Gene Page: PLEKHA6

Summary ?
GeneID22874
SymbolPLEKHA6
SynonymsPEPP-3|PEPP3
Descriptionpleckstrin homology domain containing A6
ReferenceMIM:607771|HGNC:HGNC:17053|Ensembl:ENSG00000143850|HPRD:09685|Vega:OTTHUMG00000036057
Gene typeprotein-coding
Map location1q32.1
Sherlock p-value0.575
Fetal beta-0.768
DMG1 (# studies)
SupportG2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL
G2Cdb.human_BAYES-COLLINS-MOUSE-PSD-CONSENSUS
CompositeSet

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWASdbGenome-wide Association StudiesGWASdb records for schizophrenia
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
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.
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophreniasClick to show details

Section I. Genetics and epigenetics annotation

@DNM table

GeneChromosomePositionRefAltTranscriptAA changeMutation typeSiftCG46TraitStudy
PLEKHA6chr1204236636CTNM_014935p.83V>ImissenseSchizophreniaDNM:Fromer_2014

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg245379931204275926PLEKHA61.852E-40.3470.034DMG:Wockner_2014


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
ZNF7830.920.93
QRICH20.910.91
FBN30.900.85
NINL0.900.89
ANO80.900.91
ADAMTS100.890.88
AC010536.20.890.89
GIGYF10.890.90
BAHCC10.880.91
BTBD120.880.92
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
AF347015.31-0.61-0.83
C5orf53-0.60-0.72
S100B-0.60-0.78
HLA-F-0.60-0.67
B2M-0.60-0.77
AF347015.27-0.60-0.81
ALDOC-0.60-0.64
ABCG2-0.59-0.60
COPZ2-0.59-0.76
AIFM3-0.59-0.67

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
CHARAFE BREAST CANCER LUMINAL VS MESENCHYMAL UP 450256All SZGR 2.0 genes in this pathway
DOANE RESPONSE TO ANDROGEN DN 241146All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP 1821933All SZGR 2.0 genes in this pathway
GAUSSMANN MLL AF4 FUSION TARGETS F UP 185119All SZGR 2.0 genes in this pathway
LIEN BREAST CARCINOMA METAPLASTIC VS DUCTAL DN 11458All SZGR 2.0 genes in this pathway
TCGA GLIOBLASTOMA COPY NUMBER UP 7536All SZGR 2.0 genes in this pathway
SMID BREAST CANCER ERBB2 UP 14783All SZGR 2.0 genes in this pathway
BOCHKIS FOXA2 TARGETS 425261All SZGR 2.0 genes in this pathway
SEKI INFLAMMATORY RESPONSE LPS DN 2316All SZGR 2.0 genes in this pathway
MIKKELSEN MCV6 LCP WITH H3K4ME3 16280All SZGR 2.0 genes in this pathway
HOELZEL NF1 TARGETS DN 11573All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS DN 784464All SZGR 2.0 genes in this pathway
GHANDHI DIRECT IRRADIATION DN 3323All SZGR 2.0 genes in this pathway