Cancer CRCdb

TF information

TF name:	NFIA
TF family:	CTF/NFI
Ensembl gene ID:	ENSG00000162599
Ensembl protein ID:	ENSP00000360233, ENSP00000360227, ENSP00000474461, ENSP00000384523, ENSP00000360226, ENSP00000473830, ENSP00000360231, ENSP00000474806, ENSP00000360229, ENSP00000474462, ENSP00000419785, ENSP00000384680
Entrez gene ID:	4774

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

Frequency of NFIA in all biosamples

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Sample ID	Biosample type	Tissue type	Biosample name	TF Frequency
Sample_02_007	Other	Cervical	cervical-cancer_vector	0.016556291390728
Sample_02_168	Cell line	Prostate	LNCaP	0.15589353612167
Sample_02_242	Cell line	Colon	V481	0.078510542844325
Sample_02_285	Cell line	Liver	HuH7_untreat	0.10104529616725
Sample_02_361	Cell line	Colon	HT29_DMSO	0.18053097345133
Sample_02_413	Tissue	Brain	GBM_2493	0.13736263736264

NFIA distribution in samples’ most representative CRC

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Sample ID	Tissue type	Biosample type	Biosample name

NFIA distribution in all CRCs

Genomic distribution of SEs associated with NFIA

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Mutation of NFIA

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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 NFIA

rsID	Chr	Start	Stop	Ref	Alt	Gene_region	Gene_symble	Effect	TCGA_Occurrence
-	chr1	61554147	61554147	C	A	exonic	NFIA	nonsynonymous	CESC\|1\|194\|0.00515
-	chr1	61848968	61848968	C	T	exonic	NFIA	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	61824847	61824847	G	A	exonic	NFIA	nonsynonymous	SKCM\|2\|368\|0.00543
rs761025450	chr1	61872310	61872310	C	T	exonic	NFIA	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr1	61869785	61869785	A	T	exonic	NFIA	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr1	61872334	61872334	C	G	exonic	NFIA	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	61818207	61818207	G	C	exonic	NFIA	nonsynonymous	BLCA\|1\|396\|0.00253
-	chr1	61743219	61743219	A	G	exonic	NFIA	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr1	61818150	61818150	T	-	exonic	NFIA	frameshift	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr1	61848933	61848933	A	C	exonic	NFIA	nonsynonymous	GBMLGG\|1\|820\|0.00122,LGG\|1\|530\|0.00189
-	chr1	61824904	61824904	G	A	exonic	NFIA	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	61818196	61818196	C	A	exonic	NFIA	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr1	61848909	61848909	G	T	exonic	NFIA	nonsynonymous	BLCA\|1\|396\|0.00253
-	chr1	61824865	61824865	G	C	exonic	NFIA	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
rs758837290	chr1	61869932	61869932	C	T	exonic	NFIA	nonsynonymous	BLCA\|1\|396\|0.00253
-	chr1	61554268	61554268	C	T	exonic	NFIA	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	61554129	61554129	C	T	exonic	NFIA	synonymous	SKCM\|1\|368\|0.00272
-	chr1	61818176	61818176	C	T	exonic	NFIA	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	61554140	61554140	G	T	exonic	NFIA	nonsynonymous	COADREAD\|1\|489\|0.00204,READ\|1\|122\|0.00820
-	chr1	61554058	61554058	G	T	exonic	NFIA	stopgain	LUSC\|1\|178\|0.00562
-	chr1	61743211	61743211	-	C	exonic	NFIA	frameshift	LIHC\|1\|373\|0.00268
-	chr1	61554044	61554044	G	A	exonic	NFIA	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr1	61554015	61554015	A	T	exonic	NFIA	synonymous	LUAD\|2\|543\|0.00368
rs780521254	chr1	61848996	61848996	C	T	exonic	NFIA	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr1	61818168	61818168	G	C	exonic	NFIA	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr1	61824896	61824896	G	A	exonic	NFIA	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr1	61824824	61824824	C	G	exonic	NFIA	nonsynonymous	LUSC\|1\|178\|0.00562
-	chr1	61869892	61869892	G	C	exonic	NFIA	nonsynonymous	BLCA\|1\|396\|0.00253
-	chr1	61553863	61553863	C	T	exonic	NFIA	stopgain	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr1	61869896	61869896	T	G	exonic	NFIA	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr1	61869812	61869812	C	T	exonic	NFIA	nonsynonymous	GBM\|1\|290\|0.00345,GBMLGG\|1\|820\|0.00122
-	chr1	61548477	61548477	T	-	exonic	NFIA	frameshift	TGCT\|1\|155\|0.00645
-	chr1	61743222	61743222	C	T	exonic	NFIA	nonsynonymous	KIPAN\|1\|799\|0.00125,KIRC\|1\|451\|0.00222
rs867811489	chr1	61892191	61892191	G	A	exonic	NFIA	nonsynonymous	SARC\|1\|247\|0.00405,UCEC\|1\|248\|0.00403
-	chr1	61869880	61869880	G	A	exonic	NFIA	nonsynonymous	KICH\|1\|66\|0.01515,KIPAN\|1\|799\|0.00125
rs776408635	chr1	61553959	61553959	G	A	exonic	NFIA	nonsynonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr1	61554154	61554154	C	T	exonic	NFIA	nonsynonymous	BRCA\|1\|982\|0.00102
-	chr1	61798192	61798192	G	A	exonic	NFIA	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	61920976	61920976	C	T	exonic	NFIA	nonsynonymous	HNSC\|1\|512\|0.00195
-	chr1	61547540	61547540	-	T	UTR5	NFIA	unknown	BRCA\|1\|982\|0.00102
-	chr1	61818185	61818185	A	G	exonic	NFIA	nonsynonymous	STAD\|2\|395\|0.00506,STES\|2\|395\|0.00506
rs748732161	chr1	61872295	61872295	C	T	exonic	NFIA	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr1	61849027	61849027	A	G	exonic	NFIA	synonymous	LUAD\|1\|543\|0.00184
rs773626430	chr1	61872302	61872302	G	A	exonic	NFIA	synonymous	UCEC\|1\|248\|0.00403
-	chr1	61818202	61818202	G	A	exonic	NFIA	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr1	61869839	61869839	G	T	exonic	NFIA	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr1	61743207	61743207	A	T	exonic	NFIA	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr1	61554224	61554224	G	A	exonic	NFIA	nonsynonymous	SKCM\|1\|368\|0.00272
rs751696907	chr1	61848939	61848939	C	T	exonic	NFIA	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr1	61892169	61892169	C	T	exonic	NFIA	stopgain	UCEC\|1\|248\|0.00403
-	chr1	61553950	61553950	G	C	exonic	NFIA	nonsynonymous	LUSC\|1\|178\|0.00562
-	chr1	61554085	61554085	A	-	exonic	NFIA	frameshift	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr1	61553989	61553989	G	A	exonic	NFIA	nonsynonymous	SKCM\|1\|368\|0.00272
rs115287620	chr1	61921003	61921003	G	A	exonic	NFIA	synonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr1	61554263	61554263	C	G	exonic	NFIA	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr1	61818215	61818215	C	T	exonic	NFIA	nonsynonymous	KICH\|1\|66\|0.01515,KIPAN\|1\|799\|0.00125
rs146012018	chr1	61872392	61872392	G	A	exonic	NFIA	synonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr1	61892163	61892163	G	A	exonic	NFIA	nonsynonymous	COAD\|1\|367\|0.00272,COADREAD\|1\|489\|0.00204
-	chr1	61743213	61743213	C	G	exonic	NFIA	nonsynonymous	THCA\|1\|504\|0.00198
-	chr1	61921583	61921583	C	T	UTR3	NFIA	unknown	BRCA\|1\|982\|0.00102
-	chr1	61818161	61818161	C	T	exonic	NFIA	nonsynonymous	BRCA\|1\|982\|0.00102
-	chr1	61872244	61872244	G	T	exonic	NFIA	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr1	61553830	61553830	C	T	exonic	NFIA	nonsynonymous	SKCM\|2\|368\|0.00543
-	chr1	61869882	61869882	G	A	exonic	NFIA	synonymous	BRCA\|1\|982\|0.00102
rs769193097	chr1	61869859	61869859	G	A	exonic	NFIA	nonsynonymous	UCEC\|1\|248\|0.00403
-	chr1	61872316	61872316	C	T	exonic	NFIA	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	61848985	61848985	C	T	exonic	NFIA	synonymous	SKCM\|1\|368\|0.00272
-	chr1	61848997	61848997	G	A	exonic	NFIA	synonymous	BRCA\|1\|982\|0.00102
-	chr1	61872278	61872278	C	T	exonic	NFIA	synonymous	STAD\|1\|395\|0.00253,STES\|1\|395\|0.00253
-	chr1	61553906	61553906	G	A	exonic	NFIA	nonsynonymous	SKCM\|2\|368\|0.00543
-	chr1	61869831	61869831	G	T	exonic	NFIA	nonsynonymous	LUAD\|1\|543\|0.00184
-	chr1	61818241	61818241	T	G	splicing	NFIA	splicing	PRAD\|1\|499\|0.00200
-	chr1	61554110	61554110	C	T	exonic	NFIA	nonsynonymous	SKCM\|1\|368\|0.00272
-	chr1	61553986	61553986	C	A	exonic	NFIA	nonsynonymous	COADREAD\|1\|489\|0.00204,READ\|1\|122\|0.00820
-	chr1	61554319	61554319	G	A	exonic	NFIA	nonsynonymous	UCEC\|1\|248\|0.00403

Disease information of NFIA

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TF_name	Disease_name	Disease_class	Disease_semantic_type	TF_disease_source
NFIA	CHROMOSOME 1p32-p31 DELETION SYNDROME		Disease or Syndrome	CTD_human
NFIA	Intellectual Disability	C10;C23;F01;F03	Mental or Behavioral Dysfunction	GENOMICS_ENGLAND
NFIA	BRAIN MALFORMATIONS WITH OR WITHOUT URINARY TRACT DEFECTS		Congenital Abnormality	CTD_human

Pathway associated with NFIA

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pathway_ID	pathway_name	pathway_source	gene_number	edge_number
pathway0000824	FOXA1 transcription factor network	pid	45	204
pathway0001926	RNA Polymerase III Abortive And Retractive Initiation	reactome	41	663
pathway0001931	RNA Polymerase III Transcription Termination	reactome	23	245

Go term information of NFIA

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GO_term_name	GO_term_type	TF_name
GO_SYNAPSE_ORGANIZATION	BP	NFIA
GO_VIRAL_GENOME_REPLICATION	BP	NFIA
GO_VIRAL_LIFE_CYCLE	BP	NFIA
GO_INTERSPECIES_INTERACTION_BETWEEN_ORGANISMS	BP	NFIA
GO_DNA_REPLICATION	BP	NFIA
GO_TRANSCRIPTION_FACTOR_BINDING	MF	NFIA

Survival analysis of NFIA

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 NFIA

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