Gene Page:PSD

Summary?
GeneID 5662
Symbol PSD
Synonyms EFA6|EFA6A|PSD1|TYL
Description pleckstrin and Sec7 domain containing
Reference MIM:602327|HGNC:HGNC:9507|Ensembl:ENSG00000059915|HPRD:09085|Vega:OTTHUMG00000018954
Gene type protein-coding
Map location 10q24
Pascal p-value 2.539E-4
DMG 1 (# studies)
eGene Myers' cis & trans
Support G2Cdb.humanPSD
G2Cdb.humanPSP
CompositeSet
Darnell FMRP targets

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
DMG:Wockner_2014 Genome-wide DNA methylation analysis This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 1
PMID:cooccur High-throughput literature-search 系统搜索PubMed的共病的基因with SCZ keywords. A total of 3027 genes were included.
Literature High-throughput literature-search Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophrenics,schizophrenias Click to show details

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg23333820 10 104165160 PSD 1.95E-5 0.552 0.016 DMG:Wockner_2014

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs1879572 chr8 20871648 PSD 5662 0.17 trans

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
Gene Pearson's Correlation Spearman's Correlation
EIF3K 0.90 0.88
PSMD8 0.86 0.86
PSMB3 0.85 0.86
CCDC56 0.85 0.86
C16orf91 0.85 0.83
C20orf24 0.84 0.82
MRPL36 0.84 0.82
ATP5O 0.84 0.82
FAM96B 0.84 0.84
SF3B5 0.84 0.86
Top 10 negatively co-expressed genes
Gene Pearson'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 name Pathway size # SZGR 2.0 genes in pathway Info
KEGG ENDOCYTOSIS 183 132 All SZGR 2.0 genes in this pathway
PEREZ TP63 TARGETS 355 243 All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL AND BRAIN QTL TRANS 185 114 All SZGR 2.0 genes in this pathway
LEIN LOCALIZED TO DISTAL AND PROXIMAL DENDRITES 17 12 All SZGR 2.0 genes in this pathway
RIZKI TUMOR INVASIVENESS 2D DN 64 35 All SZGR 2.0 genes in this pathway
ZHENG GLIOBLASTOMA PLASTICITY UP 250 168 All SZGR 2.0 genes in this pathway
CHEN METABOLIC SYNDROM NETWORK 1210 725 All SZGR 2.0 genes in this pathway
HSIAO HOUSEKEEPING GENES 389 245 All SZGR 2.0 genes in this pathway
MIKKELSEN MEF HCP WITH H3K27ME3 590 403 All SZGR 2.0 genes in this pathway
KAMMINGA SENESCENCE 41 26 All SZGR 2.0 genes in this pathway
BILANGES SERUM SENSITIVE GENES 90 54 All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY 1839 928 All SZGR 2.0 genes in this pathway