ADHDgene Database

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Large-scale studies

Data Summary

Published Variant
- SNP: 1391
- CNV: 398
- Others: 173
Published Gene: 359
Published Region: 128
Pathway by PBA: 8
Study: 361

Detail ...

Gene Report

Basic Info

Approved Symbol	NGF
Previous Symbol	NGFB
Approved Name	nerve growth factor (beta polypeptide)
Location	1p13.1
Position	chr1:115828537-115880857, -
External Links	HGNC: 7808 Entrez Gene: 4803 Ensembl: ENSG00000134259 UCSC: uc001efu.1
No. of Studies	2 (significant: 2; non-significant: 0; trend: 0)
Source	Literature-origin; Mapped by LD-proxy; Mapped by literature SNP

Gene related studies (count: 2)

Reference	Statistical Values/Author Comments	Result of Statistical Analysis
Syed Z, 2007	Borderline significant overtransmission of the C allele of a non-synonymous C/T SNP(rs6330) in NGF which codes an alanine/valine change was found in the family-based sample.	Significant
Ribases M, 2008	4 SNP showed significant association with childhood ADHD; 1 SNP showed significant association with adulthood ADHD	Significant

Gene related SNPs (count: 30)

Literature-origin SNPs (count: 7)

rs_ID	Location	Functional Annotation	No. of Studies (significant/non-significant/trend)
rs910330	Chr1:115835500(Fwd)	intron_variant; nc_transcript_variant	1(0/1/0)
rs719452	Chr1:115837057(Fwd)	intron_variant; nc_transcript_variant	1(1/0/0)
rs6537860	Chr1:115856344(Fwd)	intron_variant; nc_transcript_variant	1(1/0/0)
rs2254404	Chr1:115834669(Fwd)	intron_variant; nc_transcript_variant	1(1/0/0)
rs6330	Chr1:115829313(Fwd)	intron_variant; missense_variant; nc_transcript_variant	1(0/1/0)
rs6327	Chr1:115829986(Fwd)	feature_truncation; intron_variant; nc_transcript_variant	1(1/0/0)
rs2856811	Chr1:115838282(Fwd)	intron_variant; nc_transcript_variant	1(1/0/0)

LD-proxies (count: 23)

rs_ID	Location	Functional Annotation
rs4644491	Chr1:115852984(Fwd)	intron_variant; nc_transcript_variant
rs4454548	Chr1:115852004(Fwd)	intron_variant; nc_transcript_variant
rs12145726	Chr1:115857251(Fwd)	intron_variant; nc_transcript_variant
rs11102922	Chr1:115856078(Fwd)	intron_variant; nc_transcript_variant
rs2856813	Chr1:115837919(Fwd)	intron_variant; nc_transcript_variant
rs4529705	Chr1:115851491(Fwd)	intron_variant; nc_transcript_variant
rs7544068	Chr1:115854328(Fwd)	intron_variant; nc_transcript_variant
rs6678788	Chr1:115839671(Fwd)	intron_variant; nc_transcript_variant
rs7555016	Chr1:115855147(Fwd)	intron_variant; nc_transcript_variant
rs4406631	Chr1:115857958(Fwd)	intron_variant; nc_transcript_variant
rs4146585	Chr1:115847736(Fwd)	intron_variant; nc_transcript_variant
rs4382725	Chr1:115853812(Fwd)	intron_variant; nc_transcript_variant
rs2747063	Chr1:115830631(Fwd)	intron_variant; nc_transcript_variant
rs4567277	Chr1:115856804(Fwd)	intron_variant; nc_transcript_variant
rs2254527	Chr1:115833581(Fwd)	intron_variant; nc_transcript_variant
rs2239622	Chr1:115837709(Fwd)	intron_variant; nc_transcript_variant
rs2747058	Chr1:115835841(Fwd)	intron_variant; nc_transcript_variant
rs10776797	Chr1:115847295(Fwd)	intron_variant; nc_transcript_variant
rs4839434	Chr1:115845385(Fwd)	intron_variant; nc_transcript_variant
rs4573519	Chr1:115843087(Fwd)	intron_variant; nc_transcript_variant
rs4240542	Chr1:115847546(Fwd)	intron_variant; nc_transcript_variant
rs6678898	Chr1:115839733(Fwd)	intron_variant; nc_transcript_variant
rs1318345	Chr1:115834522(Fwd)	intron_variant; nc_transcript_variant

Gene related CNVs (count: 0)

Gene related other variant (count: 0)

Gene related regions (count: 0)

Gene related GO terms (count: 43)

GO terms by PBA (with statistical significance of FDR<0.05) (count: 0)

GO terms by database search (count: 43)

ID	Name	Type	Evidence[PMID]	No. of Genes in ADHDgene
GO:0051388	positive regulation of nerve growth factor receptor signaling pathway	Biological Process		1
GO:0051602	response to electrical stimulus	Biological Process		3
GO:2000648	positive regulation of stem cell proliferation	Biological Process		2
GO:0050770	regulation of axonogenesis	Biological Process		6
GO:0050772	positive regulation of axonogenesis	Biological Process		3
GO:0051091	positive regulation of sequence-specific DNA binding transcription factor activity	Biological Process		11
GO:0051384	response to glucocorticoid stimulus	Biological Process		17
GO:0045786	negative regulation of cell cycle	Biological Process		9
GO:0046928	regulation of neurotransmitter secretion	Biological Process		5
GO:0048011	nerve growth factor receptor signaling pathway	Biological Process		42
GO:0048015	phosphatidylinositol-mediated signaling	Biological Process		16
GO:0043434	response to peptide hormone stimulus	Biological Process		9
GO:0043524	negative regulation of neuron apoptotic process	Biological Process		19
GO:0045666	positive regulation of neuron differentiation	Biological Process		13
GO:0045773	positive regulation of axon extension	Biological Process		7
GO:0007202	activation of phospholipase C activity	Biological Process		12
GO:0007264	small GTPase mediated signal transduction	Biological Process		58
GO:0006954	inflammatory response	Biological Process		51
GO:0007169	transmembrane receptor protein tyrosine kinase signaling pathway	Biological Process		16
GO:0005796	Golgi lumen	Cellular Component		12
GO:0006915	apoptotic process	Biological Process		111
GO:0005615	extracellular space	Cellular Component		126
GO:0005768	endosome	Cellular Component		27
GO:0005163	nerve growth factor receptor binding	Molecular Function	IPI[14985763]	1
GO:0005576	extracellular region	Cellular Component		240
GO:0000186	activation of MAPKK activity	Biological Process		9
GO:0005057	receptor signaling protein activity	Molecular Function		9
GO:0042493	response to drug	Biological Process		68
GO:0035094	response to nicotine	Biological Process		6
GO:0032496	response to lipopolysaccharide	Biological Process		22
GO:0032455	nerve growth factor processing	Biological Process		2
GO:0031954	positive regulation of protein autophosphorylation	Biological Process		4
GO:0031175	neuron projection development	Biological Process		10
GO:0019233	sensory perception of pain	Biological Process		17
GO:0010628	positive regulation of gene expression	Biological Process	IMP[16153003]	28
GO:0010193	response to ozone	Biological Process		3
GO:0009612	response to mechanical stimulus	Biological Process		9
GO:0009314	response to radiation	Biological Process		5
GO:0008344	adult locomotory behavior	Biological Process		12
GO:0008083	growth factor activity	Molecular Function		25
GO:0007613	memory	Biological Process		18
GO:0007422	peripheral nervous system development	Biological Process		7
GO:0007265	Ras protein signal transduction	Biological Process		15

Gene related KEGG pathways (count: 3)

ID	Name	No. of Genes in ADHDgene	Brief Description
hsa04722	Neurotrophin signaling pathway	24	Neurotrophins are a family of trophic factors involved in di...... Neurotrophins are a family of trophic factors involved in differentiation and survival of neural cells. The neurotrophin family consists of nerve growth factor (NGF), brain derived neurotrophic factor (BDNF), neurotrophin 3 (NT-3), and neurotrophin 4 (NT-4). Neurotrophins exert their functions through engagement of Trk tyrosine kinase receptors or p75 neurotrophin receptor (p75NTR). Neurotrophin/Trk signaling is regulated by connecting a variety of intracellular signaling cascades, which include MAPK pathway, PI-3 kinase pathway, and PLC pathway, transmitting positive signals like enhanced survival and growth. On the other hand, p75NTR transmits both positive and nagative signals. These signals play an important role for neural development and additional higher-order activities such as learning and memory. More...
hsa04210	Apoptosis	13	Apoptosis is a genetically controlled mechanisms of cell dea...... Apoptosis is a genetically controlled mechanisms of cell death involved in the regulation of tissue homeostasis. The 2 major pathways of apoptosis are the extrinsic (Fas and other TNFR superfamily members and ligands) and the intrinsic (mitochondria-associated) pathways, both of which are found in the cytoplasm. The extrinsic pathway is triggered by death receptor engagement, which initiates a signaling cascade mediated by caspase-8 activation. Caspase-8 both feeds directly into caspase-3 activation and stimulates the release of cytochrome c by the mitochondria. Caspase-3 activation leads to the degradation of cellular proteins necessary to maintain cell survival and integrity. The intrinsic pathway occurs when various apoptotic stimuli trigger the release of cytochrome c from the mitochondria (independently of caspase-8 activation). Cytochrome c interacts with Apaf-1 and caspase-9 to promote the activation of caspase-3. Recent studies point to the ER as a third subcellular compartment implicated in apoptotic execution. Alterations in Ca2+ homeostasis and accumulation of misfolded proteins in the ER cause ER stress. Prolonged ER stress can result in the activation of BAD and/or caspase-12, and execute apoptosis. More...
hsa04010	MAPK signaling pathway	69	The mitogen-activated protein kinase (MAPK) cascade is a hig...... The mitogen-activated protein kinase (MAPK) cascade is a highly conserved module that is involved in various cellular functions, including cell proliferation, differentiation and migration. Mammals express at least four distinctly regulated groups of MAPKs, extracellular signal-related kinases (ERK)-1/2, Jun amino-terminal kinases (JNK1/2/3), p38 proteins (p38alpha/beta/gamma/delta) and ERK5, that are activated by specific MAPKKs: MEK1/2 for ERK1/2, MKK3/6 for the p38, MKK4/7 (JNKK1/2) for the JNKs, and MEK5 for ERK5. Each MAPKK, however, can be activated by more than one MAPKKK, increasing the complexity and diversity of MAPK signalling. Presumably each MAPKKK confers responsiveness to distinct stimuli. For example, activation of ERK1/2 by growth factors depends on the MAPKKK c-Raf, but other MAPKKKs may activate ERK1/2 in response to pro-inflammatory stimuli. More...

Genes shared at least 5 GO terms with NGF (count: 16)

Gene Symbol	Pathway Count	Pathway List
IL6	12	response to electrical stimulus; positive regulation of sequence-specific DNA binding transcription factor activity; response to glucocorticoid stimulus; positive regulation of neuron differentiation; inflammatory response; extracellular space; extracellular region; response to drug; response to lipopolysaccharide; neuron projection development; response to mechanical stimulus; growth factor activity;
NTRK2	6	positive regulation of axonogenesis; regulation of neurotransmitter secretion; nerve growth factor receptor signaling pathway; negative regulation of neuron apoptotic process; transmembrane receptor protein tyrosine kinase signaling pathway; positive regulation of gene expression;
ADORA2A	6	nerve growth factor receptor signaling pathway; negative regulation of neuron apoptotic process; inflammatory response; transmembrane receptor protein tyrosine kinase signaling pathway; apoptotic process; response to drug;
MAPK1	6	nerve growth factor receptor signaling pathway; small GTPase mediated signal transduction; apoptotic process; activation of MAPKK activity; sensory perception of pain; Ras protein signal transduction;
MAPK3	6	nerve growth factor receptor signaling pathway; small GTPase mediated signal transduction; apoptotic process; activation of MAPKK activity; sensory perception of pain; Ras protein signal transduction;
BAD	5	response to glucocorticoid stimulus; nerve growth factor receptor signaling pathway; phosphatidylinositol-mediated signaling; apoptotic process; response to drug;
IGFBP2	5	response to glucocorticoid stimulus; extracellular space; extracellular region; response to drug; response to mechanical stimulus;
SCGB1A1	5	response to glucocorticoid stimulus; extracellular space; response to drug; response to lipopolysaccharide; response to ozone;
APOC3	5	response to peptide hormone stimulus; inflammatory response; extracellular space; extracellular region; response to drug;
CTGF	5	response to peptide hormone stimulus; extracellular space; extracellular region; positive regulation of gene expression; growth factor activity;
GDNF	5	negative regulation of neuron apoptotic process; extracellular region; neuron projection development; adult locomotory behavior; growth factor activity;
NTF3	5	negative regulation of neuron apoptotic process; transmembrane receptor protein tyrosine kinase signaling pathway; extracellular region; growth factor activity; peripheral nervous system development;
SNCA	5	negative regulation of neuron apoptotic process; extracellular region; response to drug; response to lipopolysaccharide; adult locomotory behavior;
VEGFB	5	negative regulation of neuron apoptotic process; extracellular space; extracellular region; response to drug; growth factor activity;
IL18	5	inflammatory response; extracellular space; extracellular region; positive regulation of gene expression; response to radiation;
VEGFA	5	extracellular space; extracellular region; positive regulation of protein autophosphorylation; positive regulation of gene expression; growth factor activity;

Genes shared at least 2 KEGG pathways with NGF (count: 15)

Gene Symbol	Pathway Count	Pathway List
RELA	3	Neurotrophin signaling pathway; Apoptosis; MAPK signaling pathway;
BAD	2	Neurotrophin signaling pathway; Apoptosis;
BDNF	2	Neurotrophin signaling pathway; MAPK signaling pathway;
CRKL	2	Neurotrophin signaling pathway; MAPK signaling pathway;
MAP3K5	2	Neurotrophin signaling pathway; MAPK signaling pathway;
MAPK1	2	Neurotrophin signaling pathway; MAPK signaling pathway;
MAPK3	2	Neurotrophin signaling pathway; MAPK signaling pathway;
MAPK7	2	Neurotrophin signaling pathway; MAPK signaling pathway;
MAPK9	2	Neurotrophin signaling pathway; MAPK signaling pathway;
NTF3	2	Neurotrophin signaling pathway; MAPK signaling pathway;
NTRK2	2	Neurotrophin signaling pathway; MAPK signaling pathway;
PIK3CG	2	Neurotrophin signaling pathway; Apoptosis;
PIK3R1	2	Neurotrophin signaling pathway; Apoptosis;
RPS6KA4	2	Neurotrophin signaling pathway; MAPK signaling pathway;
PPP3R2	2	Apoptosis; MAPK signaling pathway;

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Region: chr1:115828537..115880857 View in gBrowse