Gene Report

Basic information

Related studies

Functional annotation

Related other genetic factors

Overlap with SZ and MDD

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Basic Info

Approved Symbol	NGF
Previous Symbol	NGFB
Approved Name	nerve growth factor (beta polypeptide)
Location	1p13.1
Position	chr1:115285918-115338236, -1
External Links	HGNC: 7808 Entrez Gene: 4803 Ensembl: ENSG00000134259 UCSC: uc001efu.1
No. of Studies	2 (Positive: 1; Negative: 1; trend: 0)
Overlap with SZ?	YES
Overlap with MDD?	NO

Gene related studies (count: 2)

Reference	Tested Markers	Statistical Values/Author Comments	Result Category	Comment on Study
Sklar, P.,2011	SNP: rs10776799	No significant association was observed.	Negative	Comment on Study
Ament, S. A., 2015		Coding P-value=0.74, q-value=0.88, Regulatory P-value=0.0084, q-value=0.036. The gene has significant rare variant associations to BD.	Positive	Comment on Study

Gene functional annotation

Gene related GO terms (count: 59)

GO terms by PBA (count: 1)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0006954	inflammatory response	biological process	IEA	23

GO terms by database search (count: 58)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0050770	regulation of axonogenesis	biological process	TAS	7
GO:0014042	positive regulation of neuron maturation	biological process	IEA	2
GO:0051602	response to electrical stimulus	biological process	IEA	11
GO:0007267	cell-cell signaling	biological process	IBA	29
GO:0008344	adult locomotory behavior	biological process	IEA	15
GO:0005615	extracellular space	cellular component	IEA	85
GO:0051402	neuron apoptotic process	biological process	IEA	4
GO:0051279	regulation of release of sequestered calcium ion into cytosol	biological process	IEA	3
GO:0097192	extrinsic apoptotic signaling pathway in absence of ligand	biological process	IEA	7
GO:0032455	nerve growth factor processing	biological process	TAS	2
GO:0008625	extrinsic apoptotic signaling pathway via death domain receptors	biological process	IDA[14985763]	5
GO:0032496	response to lipopolysaccharide	biological process	IEA	22
GO:0008083	growth factor activity	molecular function	IBA	15
GO:0043066	negative regulation of apoptotic process	biological process	TAS	46
GO:0050772	positive regulation of axonogenesis	biological process	TAS	4
GO:0005768	endosome	cellular component	TAS	27
GO:0045773	positive regulation of axon extension	biological process	IEA	3
GO:0005796	Golgi lumen	cellular component	TAS	9
GO:0043281	regulation of cysteine-type endopeptidase activity involved in apoptotic process	biological process	TAS	2
GO:0043434	response to peptide hormone	biological process	IEA	9
GO:0048015	phosphatidylinositol-mediated signaling	biological process	TAS	17
GO:0042493	response to drug	biological process	IEA	57
GO:0005057	receptor signaling protein activity	molecular function	IEA	7
GO:0007623	circadian rhythm	biological process	IEA	40
GO:0045786	negative regulation of cell cycle	biological process	TAS	2
GO:0045664	regulation of neuron differentiation	biological process	IBA	3
GO:0009314	response to radiation	biological process	IEA	4
GO:0007265	Ras protein signal transduction	biological process	TAS	7
GO:0019233	sensory perception of pain	biological process	IEA	15
GO:0005163	nerve growth factor receptor binding	molecular function	IPI[14985763]	1
GO:0031954	positive regulation of protein autophosphorylation	biological process	IEA	2
GO:0008191	metalloendopeptidase inhibitor activity	molecular function	IDA[20164177]	1
GO:0010628	positive regulation of gene expression	biological process	IMP[16153003]	23
GO:0009612	response to mechanical stimulus	biological process	IEA	7
GO:0051384	response to glucocorticoid	biological process	IEA	11
GO:0035094	response to nicotine	biological process	IEA	10
GO:0007613	memory	biological process	IEA	22
GO:0007264	small GTPase mediated signal transduction	biological process	TAS	18
GO:0043065	positive regulation of apoptotic process	biological process	TAS	25
GO:0007202	activation of phospholipase C activity	biological process	TAS	15
GO:0010951	negative regulation of endopeptidase activity	biological process	IDA[20164177]; IEA	10
GO:0000186	activation of MAPKK activity	biological process	TAS	6
GO:0007169	transmembrane receptor protein tyrosine kinase signaling pathway	biological process	IBA; TAS	16
GO:0016023	cytoplasmic membrane-bounded vesicle	cellular component	IBA	16
GO:2000675	negative regulation of type B pancreatic cell apoptotic process	biological process	IEA	3
GO:0051388	positive regulation of neurotrophin TRK receptor signaling pathway	biological process	IEA	1
GO:0038180	nerve growth factor signaling pathway	biological process	IEA	2
GO:0048011	neurotrophin TRK receptor signaling pathway	biological process	TAS	33
GO:0048812	neuron projection morphogenesis	biological process	IDA[17724343]	7
GO:0043524	negative regulation of neuron apoptotic process	biological process	IBA	26
GO:2000648	positive regulation of stem cell proliferation	biological process	IEA	2
GO:0046928	regulation of neurotransmitter secretion	biological process	IEA	7
GO:0051091	positive regulation of sequence-specific DNA binding transcription factor activity	biological process	IEA	11
GO:0097190	apoptotic signaling pathway	biological process	TAS	13
GO:0007422	peripheral nervous system development	biological process	IEA	6
GO:0010193	response to ozone	biological process	IEA	2
GO:0005515	protein binding	molecular function	IPI[10490030]	563
GO:0005576	extracellular region	cellular component	IBA; TAS	97

Gene related KEGG pathways (count: 2)

KEGG pathways by PBA (count: 2)

ID	Name	No. of Genes in BDgene	Brief Description
hsa04010	MAPK signaling pathway	39
hsa04210	Apoptosis	12

KEGG pathways by database search (count: 0)

Gene related BioCarta pathways (count: 4)

BioCarta pathways by PBA (count: 0)

BioCarta pathways by database search (count: 4)

ID	Name	No. of Genes in BDgene
trkaPathway	Trka Receptor Signaling Pathway	4
erkPathway	Erk1/Erk2 Mapk Signaling pathway	3
cdk5Pathway	Phosphorylation of MEK1 by cdk5/p35 down regulates the MAP kinase pathway	2
ngfPathway	Nerve growth factor pathway (NGF)	5

Gene related interactors from protein-protein interactions data in HPRD (count: 7)

Gene	Interactor	Interactor in BDgene?	Experiment Type	PMID
NGF	MMP7	NO	in vitro;in vivo	11729324
NGF	NTRK1	NO	in vitro;in vivo	10490030 , 14985763
NGF	SORCS3	NO	in vitro	15710408
NGF	PLG	NO	in vitro;in vivo	11729324
NGF	A2M	NO	in vitro	10681572
NGF	NGFR	NO	in vitro;in vivo	14985763
NGF	SORT1	NO	in vitro;in vivo	14985763

Related other genetic factors

Gene related SNPs (count: 4)

Literature-origin SNPs (count: 1)

rs_ID	Location	Functional Annotation	No. of Studies (Positive/Negative/Trend)
rs10776799	chr1:115330426 - 115330426(1)	intron_variant; non_coding_transcript_variant	2(1/1/0)

LD-proxies (count: 3)

rs_ID	Location	Functional Annotation
rs10776798	chr1:115319633 - 115319633(1)	intron_variant; non_coding_transcript_variant
rs11102924	chr1:115324650 - 115324650(1)	intron_variant; non_coding_transcript_variant
rs4839436	chr1:115326468 - 115326468(1)	intron_variant; non_coding_transcript_variant

Gene related CNVs (count: 0)

Gene related other variants (count: 0)

Gene related regions (count: 3)

Region Name	Position	No. of Studies (Positive/Negative/Trend)
1p13.2-1q21.3	chr1:111200000-155100000	1 (1/0/0)
1p32.1-q31.1	chr1:58500000-190800000	1 (0/1/0)
Chr 1	chr1:0-248956422	2 (0/2/0)

Overlap with schizophrenia (SZ) and major depressive disorder (MDD)

Gene relationship with SZ

Overlap with SZ from cross-disorder studies (count: 0)

Overlap with SZ from candidate gene intersection analysis (count: 1)

Reference	ID in SZGene	Result Category
17893707	554	Negative

Gene relationship with MDD

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Region: chr1:115285918..115338236 View in gBrowse