Cancer CRCdb

TF information

TF name:	LMX1B
TF family:	Homeobox
Ensembl gene ID:	ENSG00000136944
Ensembl protein ID:	ENSP00000347684, ENSP00000453580, ENSP00000436930, ENSP00000362573
Entrez gene ID:	4010

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

Frequency of LMX1B 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	0.89130434782609
Sample_02_298	Cell line	Neuroblastoma	CLB-GA	0.6986301369863
Sample_02_314	Cell line	Neuroblastoma	SK-N-FI	0.66049382716049

LMX1B 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_298	Neuroblastoma	Cell line	CLB-GA
Sample_02_314	Neuroblastoma	Cell line	SK-N-FI

LMX1B distribution in all CRCs

Genomic distribution of SEs associated with LMX1B

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Mutation of LMX1B

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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 LMX1B

rsID	Chr	Start	Stop	Ref	Alt	Gene_region	Gene_symble	Effect	TCGA_Occurrence
-	chr9	129453345	129453345	C	G	exonic	LMX1B	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr9	129455523	129455523	G	T	exonic	LMX1B	nonsynonymous	BLCA\|1\|396\|0.00253
-	chr9	129376761	129376761	G	C	exonic	LMX1B	nonsynonymous	HNSC\|1\|512\|0.00195
rs529256518	chr9	129458652	129458652	C	T	exonic	LMX1B	synonymous	PAAD\|1\|185\|0.00541
-	chr9	129455807	129455807	G	C	exonic	LMX1B	nonsynonymous	BLCA\|1\|396\|0.00253
-	chr9	129456044	129456044	G	C	exonic	LMX1B	nonsynonymous	KIPAN\|1\|799\|0.00125,KIRP\|1\|282\|0.00355
rs779330478	chr9	129453247	129453247	C	T	exonic	LMX1B	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204,LUAD\|1\|543\|0.00184
-	chr9	129455863	129455863	C	T	exonic	LMX1B	stopgain	SKCM\|1\|368\|0.00272
-	chr9	129458653	129458653	G	C	exonic	LMX1B	nonsynonymous	BRCA\|1\|982\|0.00102
-	chr9	129455432	129455432	G	T	exonic	LMX1B	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr9	129455441	129455441	G	-	exonic	LMX1B	frameshift	BLCA\|1\|396\|0.00253
rs121909491	chr9	129455529	129455529	G	A	exonic	LMX1B	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr9	129455807	129455807	G	T	exonic	LMX1B	nonsynonymous	TGCT\|1\|155\|0.00645
rs750526845	chr9	129458674	129458674	G	A	exonic	LMX1B	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
rs540034621	chr9	129453169	129453169	C	T	exonic	LMX1B	synonymous	UCEC\|1\|248\|0.00403,UCS\|1\|57\|0.01754
-	chr9	129455510	129455510	C	T	exonic	LMX1B	nonsynonymous	PAAD\|1\|185\|0.00541,PRAD\|1\|499\|0.00200
-	chr9	129453201	129453201	T	C	exonic	LMX1B	nonsynonymous	ESCA\|1\|185\|0.00541
-	chr9	129453241	129453241	-	A	exonic	LMX1B	frameshift	LUSC\|1\|178\|0.00562
-	chr9	129455528	129455528	C	G	exonic	LMX1B	nonsynonymous	LUSC\|1\|178\|0.00562
-	chr9	129453292	129453292	C	T	exonic	LMX1B	synonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
rs146476348	chr9	129458673	129458673	C	T	exonic	LMX1B	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr9	129455586	129455586	C	G	exonic	LMX1B	nonsynonymous	LUSC\|1\|178\|0.00562
-	chr9	129376847	129376847	C	A	exonic	LMX1B	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr9	129377800	129377800	G	T	exonic	LMX1B	nonsynonymous	ESCA\|1\|185\|0.00541
-	chr9	129453223	129453223	G	T	exonic	LMX1B	synonymous	ESCA\|1\|185\|0.00541
-	chr9	129376791	129376791	C	T	exonic	LMX1B	synonymous	UCEC\|1\|248\|0.00403
-	chr9	129455575	129455575	C	T	exonic	LMX1B	synonymous	UCEC\|1\|248\|0.00403
-	chr9	129453250	129453250	C	T	exonic	LMX1B	synonymous	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
-	chr9	129453266	129453266	G	A	exonic	LMX1B	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr9	129453248	129453248	G	A	exonic	LMX1B	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
rs759904268	chr9	129453256	129453256	C	T	exonic	LMX1B	synonymous	UCEC\|1\|248\|0.00403
rs760853803	chr9	129453146	129453146	G	A	exonic	LMX1B	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr9	129453164	129453164	G	T	exonic	LMX1B	stopgain	BLCA\|1\|396\|0.00253
rs199580468	chr9	129458245	129458245	G	A	exonic	LMX1B	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr9	129458715	129458715	C	A	exonic	LMX1B	synonymous	UCEC\|1\|248\|0.00403
-	chr9	129455511	129455511	G	A	exonic	LMX1B	nonsynonymous	PAAD\|1\|185\|0.00541
rs757937784	chr9	129377708	129377708	C	T	exonic	LMX1B	synonymous	HNSC\|1\|512\|0.00195
rs371560611	chr9	129455844	129455844	C	T	exonic	LMX1B	synonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253,UCEC\|1\|248\|0.00403
rs772632723	chr9	129458599	129458599	G	A	exonic	LMX1B	nonsynonymous	BRCA\|1\|982\|0.00102
-	chr9	129455846	129455846	T	C	exonic	LMX1B	nonsynonymous	LUAD\|2\|543\|0.00368
-	chr9	129455843	129455843	G	A	exonic	LMX1B	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr9	129458719	129458719	T	G	exonic	LMX1B	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr9	129376842	129376842	-	C	exonic	LMX1B	frameshift	ACC\|2\|90\|0.02222
-	chr9	129458638	129458638	C	A	exonic	LMX1B	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
rs750636039	chr9	129458637	129458637	C	T	exonic	LMX1B	synonymous	SKCM\|2\|368\|0.00543
-	chr9	129458122	129458122	C	T	exonic	LMX1B	synonymous	SKCM\|2\|368\|0.00543
rs776839118	chr9	129453251	129453251	G	A	exonic	LMX1B	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204,UCEC\|1\|248\|0.00403
-	chr9	129377731	129377731	G	C	exonic	LMX1B	nonsynonymous	BLCA\|1\|396\|0.00253
-	chr9	129377702	129377702	G	T	exonic	LMX1B	nonsynonymous	ESCA\|1\|185\|0.00541
-	chr9	129455805	129455805	C	A	exonic	LMX1B	synonymous	BRCA\|1\|982\|0.00102
rs771173837	chr9	129458221	129458221	C	T	exonic	LMX1B	synonymous	PRAD\|1\|499\|0.00200
-	chr9	129453307	129453307	G	A	exonic	LMX1B	synonymous	SKCM\|2\|368\|0.00543
-	chr9	129458665	129458665	C	A	exonic	LMX1B	nonsynonymous	LIHC\|1\|373\|0.00268
-	chr9	129376817	129376817	T	C	exonic	LMX1B	nonsynonymous	LIHC\|1\|373\|0.00268
-	chr9	129458217	129458217	G	A	exonic	LMX1B	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr9	129453232	129453232	G	T	exonic	LMX1B	synonymous	LUAD\|1\|543\|0.00184
rs145052881	chr9	129458164	129458164	G	T	exonic	LMX1B	synonymous	LUSC\|1\|178\|0.00562
-	chr9	129455563	129455563	C	T	exonic	LMX1B	synonymous	LUSC\|1\|178\|0.00562
-	chr9	129376780	129376780	C	A	exonic	LMX1B	nonsynonymous	ACC\|1\|90\|0.01111
rs372183654	chr9	129458721	129458721	C	T	exonic	LMX1B	synonymous	UCEC\|1\|248\|0.00403
-	chr9	129458638	129458638	C	T	exonic	LMX1B	nonsynonymous	PAAD\|1\|185\|0.00541
-	chr9	129453255	129453255	T	G	exonic	LMX1B	nonsynonymous	CESC\|1\|194\|0.00515
-	chr9	129458605	129458605	G	A	exonic	LMX1B	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr9	129377719	129377719	G	T	exonic	LMX1B	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
rs200350302	chr9	129453154	129453154	C	T	exonic	LMX1B	synonymous	SKCM\|1\|368\|0.00272,UCS\|1\|57\|0.01754
-	chr9	129458726	129458726	C	G	exonic	LMX1B	nonsynonymous	LUAD\|1\|543\|0.00184
rs780090833	chr9	129455488	129455488	C	T	exonic	LMX1B	synonymous	ESCA\|1\|185\|0.00541
-	chr9	129377800	129377800	G	A	exonic	LMX1B	nonsynonymous	UCEC\|1\|248\|0.00403
rs767072869	chr9	129453257	129453257	G	A	exonic	LMX1B	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr9	129453336	129453336	A	G	exonic	LMX1B	nonsynonymous	GBM\|1\|290\|0.00345,GBMLGG\|1\|820\|0.00122
-	chr9	129455877	129455877	A	T	exonic	LMX1B	synonymous	LIHC\|1\|373\|0.00268
rs773510108	chr9	129458133	129458133	G	A	exonic	LMX1B	nonsynonymous	PRAD\|1\|499\|0.00200
-	chr9	129456050	129456051	AG	-	exonic	LMX1B	frameshift	THCA\|2\|504\|0.00397
rs777089988	chr9	129458222	129458222	G	A	exonic	LMX1B	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr9	129458248	129458248	G	A	exonic	LMX1B	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr9	129377676	129377676	C	T	exonic	LMX1B	nonsynonymous	STAD\|2\|395\|0.00506,STES\|2\|395\|0.00506
-	chr9	129458702	129458702	C	T	exonic	LMX1B	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr9	129377811	129377811	C	T	exonic	LMX1B	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr9	129455811	129455811	G	A	exonic	LMX1B	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204

Disease information of LMX1B

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TF_name	Disease_name	Disease_class	Disease_semantic_type	TF_disease_source
LMX1B	Behavior Disorders	F03	Mental or Behavioral Dysfunction	CTD_human
LMX1B	Mental disorders	F03	Mental or Behavioral Dysfunction	CTD_human
LMX1B	Congenital clubfoot	C05;C16	Congenital Abnormality	CTD_human
LMX1B	Craniosynostosis	C05;C16	Disease or Syndrome	GENOMICS_ENGLAND
LMX1B	Hematuria	C12;C13;C23	Disease or Syndrome	CTD_human
LMX1B	Hyperlipidemia	C18	Disease or Syndrome	CTD_human
LMX1B	Sleep Initiation and Maintenance Disorders	C10;F03	Disease or Syndrome	CTD_human
LMX1B	Nail-Patella Syndrome	C05;C16;C17	Disease or Syndrome	CTD_human;ORPHANET;UNIPROT
LMX1B	Primary Insomnia	C10;F03	Disease or Syndrome	CTD_human
LMX1B	Proteinuria	C12;C13;C23	Finding	CTD_human
LMX1B	Schizophrenia	F03	Mental or Behavioral Dysfunction	PSYGENET
LMX1B	Cataract	C11	Acquired Abnormality	GENOMICS_ENGLAND
LMX1B	Rebound Insomnia	C10;F03	Sign or Symptom	CTD_human
LMX1B	Nonorganic Insomnia	C10;F03	Disease or Syndrome	CTD_human
LMX1B	Diagnosis, Psychiatric	F03	Mental or Behavioral Dysfunction	CTD_human
LMX1B	Transient Insomnia	C10;F03	Sign or Symptom	CTD_human
LMX1B	Early Awakening	C10;F03	Mental or Behavioral Dysfunction	CTD_human
LMX1B	Chronic Insomnia	C10;F03	Disease or Syndrome	CTD_human
LMX1B	Psychophysiological Insomnia	C10;F03	Disease or Syndrome	CTD_human
LMX1B	Secondary Insomnia	C10;F03	Sign or Symptom	CTD_human
LMX1B	Sleep Initiation Dysfunction	C10;F03	Disease or Syndrome	CTD_human
LMX1B	Sleeplessness	C10;F03	Sign or Symptom	CTD_human
LMX1B	Neurodevelopmental Disorders	F03	Mental or Behavioral Dysfunction	CTD_human
LMX1B	Lipidemias	C18	Finding	CTD_human
LMX1B	Intellectual Disability	C10;C23;F01;F03	Mental or Behavioral Dysfunction	GENOMICS_ENGLAND
LMX1B	Mental Disorders, Severe	F03	Mental or Behavioral Dysfunction	CTD_human

Pathway associated with LMX1B

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pathway_ID	pathway_name	pathway_source	gene_number	edge_number
pathway0002720	Hs_Primary_Focal_Segmental_Glomerulosclerosis_FSGS_WP2572_90019	wikipathways	7	9
pathway0002746	Hs_Dopaminergic_Neurogenesis_WP2855_87239	wikipathways	19	37

Go term information of LMX1B

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GO_term_name	GO_term_type	TF_name
GO_DOPAMINERGIC_NEURON_DIFFERENTIATION	BP	LMX1B
GO_NEURON_DIFFERENTIATION	BP	LMX1B

Survival analysis of LMX1B

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 LMX1B

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