SZGR2

Summary ?

GeneID	5770
Symbol	PTPN1
Synonyms	PTP1B
Description	protein tyrosine phosphatase, non-receptor type 1
Reference	MIM:176885\|HGNC:HGNC:9642\|Ensembl:ENSG00000196396\|HPRD:01477\|Vega:OTTHUMG00000032729
Gene type	protein-coding
Map location	20q13.1-q13.2
Pascal p-value	0.307
Sherlock p-value	0.778
Fetal beta	0.228
eGene	Meta

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
PMID:cooccur	High-throughput literature-search	Systematic search in PubMed for genes co-occurring 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
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.0757

Section I. Genetics and epigenetics annotation

Section II. Transcriptome annotation

General gene expression (GTEx)

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
ZNF142	0.94	0.95
ZNF384	0.94	0.96
PFAS	0.94	0.96
HCFC1	0.94	0.94
DNMT1	0.94	0.96
ZMIZ1	0.94	0.95
GCN1L1	0.94	0.95
KIAA1267	0.94	0.95
BRPF1	0.94	0.95
SAP130	0.94	0.96

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
AF347015.31	-0.74	-0.89
AF347015.27	-0.72	-0.88
MT-CO2	-0.72	-0.89
AF347015.33	-0.71	-0.85
C5orf53	-0.70	-0.77
FXYD1	-0.70	-0.85
COPZ2	-0.70	-0.81
S100B	-0.70	-0.84
MT-CYB	-0.70	-0.85
AF347015.8	-0.69	-0.87

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005515	protein binding	IPI		11106648 \|12907755 \|16291744 \|17159996
GO:0004725	protein tyrosine phosphatase activity	TAS		10748206
GO:0016787	hydrolase activity	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0006470	protein amino acid dephosphorylation	IEA		-
GO:0007165	signal transduction	TAS		10748206
GO:0008286	insulin receptor signaling pathway	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005789	endoplasmic reticulum membrane	IEA		-
GO:0005783	endoplasmic reticulum	IEA		-
GO:0016020	membrane	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
AKT1	AKT \| MGC99656 \| PKB \| PKB-ALPHA \| PRKBA \| RAC \| RAC-ALPHA	v-akt murine thymoma viral oncogene homolog 1	-	HPRD	11579209
BCAR1	CAS \| CAS1 \| CASS1 \| CRKAS \| P130Cas	breast cancer anti-estrogen resistance 1	-	HPRD,BioGRID	8940134
CAV1	CAV \| MSTP085 \| VIP21	caveolin 1, caveolae protein, 22kDa	caveolin-1 interacts with PTP1B.	BIND	12176037
CAV1	CAV \| MSTP085 \| VIP21	caveolin 1, caveolae protein, 22kDa	-	HPRD,BioGRID	12176037
CDH2	CD325 \| CDHN \| CDw325 \| NCAD	cadherin 2, type 1, N-cadherin (neuronal)	-	HPRD	12377785
CRK	CRKII	v-crk sarcoma virus CT10 oncogene homolog (avian)	Reconstituted Complex	BioGRID	8940134
CTNNB1	CTNNB \| DKFZp686D02253 \| FLJ25606 \| FLJ37923	catenin (cadherin-associated protein), beta 1, 88kDa	-	HPRD,BioGRID	12377785
EGFR	ERBB \| ERBB1 \| HER1 \| PIG61 \| mENA	epidermal growth factor receptor (erythroblastic leukemia viral (v-erb-b) oncogene homolog, avian)	-	HPRD,BioGRID	7540771 \|8621392 \|10889023 \|12573287
GRB2	ASH \| EGFRBP-GRB2 \| Grb3-3 \| MST084 \| MSTP084	growth factor receptor-bound protein 2	-	HPRD	10660596 \|12388170
GRB2	ASH \| EGFRBP-GRB2 \| Grb3-3 \| MST084 \| MSTP084	growth factor receptor-bound protein 2	Reconstituted Complex	BioGRID	8940134 \|10660596
GSK3B	-	glycogen synthase kinase 3 beta	-	HPRD,BioGRID	7514173
IGF1R	CD221 \| IGFIR \| JTK13 \| MGC142170 \| MGC142172 \| MGC18216	insulin-like growth factor 1 receptor	-	HPRD,BioGRID	8999839
INSR	CD220 \| HHF5	insulin receptor	-	HPRD,BioGRID	8826975
IRS1	HIRS-1	insulin receptor substrate 1	-	HPRD,BioGRID	10660596
JAK2	JTK10	Janus kinase 2 (a protein tyrosine kinase)	-	HPRD,BioGRID	11694501
LTK	TYK1	leukocyte receptor tyrosine kinase	-	HPRD,BioGRID	12237455
NTRK1	DKFZp781I14186 \| MTC \| TRK \| TRK1 \| TRKA \| p140-TrkA	neurotrophic tyrosine kinase, receptor, type 1	-	HPRD,BioGRID	12237455
NTRK2	GP145-TrkB \| TRKB	neurotrophic tyrosine kinase, receptor, type 2	-	HPRD,BioGRID	12237455
NTRK3	TRKC \| gp145(trkC)	neurotrophic tyrosine kinase, receptor, type 3	-	HPRD,BioGRID	12237455
PIN1	DOD \| UBL5	peptidylprolyl cis/trans isomerase, NIMA-interacting 1	-	HPRD	9499405
RRAS2	TC21	related RAS viral (r-ras) oncogene homolog 2	-	HPRD,BioGRID	11788587
TYK2	JTK1	tyrosine kinase 2	in vivo	BioGRID	11694501

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG ADHERENS JUNCTION	75	53	All SZGR 2.0 genes in this pathway
KEGG INSULIN SIGNALING PATHWAY	137	103	All SZGR 2.0 genes in this pathway
SIG PIP3 SIGNALING IN CARDIAC MYOCTES	67	54	All SZGR 2.0 genes in this pathway
SIG INSULIN RECEPTOR PATHWAY IN CARDIAC MYOCYTES	51	41	All SZGR 2.0 genes in this pathway
PID INSULIN PATHWAY	45	32	All SZGR 2.0 genes in this pathway
PID MET PATHWAY	80	60	All SZGR 2.0 genes in this pathway
PID PTP1B PATHWAY	52	40	All SZGR 2.0 genes in this pathway
PID NFAT TFPATHWAY	47	39	All SZGR 2.0 genes in this pathway
PID TCPTP PATHWAY	43	33	All SZGR 2.0 genes in this pathway
PID IGF1 PATHWAY	30	23	All SZGR 2.0 genes in this pathway
PID ERBB1 RECEPTOR PROXIMAL PATHWAY	35	29	All SZGR 2.0 genes in this pathway
PID AJDISS 2PATHWAY	48	38	All SZGR 2.0 genes in this pathway
PID PDGFRB PATHWAY	129	103	All SZGR 2.0 genes in this pathway
PID NCADHERIN PATHWAY	33	32	All SZGR 2.0 genes in this pathway
REACTOME GROWTH HORMONE RECEPTOR SIGNALING	24	19	All SZGR 2.0 genes in this pathway
REACTOME INTEGRIN CELL SURFACE INTERACTIONS	79	48	All SZGR 2.0 genes in this pathway
REACTOME INTEGRIN ALPHAIIB BETA3 SIGNALING	27	17	All SZGR 2.0 genes in this pathway
REACTOME REGULATION OF IFNG SIGNALING	14	10	All SZGR 2.0 genes in this pathway
REACTOME INTERFERON GAMMA SIGNALING	63	48	All SZGR 2.0 genes in this pathway
REACTOME INTERFERON ALPHA BETA SIGNALING	64	50	All SZGR 2.0 genes in this pathway
REACTOME REGULATION OF IFNA SIGNALING	24	22	All SZGR 2.0 genes in this pathway
REACTOME INTERFERON SIGNALING	159	116	All SZGR 2.0 genes in this pathway
REACTOME PLATELET AGGREGATION PLUG FORMATION	36	23	All SZGR 2.0 genes in this pathway
REACTOME HEMOSTASIS	466	331	All SZGR 2.0 genes in this pathway
REACTOME IMMUNE SYSTEM	933	616	All SZGR 2.0 genes in this pathway
REACTOME CYTOKINE SIGNALING IN IMMUNE SYSTEM	270	204	All SZGR 2.0 genes in this pathway
REACTOME PLATELET ACTIVATION SIGNALING AND AGGREGATION	208	138	All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE LIVE UP	485	293	All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE FIMA UP	544	308	All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE LPS UP	431	237	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE DN	485	334	All SZGR 2.0 genes in this pathway
CHIN BREAST CANCER COPY NUMBER UP	27	18	All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN UP	1142	669	All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND DOXORUBICIN UP	612	367	All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE UP	134	93	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN	855	609	All SZGR 2.0 genes in this pathway
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN DN	584	395	All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK	1652	1023	All SZGR 2.0 genes in this pathway
PUJANA ATM PCC NETWORK	1442	892	All SZGR 2.0 genes in this pathway
NUYTTEN NIPP1 TARGETS UP	769	437	All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP	1037	673	All SZGR 2.0 genes in this pathway
BENPORATH NANOG TARGETS	988	594	All SZGR 2.0 genes in this pathway
BENPORATH MYC MAX TARGETS	775	494	All SZGR 2.0 genes in this pathway
COLLIS PRKDC REGULATORS	15	10	All SZGR 2.0 genes in this pathway
NIKOLSKY BREAST CANCER 20Q12 Q13 AMPLICON	149	76	All SZGR 2.0 genes in this pathway
ZUCCHI METASTASIS UP	43	24	All SZGR 2.0 genes in this pathway
TARTE PLASMA CELL VS PLASMABLAST DN	309	206	All SZGR 2.0 genes in this pathway
PENG RAPAMYCIN RESPONSE DN	245	154	All SZGR 2.0 genes in this pathway
GUO HEX TARGETS UP	81	54	All SZGR 2.0 genes in this pathway
ABBUD LIF SIGNALING 1 UP	46	29	All SZGR 2.0 genes in this pathway
FAELT B CLL WITH VH3 21 UP	44	30	All SZGR 2.0 genes in this pathway
GENTILE UV RESPONSE CLUSTER D7	40	21	All SZGR 2.0 genes in this pathway
GENTILE UV HIGH DOSE DN	312	203	All SZGR 2.0 genes in this pathway
WELCSH BRCA1 TARGETS UP	198	132	All SZGR 2.0 genes in this pathway
ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE UP	863	514	All SZGR 2.0 genes in this pathway
QI PLASMACYTOMA UP	259	185	All SZGR 2.0 genes in this pathway
ICHIBA GRAFT VERSUS HOST DISEASE D7 UP	107	67	All SZGR 2.0 genes in this pathway
ICHIBA GRAFT VERSUS HOST DISEASE 35D UP	131	79	All SZGR 2.0 genes in this pathway
LINDSTEDT DENDRITIC CELL MATURATION C	69	49	All SZGR 2.0 genes in this pathway
CHEN METABOLIC SYNDROM NETWORK	1210	725	All SZGR 2.0 genes in this pathway
DANG REGULATED BY MYC DN	253	192	All SZGR 2.0 genes in this pathway
DANG MYC TARGETS DN	31	25	All SZGR 2.0 genes in this pathway
DANG BOUND BY MYC	1103	714	All SZGR 2.0 genes in this pathway
SENGUPTA EBNA1 ANTICORRELATED	173	85	All SZGR 2.0 genes in this pathway
SASSON RESPONSE TO GONADOTROPHINS DN	87	66	All SZGR 2.0 genes in this pathway
SASSON RESPONSE TO FORSKOLIN DN	88	68	All SZGR 2.0 genes in this pathway
PANGAS TUMOR SUPPRESSION BY SMAD1 AND SMAD5 UP	134	85	All SZGR 2.0 genes in this pathway
VANOEVELEN MYOGENESIS SIN3A TARGETS	220	133	All SZGR 2.0 genes in this pathway
ZWANG CLASS 1 TRANSIENTLY INDUCED BY EGF	516	308	All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family	Target position			miRNA ID	miRNA seq
miRNA family	UTR start	UTR end	Match method	miRNA ID	miRNA seq
miR-1/206	1069	1076	1A,m8	hsa-miR-1	UGGAAUGUAAAGAAGUAUGUA
				hsa-miR-206^SZ	UGGAAUGUAAGGAAGUGUGUGG
				hsa-miR-613	AGGAAUGUUCCUUCUUUGCC
miR-124.1	1764	1771	1A,m8	hsa-miR-124a	UUAAGGCACGCGGUGAAUGCCA
miR-124/506	1764	1770	1A	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
miR-124/506	1764	1770	1A	hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-22	1426	1432	m8	hsa-miR-22^brain	AAGCUGCCAGUUGAAGAACUGU
miR-299-5p	1819	1825	1A	hsa-miR-299-5p	UGGUUUACCGUCCCACAUACAU

SZ: miRNAs which differentially expressed in brain cortex of schizophrenia patients comparing with control samples using microarray. Click here to see the list of SZ related miRNAs.
Brain: miRNAs which are expressed in brain based on miRNA microarray expression studies. Click here to see the list of brain related miRNAs.

Gene Page: PTPN1