Gene Page:PTPRG

Summary?
GeneID 5793
Symbol PTPRG
Synonyms HPTPG|PTPG|R-PTP-GAMMA|RPTPG
Description protein tyrosine phosphatase, receptor type G
Reference MIM:176886|HGNC:HGNC:9671|Ensembl:ENSG00000144724|HPRD:01478|Vega:OTTHUMG00000158660
Gene type protein-coding
Map location 3p21-p14
Pascal p-value 0.027
Sherlock p-value 0.495
TADA p-value 0.022
Fetal beta -0.853
DMG 1 (# studies)
eGene Myers' cis & trans
Support TYROSINE KINASE SIGNALING
CompositeSet
Darnell FMRP targets

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:GWAScat Genome-wide Association Studies This data set includes 560 SNPs associated with schizophrenia. A total of 486 genes were mapped to these SNPs within 50kb.
CV:GWASdb Genome-wide Association Studies GWASdb records for schizophrenia
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
DNM:Fromer_2014 Whole Exome Sequencing analysis This study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.
DNM:Kranz_2015 Whole Exome Sequencing and Targeted Sequencing DNMs in 5 genes were identified through WES and independently validated through TS in this study
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,schizophrenias Click to show details

Section I. Genetics and epigenetics annotation

@DNM table

Gene Chromosome Position Ref Alt Transcript AA change Mutation type Sift CG46 Trait Study
PTPRG chr3 62258752 C G NM_002841
NM_002841
NR_038281
NR_038282
NR_038283		 .
p.1105T>S
.
.
.		 splice
missense
intronic
intronic
intronic		 Schizophrenia DNM:Fromer_2014
PTPRG chr3 62180781 C T NM_002841 p.R422X stopgain 1.452 . Schizophrenia DNM:Kranz_2015

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg20559405 3 61580543 PTPRG 5.548E-4 0.491 0.049 DMG:Wockner_2014

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs344009 chr3 156406477 PTPRG 5793 0.2 trans
rs5973583 chrX 36150079 PTPRG 5793 0.11 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
RAB10 0.93 0.92
COPB1 0.93 0.90
ZBTB33 0.92 0.92
ERI1 0.92 0.90
MARCH7 0.92 0.92
STAG2 0.92 0.95
CPSF2 0.92 0.93
G2E3 0.92 0.91
EXOC5 0.92 0.93
KLHL9 0.92 0.93
Top 10 negatively co-expressed genes
Gene Pearson'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 name Pathway size # SZGR 2.0 genes in pathway Info
FRASOR TAMOXIFEN RESPONSE UP 51 36 All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS MESENCHYMAL DN 460 312 All SZGR 2.0 genes in this pathway
RODRIGUES DCC TARGETS DN 121 84 All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED DN 805 505 All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA ANAPLASTIC DN 537 339 All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN 781 465 All SZGR 2.0 genes in this pathway
COLDREN GEFITINIB RESISTANCE UP 85 57 All SZGR 2.0 genes in this pathway
DELYS THYROID CANCER UP 443 294 All SZGR 2.0 genes in this pathway
BEGUM TARGETS OF PAX3 FOXO1 FUSION UP 60 45 All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE DN 712 443 All SZGR 2.0 genes in this pathway
WANG METHYLATED IN BREAST CANCER 35 25 All SZGR 2.0 genes in this pathway
MARTORIATI MDM4 TARGETS FETAL LIVER DN 514 319 All SZGR 2.0 genes in this pathway
BROCKE APOPTOSIS REVERSED BY IL6 144 98 All SZGR 2.0 genes in this pathway
MARTINEZ RESPONSE TO TRABECTEDIN 50 32 All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 DN 830 547 All SZGR 2.0 genes in this pathway
WANG CISPLATIN RESPONSE AND XPC DN 228 146 All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 1 528 324 All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS UP 673 430 All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS UP 602 364 All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS UP 601 369 All SZGR 2.0 genes in this pathway
MASSARWEH TAMOXIFEN RESISTANCE DN 258 160 All SZGR 2.0 genes in this pathway
CHENG IMPRINTED BY ESTRADIOL 110 68 All SZGR 2.0 genes in this pathway
BERNARD PPAPDC1B TARGETS DN 58 39 All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL UP 260 174 All SZGR 2.0 genes in this pathway
HOFFMANN SMALL PRE BII TO IMMATURE B LYMPHOCYTE DN 50 33 All SZGR 2.0 genes in this pathway
DING LUNG CANCER BY MUTATION RATE 20 18 All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS CTNNB1 UP 176 110 All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 2 DN 336 211 All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE 1137 655 All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS DN 882 538 All SZGR 2.0 genes in this pathway
DURAND STROMA NS UP 162 103 All SZGR 2.0 genes in this pathway