Summary ?
GeneID5795
SymbolPTPRJ
SynonymsCD148|DEP1|HPTPeta|R-PTP-ETA|SCC1
Descriptionprotein tyrosine phosphatase, receptor type J
ReferenceMIM:600925|HGNC:HGNC:9673|Ensembl:ENSG00000149177|HPRD:02955|Vega:OTTHUMG00000166573
Gene typeprotein-coding
Map location11p11.2
Pascal p-value0.343
Fetal beta-0.43
DMG1 (# studies)
eGeneCerebellar Hemisphere
SupportCompositeSet
Darnell FMRP targets
Ascano FMRP targets

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.
NetworkShortest path distance of core genes in the Human protein-protein interaction networkContribution to shortest path in PPI network: 0.0024 

Section I. Genetics and epigenetics annotation

@DNM table

GeneChromosomePositionRefAltTranscriptAA changeMutation typeSiftCG46TraitStudy
PTPRJchr1148146543CTNM_001098503
NM_002843
p.300R>W
p.300R>W
missense
missense
SchizophreniaDNM:Fromer_2014

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg198513841148001835PTPRJ3.414E-4-0.290.041DMG: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
RUVBL20.850.85
C17orf810.840.85
GPS10.840.85
DNTTIP10.840.84
MCRS10.840.83
PSMD90.840.83
KPTN0.830.83
UBE2S0.830.85
FLAD10.830.84
OGG10.830.85
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
AF347015.27-0.69-0.73
AF347015.8-0.68-0.71
AF347015.26-0.67-0.72
AF347015.15-0.67-0.71
MT-CYB-0.66-0.71
AF347015.33-0.65-0.69
MT-CO2-0.65-0.68
MT-ATP8-0.64-0.73
AF347015.2-0.64-0.68
AF347015.31-0.63-0.67

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0005001transmembrane receptor protein tyrosine phosphatase activityTAS10821867 
GO:0004872receptor activityIEA-
GO:0016787hydrolase activityIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0007169transmembrane receptor protein tyrosine kinase signaling pathwayTAS7937872 
GO:0006470protein amino acid dephosphorylationTAS10821867 
GO:0007267cell-cell signalingTAS7937872 
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005634nucleusIDA18029348 
GO:0005886plasma membraneIDA18029348 
GO:0005887integral to plasma membraneTAS7937872 
GO:0030054cell junctionIDA18029348 

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG ADHERENS JUNCTION 7553All SZGR 2.0 genes in this pathway
PID MET PATHWAY 8060All SZGR 2.0 genes in this pathway
PID PDGFRB PATHWAY 129103All SZGR 2.0 genes in this pathway
PID VEGFR1 2 PATHWAY 6957All SZGR 2.0 genes in this pathway
LIU TARGETS OF VMYB VS CMYB DN 4330All SZGR 2.0 genes in this pathway
PEREZ TP53 TARGETS 1174695All SZGR 2.0 genes in this pathway
PEREZ TP63 TARGETS 355243All SZGR 2.0 genes in this pathway
PEREZ TP53 AND TP63 TARGETS 205145All SZGR 2.0 genes in this pathway
ROVERSI GLIOMA COPY NUMBER UP 10075All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK 16521023All SZGR 2.0 genes in this pathway
PUJANA CHEK2 PCC NETWORK 779480All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 6HR DN 514330All SZGR 2.0 genes in this pathway
STARK PREFRONTAL CORTEX 22Q11 DELETION UP 195138All SZGR 2.0 genes in this pathway
BYSTROEM CORRELATED WITH IL5 DN 6447All SZGR 2.0 genes in this pathway
SASAKI ADULT T CELL LEUKEMIA 176122All SZGR 2.0 genes in this pathway
MATSUDA NATURAL KILLER DIFFERENTIATION 475313All SZGR 2.0 genes in this pathway
ZHAN MULTIPLE MYELOMA CD2 UP 4532All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 DN 830547All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 3 720440All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 5 482296All SZGR 2.0 genes in this pathway
GAVIN FOXP3 TARGETS CLUSTER P3 160103All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 STIMULATED 1022619All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 UNSTIMULATED 1229713All SZGR 2.0 genes in this pathway
FOSTER TOLERANT MACROPHAGE DN 409268All SZGR 2.0 genes in this pathway
MASSARWEH TAMOXIFEN RESISTANCE UP 578341All SZGR 2.0 genes in this pathway
YAUCH HEDGEHOG SIGNALING PARACRINE DN 264159All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS DN 366257All SZGR 2.0 genes in this pathway
LEE EARLY T LYMPHOCYTE DN 5736All SZGR 2.0 genes in this pathway
YAGI AML WITH INV 16 TRANSLOCATION 422277All SZGR 2.0 genes in this pathway
MARTENS BOUND BY PML RARA FUSION 456287All SZGR 2.0 genes in this pathway
CHYLA CBFA2T3 TARGETS UP 387225All SZGR 2.0 genes in this pathway
TORCHIA TARGETS OF EWSR1 FLI1 FUSION UP 271165All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS UP 279155All SZGR 2.0 genes in this pathway