELOPMENT	BP	LHX1
GO_POSITIVE_REGULATION_OF_NEURAL_PRECURSOR_CELL_PROLIFERATION	BP	LHX1
GO_CENTRAL_NERVOUS_SYSTEM_NEURON_DIFFERENTIATION	BP	LHX1
GO_MESONEPHRIC_TUBULE_MORPHOGENESIS	BP	LHX1
GO_NEURON_PROJECTION_MORPHOGENESIS	BP	LHX1
GO_ENDODERM_DEVELOPMENT	BP	LHX1
GO_METANEPHRIC_NEPHRON_DEVELOPMENT	BP	LHX1
GO_RETINA_LAYER_FORMATION	BP	LHX1
GO_REGULATION_OF_GASTRULATION	BP	LHX1
GO_HEAD_DEVELOPMENT	BP	LHX1
GO_SPINAL_CORD_ASSOCIATION_NEURON_DIFFERENTIATION	BP	LHX1
GO_MORPHOGENESIS_OF_A_BRANCHING_STRUCTURE	BP	LHX1
GO_HINDBRAIN_MORPHOGENESIS	BP	LHX1
GO_ANTERIOR_POSTERIOR_AXIS_SPECIFICATION	BP	LHX1
GO_ENDODERM_FORMATION	BP	LHX1
GO_CEREBELLAR_CORTEX_FORMATION	BP	LHX1
GO_KIDNEY_MORPHOGENESIS	BP	LHX1
GO_DEVELOPMENTAL_GROWTH_INVOLVED_IN_MORPHOGENESIS	BP	LHX1
GO_DORSAL_SPINAL_CORD_DEVELOPMENT	BP	LHX1
GO_NEPHRON_DEVELOPMENT	BP	LHX1
GO_GENITALIA_DEVELOPMENT	BP	LHX1
GO_CEREBELLAR_PURKINJE_CELL_LAYER_MORPHOGENESIS	BP	LHX1
GO_POSITIVE_REGULATION_OF_EMBRYONIC_DEVELOPMENT	BP	LHX1
GO_SOMITE_DEVELOPMENT	BP	LHX1
GO_FEMALE_GENITALIA_DEVELOPMENT	BP	LHX1
GO_REGULATION_OF_NEURAL_PRECURSOR_CELL_PROLIFERATION	BP	LHX1
GO_MESONEPHROS_DEVELOPMENT	BP	LHX1
GO_REGIONALIZATION	BP	LHX1
GO_CEREBELLAR_PURKINJE_CELL_LAYER_DEVELOPMENT	BP	LHX1
GO_UTERUS_DEVELOPMENT	BP	LHX1
GO_NEPHRIC_DUCT_MORPHOGENESIS	BP	LHX1
GO_POSITIVE_REGULATION_OF_MESONEPHROS_DEVELOPMENT	BP	LHX1
GO_METANEPHROS_MORPHOGENESIS	BP	LHX1
GO_RETINA_MORPHOGENESIS_IN_CAMERA_TYPE_EYE	BP	LHX1
GO_EMBRYONIC_CRANIAL_SKELETON_MORPHOGENESIS	BP	LHX1

Survival analysis of LHX1

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 LHX1

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