Gene Page: NEUROD4

Summary ?
GeneID58158
SymbolNEUROD4
SynonymsATH-3|ATH3|Atoh3|MATH-3|MATH3|bHLHa4
Descriptionneuronal differentiation 4
ReferenceMIM:611635|HGNC:HGNC:13802|Ensembl:ENSG00000123307|HPRD:14826|Vega:OTTHUMG00000169826
Gene typeprotein-coding
Map location12q13.2
Pascal p-value0.005
Fetal beta0.304
DMG1 (# studies)

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Nishioka_2013Genome-wide DNA methylation analysisThe authors investigated the methylation profiles of DNA in peripheral blood cells from 18 patients with first-episode schizophrenia (FESZ) and from 15 normal controls. 1
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 5 

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg175329781255413394NEUROD4-0.0280.28DMG:Nishioka_2013


Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
GenePearson's Correlation Spearman's Correlation
TMEM126B0.840.81
NDUFB50.830.79
TMEM1110.830.80
CISD10.830.82
SDHB0.830.76
SELT0.820.78
MOCS20.820.81
NDUFA90.820.77
PPA20.810.74
AC025647.10.800.77
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
SH3BP2-0.45-0.53
SMTN-0.44-0.53
SH2D2A-0.44-0.51
GLIS2-0.42-0.48
MEGF6-0.41-0.47
FBN3-0.41-0.39
TRIOBP-0.41-0.47
AD000671.1-0.41-0.35
DCHS1-0.41-0.44
SH2B2-0.41-0.50

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0003677DNA bindingIEA-
GO:0030528transcription regulator activityIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0007405neuroblast proliferationIEAneuron (GO term level: 8)-
GO:0001764neuron migrationIEAneuron (GO term level: 8)-
GO:0048666neuron developmentIEAneuron (GO term level: 9)-
GO:0010001glial cell differentiationIEAGlial (GO term level: 8)-
GO:0007399nervous system developmentIEAneurite (GO term level: 5)-
GO:0006355regulation of transcription, DNA-dependentIEA-
GO:0007219Notch signaling pathwayIEA-
GO:0007275multicellular organismal developmentIEA-
GO:0043010camera-type eye developmentIEA-
GO:0045165cell fate commitmentIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005634nucleusIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
MARTORIATI MDM4 TARGETS NEUROEPITHELIUM DN 164111All SZGR 2.0 genes in this pathway
KIM MYC AMPLIFICATION TARGETS UP 201127All SZGR 2.0 genes in this pathway
SHEPARD CRUSH AND BURN MUTANT DN 185111All SZGR 2.0 genes in this pathway
LEE AGING NEOCORTEX DN 8049All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS UP 673430All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS DN 593372All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS DN 591366All SZGR 2.0 genes in this pathway