Gene Page: GRID2

Summary ?
GeneID2895
SymbolGRID2
SynonymsGluD2|SCAR18
Descriptionglutamate ionotropic receptor delta type subunit 2
ReferenceMIM:602368|HGNC:HGNC:4576|Ensembl:ENSG00000152208|HPRD:06781|Vega:OTTHUMG00000130975
Gene typeprotein-coding
Map location4q22
Pascal p-value0.01
TADA p-value0.017
Fetal beta-0.289
eGeneFrontal Cortex BA9
Myers' cis & trans
SupportCompositeSet
Potential synaptic genes

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DNM:Fromer_2014Whole Exome Sequencing analysisThis study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.
PMID:cooccurHigh-throughput literature-searchSystematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
ExpressionMeta-analysis of gene expressionP value: 1.638 
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophreniasClick to show details
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 7 

Section I. Genetics and epigenetics annotation

@DNM table

GeneChromosomePositionRefAltTranscriptAA changeMutation typeSiftCG46TraitStudy
GRID2chr494411901CGNM_001510p.657T>SmissenseSchizophreniaDNM:Fromer_2014

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs73705640GRID228950.17trans

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
SLC7A60.880.85
NOL60.860.88
MFHAS10.860.83
SSBP30.850.90
SEZ60.840.81
CTNND20.840.81
RP1-21O18.10.840.79
LZTS10.830.79
PTPRS0.830.84
ZNF1420.830.84
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
SERPINB6-0.65-0.71
AF347015.31-0.61-0.74
AL139819.3-0.61-0.74
AF347015.27-0.61-0.76
MT-CO2-0.60-0.75
AF347015.33-0.60-0.73
BDH2-0.60-0.70
AF347015.8-0.59-0.75
MT-CYB-0.59-0.73
S100A16-0.58-0.71

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0004970ionotropic glutamate receptor activityIEAglutamate (GO term level: 7)-
GO:0005234extracellular-glutamate-gated ion channel activityIEAglutamate (GO term level: 11)-
GO:0004872receptor activityIEA-
GO:0005515protein bindingIEA-
GO:0005216ion channel activityIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0060079regulation of excitatory postsynaptic membrane potentialIEAneuron, Synap (GO term level: 10)-
GO:0007215glutamate signaling pathwayTASglutamate (GO term level: 7)9465309 
GO:0035249synaptic transmission, glutamatergicIEAneuron, glutamate, Synap, Neurotransmitter (GO term level: 8)-
GO:0006811ion transportIEA-
GO:0060134prepulse inhibitionIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0019717synaptosomeIEASynap, Brain (GO term level: 7)-
GO:0045211postsynaptic membraneIEASynap, Neurotransmitter (GO term level: 5)-
GO:0045202synapseIEAneuron, Synap, Neurotransmitter, Glial (GO term level: 2)-
GO:0016021integral to membraneIEA-
GO:0005886plasma membraneIEA-
GO:0005887integral to plasma membraneTAS9465309 
GO:0030054cell junctionIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG NEUROACTIVE LIGAND RECEPTOR INTERACTION 272195All SZGR 2.0 genes in this pathway
KEGG LONG TERM DEPRESSION 7053All SZGR 2.0 genes in this pathway
HATADA METHYLATED IN LUNG CANCER UP 390236All SZGR 2.0 genes in this pathway
BENPORATH OCT4 TARGETS 290172All SZGR 2.0 genes in this pathway
BENPORATH SOX2 TARGETS 734436All SZGR 2.0 genes in this pathway
MOOTHA HUMAN MITODB 6 2002 429260All SZGR 2.0 genes in this pathway
HOFFMANN IMMATURE TO MATURE B LYMPHOCYTE DN 5036All SZGR 2.0 genes in this pathway
VERHAAK GLIOBLASTOMA PRONEURAL 177132All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN 1080713All SZGR 2.0 genes in this pathway