Gene Page: PSD

Summary ?
GeneID5662
SymbolPSD
SynonymsEFA6|EFA6A|PSD1|TYL
Descriptionpleckstrin and Sec7 domain containing
ReferenceMIM:602327|HGNC:HGNC:9507|Ensembl:ENSG00000059915|HPRD:09085|Vega:OTTHUMG00000018954
Gene typeprotein-coding
Map location10q24
Pascal p-value2.539E-4
DMG1 (# studies)
eGeneMyers' cis & trans
SupportG2Cdb.humanPSD
G2Cdb.humanPSP
CompositeSet
Darnell FMRP targets

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Wockner_2014Genome-wide DNA methylation analysisThis dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 1
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,schizophrenic,schizophrenics,schizophreniasClick to show details

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg2333382010104165160PSD1.95E-50.5520.016DMG:Wockner_2014

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs1879572chr820871648PSD56620.17trans

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
EIF3K0.900.88
PSMD80.860.86
PSMB30.850.86
CCDC560.850.86
C16orf910.850.83
C20orf240.840.82
MRPL360.840.82
ATP5O0.840.82
FAM96B0.840.84
SF3B50.840.86
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
MT-ATP8-0.58-0.58
AF347015.26-0.58-0.57
AF347015.18-0.56-0.61
AF347015.8-0.55-0.52
AF347015.15-0.55-0.53
AF347015.27-0.52-0.53
AF347015.2-0.51-0.50
AF347015.33-0.50-0.50
MT-CYB-0.50-0.50
MT-CO2-0.46-0.44

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG ENDOCYTOSIS 183132All SZGR 2.0 genes in this pathway
PEREZ TP63 TARGETS 355243All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL AND BRAIN QTL TRANS 185114All SZGR 2.0 genes in this pathway
LEIN LOCALIZED TO DISTAL AND PROXIMAL DENDRITES 1712All SZGR 2.0 genes in this pathway
RIZKI TUMOR INVASIVENESS 2D DN 6435All SZGR 2.0 genes in this pathway
ZHENG GLIOBLASTOMA PLASTICITY UP 250168All SZGR 2.0 genes in this pathway
CHEN METABOLIC SYNDROM NETWORK 1210725All SZGR 2.0 genes in this pathway
HSIAO HOUSEKEEPING GENES 389245All SZGR 2.0 genes in this pathway
MIKKELSEN MEF HCP WITH H3K27ME3 590403All SZGR 2.0 genes in this pathway
KAMMINGA SENESCENCE 4126All SZGR 2.0 genes in this pathway
BILANGES SERUM SENSITIVE GENES 9054All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY 1839928All SZGR 2.0 genes in this pathway