Gene Page: PTPRG

Summary ?
GeneID5793
SymbolPTPRG
SynonymsHPTPG|PTPG|R-PTP-GAMMA|RPTPG
Descriptionprotein tyrosine phosphatase, receptor type G
ReferenceMIM:176886|HGNC:HGNC:9671|Ensembl:ENSG00000144724|HPRD:01478|Vega:OTTHUMG00000158660
Gene typeprotein-coding
Map location3p21-p14
Pascal p-value0.027
Sherlock p-value0.495
TADA p-value0.022
Fetal beta-0.853
DMG1 (# studies)
eGeneMyers' cis & trans
SupportTYROSINE KINASE SIGNALING
CompositeSet
Darnell FMRP targets

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWAScatGenome-wide Association StudiesThis data set includes 560 SNPs associated with schizophrenia. A total of 486 genes were mapped to these SNPs within 50kb.
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.
DNM:Kranz_2015Whole Exome Sequencing and Targeted SequencingDNMs in 5 genes were identified through WES and independently validated through TS in this study
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

Section I. Genetics and epigenetics annotation

@DNM table

GeneChromosomePositionRefAltTranscriptAA changeMutation typeSiftCG46TraitStudy
PTPRGchr362258752CGNM_002841
NM_002841
NR_038281
NR_038282
NR_038283		.
p.1105T>S
.
.
.		splice
missense
intronic
intronic
intronic		SchizophreniaDNM:Fromer_2014
PTPRGchr362180781CTNM_002841p.R422Xstopgain1.452.SchizophreniaDNM:Kranz_2015

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg20559405361580543PTPRG5.548E-40.4910.049DMG:Wockner_2014

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs344009chr3156406477PTPRG57930.2trans
rs5973583chrX36150079PTPRG57930.11trans

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
RAB100.930.92
COPB10.930.90
ZBTB330.920.92
ERI10.920.90
MARCH70.920.92
STAG20.920.95
CPSF20.920.93
G2E30.920.91
EXOC50.920.93
KLHL90.920.93
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
AC018755.7-0.64-0.73
MT-CO2-0.64-0.79
FXYD1-0.63-0.78
AF347015.31-0.62-0.77
AF347015.33-0.62-0.76
IFI27-0.62-0.77
AF347015.27-0.61-0.75
AF347015.8-0.60-0.76
MT-CYB-0.60-0.74
HLA-F-0.60-0.69

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
FRASOR TAMOXIFEN RESPONSE UP 5136All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS MESENCHYMAL DN 460312All SZGR 2.0 genes in this pathway
RODRIGUES DCC TARGETS DN 12184All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED DN 805505All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA ANAPLASTIC DN 537339All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN 781465All SZGR 2.0 genes in this pathway
COLDREN GEFITINIB RESISTANCE UP 8557All SZGR 2.0 genes in this pathway
DELYS THYROID CANCER UP 443294All SZGR 2.0 genes in this pathway
BEGUM TARGETS OF PAX3 FOXO1 FUSION UP 6045All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE DN 712443All SZGR 2.0 genes in this pathway
WANG METHYLATED IN BREAST CANCER 3525All SZGR 2.0 genes in this pathway
MARTORIATI MDM4 TARGETS FETAL LIVER DN 514319All SZGR 2.0 genes in this pathway
BROCKE APOPTOSIS REVERSED BY IL6 14498All SZGR 2.0 genes in this pathway
MARTINEZ RESPONSE TO TRABECTEDIN 5032All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 DN 830547All SZGR 2.0 genes in this pathway
WANG CISPLATIN RESPONSE AND XPC DN 228146All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 1 528324All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS UP 673430All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS UP 602364All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS UP 601369All SZGR 2.0 genes in this pathway
MASSARWEH TAMOXIFEN RESISTANCE DN 258160All SZGR 2.0 genes in this pathway
CHENG IMPRINTED BY ESTRADIOL 11068All SZGR 2.0 genes in this pathway
BERNARD PPAPDC1B TARGETS DN 5839All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL UP 260174All SZGR 2.0 genes in this pathway
HOFFMANN SMALL PRE BII TO IMMATURE B LYMPHOCYTE DN 5033All SZGR 2.0 genes in this pathway
DING LUNG CANCER BY MUTATION RATE 2018All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS CTNNB1 UP 176110All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 2 DN 336211All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE 1137655All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS DN 882538All SZGR 2.0 genes in this pathway
DURAND STROMA NS UP 162103All SZGR 2.0 genes in this pathway