Gene Page: GAD2

Summary ?
GeneID2572
SymbolGAD2
SynonymsGAD65
Descriptionglutamate decarboxylase 2
ReferenceMIM:138275|HGNC:HGNC:4093|Ensembl:ENSG00000136750|HPRD:11817|Vega:OTTHUMG00000017836
Gene typeprotein-coding
Map location10p11.23
Pascal p-value0.829
Sherlock p-value0.86
Fetal beta-2.564
eGeneMyers' cis & trans

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
PMID:cooccurHigh-throughput literature-searchSystematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophreniasClick to show details
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 5 
NetworkShortest path distance of core genes in the Human protein-protein interaction networkContribution to shortest path in PPI network: 0.0384 

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs12543503chr895811983GAD225720.07trans

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
CLCN70.800.86
DNAJB120.800.83
ATG2A0.780.83
RAB360.780.76
RNF1230.770.83
ZNF3350.770.86
C2orf180.770.82
DPP90.760.83
SPG70.760.80
FLRT10.760.84
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
AF347015.21-0.62-0.62
AF347015.31-0.56-0.55
MT-CO2-0.54-0.53
AF347015.8-0.53-0.52
MT-CYB-0.52-0.50
AF347015.27-0.52-0.53
C1orf54-0.50-0.55
CLEC2B-0.50-0.56
AF347015.33-0.49-0.47
AL139819.3-0.49-0.55

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0004351glutamate decarboxylase activityIEAglutamate (GO term level: 6)-
GO:0005515protein bindingIPI10671565 
GO:0016829lyase activityIEA-
GO:0016831carboxy-lyase activityIEA-
GO:0030170pyridoxal phosphate bindingIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0007268synaptic transmissionTASneuron, Synap, Neurotransmitter (GO term level: 6)8954991 
GO:0006540glutamate decarboxylation to succinateTASGABA, glutamate, Brain, Neurotransmitter (GO term level: 10)1549570 
GO:0042136neurotransmitter biosynthetic processIEAneuron, axon, Synap, Neurotransmitter (GO term level: 9)-
GO:0019752carboxylic acid metabolic processIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0030424axonIEAneuron, axon, Neurotransmitter (GO term level: 6)-
GO:0045202synapseIEAneuron, Synap, Neurotransmitter, Glial (GO term level: 2)-
GO:0000139Golgi membraneIEA-
GO:0005794Golgi apparatusIEA-
GO:0005737cytoplasmIEA-
GO:0005886plasma membraneIEA-
GO:0030054cell junctionIEA-
GO:0031410cytoplasmic vesicleIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG ALANINE ASPARTATE AND GLUTAMATE METABOLISM 3226All SZGR 2.0 genes in this pathway
KEGG BETA ALANINE METABOLISM 2216All SZGR 2.0 genes in this pathway
KEGG TAURINE AND HYPOTAURINE METABOLISM 107All SZGR 2.0 genes in this pathway
KEGG BUTANOATE METABOLISM 3420All SZGR 2.0 genes in this pathway
KEGG TYPE I DIABETES MELLITUS 4438All SZGR 2.0 genes in this pathway
REACTOME TRANSMISSION ACROSS CHEMICAL SYNAPSES 186155All SZGR 2.0 genes in this pathway
REACTOME NEURONAL SYSTEM 279221All SZGR 2.0 genes in this pathway
REACTOME NEUROTRANSMITTER RELEASE CYCLE 3430All SZGR 2.0 genes in this pathway
REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION 1716All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE FIMA UP 544308All SZGR 2.0 genes in this pathway
SCHLESINGER H3K27ME3 IN NORMAL AND METHYLATED IN CANCER 2821All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 48HR DN 428306All SZGR 2.0 genes in this pathway
BENPORATH SUZ12 TARGETS 1038678All SZGR 2.0 genes in this pathway
BENPORATH EED TARGETS 1062725All SZGR 2.0 genes in this pathway
BENPORATH ES WITH H3K27ME3 1118744All SZGR 2.0 genes in this pathway
BENPORATH PRC2 TARGETS 652441All SZGR 2.0 genes in this pathway
MCCLUNG DELTA FOSB TARGETS 8WK 4738All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN 1237837All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV NHEK UP 244151All SZGR 2.0 genes in this pathway
XU GH1 EXOGENOUS TARGETS DN 12069All SZGR 2.0 genes in this pathway
SMID BREAST CANCER RELAPSE IN BONE DN 315197All SZGR 2.0 genes in this pathway
SMID BREAST CANCER LUMINAL B DN 564326All SZGR 2.0 genes in this pathway
LABBE TARGETS OF TGFB1 AND WNT3A UP 11170All SZGR 2.0 genes in this pathway
MEISSNER BRAIN HCP WITH H3K4ME3 AND H3K27ME3 1069729All SZGR 2.0 genes in this pathway
LIU VAV3 PROSTATE CARCINOGENESIS DN 1714All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3K4ME2 491319All SZGR 2.0 genes in this pathway
ALFANO MYC TARGETS 239156All SZGR 2.0 genes in this pathway
PEDRIOLI MIR31 TARGETS DN 418245All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4 ISOFORM B 517302All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-128325331m8hsa-miR-128aUCACAGUGAACCGGUCUCUUUU
hsa-miR-128bUCACAGUGAACCGGUCUCUUUC
miR-485-3p493499m8hsa-miR-485-3pGUCAUACACGGCUCUCCUCUCU