SZGR2

Summary ?

GeneID	7803
Symbol	PTP4A1
Synonyms	HH72\|PRL-1\|PRL1\|PTP(CAAX1)\|PTPCAAX1
Description	protein tyrosine phosphatase type IVA, member 1
Reference	MIM:601585\|HGNC:HGNC:9634\|Ensembl:ENSG00000112245\|HPRD:03349\|Vega:OTTHUMG00000014949
Gene type	protein-coding
Map location	6q12
Pascal p-value	2.513E-5
Sherlock p-value	0.673
eGene	Myers' cis & trans

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:GWASdb	Genome-wide Association Studies	GWASdb records for schizophrenia
CV:PGCnp	Genome-wide Association Study	GWAS

Section I. Genetics and epigenetics annotation

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	qvalue	eQTL type
rs6826124	chr4	200630	PTP4A1	7803	0.2	trans
rs10886029	chr10	118796011	PTP4A1	7803	0.16	trans
rs7094283	chr10	118818548	PTP4A1	7803	0.15	trans
rs2118206	chr10	118820499	PTP4A1	7803	0.16	trans

Section II. Transcriptome annotation

General gene expression (GTEx)

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
MAN2B1	0.67	0.51
NHEJ1	0.64	0.50
B4GALT3	0.64	0.57
PCBP2	0.64	0.54
QARS	0.64	0.55
CNN2	0.64	0.48
DCAKD	0.63	0.59
SORD	0.63	0.55
H1F0	0.62	0.52
APEX1	0.62	0.55

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
C5orf53	-0.46	-0.49
AF347015.27	-0.45	-0.52
AF347015.31	-0.44	-0.48
MT-CO2	-0.44	-0.49
MT-CYB	-0.42	-0.48
AF347015.33	-0.42	-0.48
AF347015.8	-0.42	-0.47
AL139819.3	-0.41	-0.51
AF347015.21	-0.41	-0.54
S100B	-0.40	-0.44

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0004725	protein tyrosine phosphatase activity	NAS		10569806
GO:0016787	hydrolase activity	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0006470	protein amino acid dephosphorylation	IEA		-
GO:0007049	cell cycle	IEA		-
GO:0007275	multicellular organismal development	IEA		-
GO:0030335	positive regulation of cell migration	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005819	spindle	IEA		-
GO:0005737	cytoplasm	IEA		-
GO:0005769	early endosome	IEA		-
GO:0005783	endoplasmic reticulum	IEA		-
GO:0005886	plasma membrane	IEA		-

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
PID PRL SIGNALING EVENTS PATHWAY	23	17	All SZGR 2.0 genes in this pathway
NAKAMURA TUMOR ZONE PERIPHERAL VS CENTRAL DN	634	384	All SZGR 2.0 genes in this pathway
PICCALUGA ANGIOIMMUNOBLASTIC LYMPHOMA DN	136	86	All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA DN	526	357	All SZGR 2.0 genes in this pathway
DOANE RESPONSE TO ANDROGEN DN	241	146	All SZGR 2.0 genes in this pathway
BASAKI YBX1 TARGETS DN	384	230	All SZGR 2.0 genes in this pathway
GARGALOVIC RESPONSE TO OXIDIZED PHOSPHOLIPIDS TURQUOISE UP	79	50	All SZGR 2.0 genes in this pathway
GARGALOVIC RESPONSE TO OXIDIZED PHOSPHOLIPIDS MAGENTA UP	28	18	All SZGR 2.0 genes in this pathway
KINSEY TARGETS OF EWSR1 FLII FUSION UP	1278	748	All SZGR 2.0 genes in this pathway
BIDUS METASTASIS UP	214	134	All SZGR 2.0 genes in this pathway
VANHARANTA UTERINE FIBROID WITH 7Q DELETION UP	67	37	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 DN	712	443	All SZGR 2.0 genes in this pathway
SNIJDERS AMPLIFIED IN HEAD AND NECK TUMORS	37	27	All SZGR 2.0 genes in this pathway
MOHANKUMAR TLX1 TARGETS UP	414	287	All SZGR 2.0 genes in this pathway
GRUETZMANN PANCREATIC CANCER DN	203	134	All SZGR 2.0 genes in this pathway
SIMBULAN UV RESPONSE NORMAL DN	33	27	All SZGR 2.0 genes in this pathway
SIMBULAN UV RESPONSE IMMORTALIZED DN	31	26	All SZGR 2.0 genes in this pathway
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN UP	479	299	All SZGR 2.0 genes in this pathway
BUYTAERT PHOTODYNAMIC THERAPY STRESS UP	811	508	All SZGR 2.0 genes in this pathway
LOPEZ MBD TARGETS	957	597	All SZGR 2.0 genes in this pathway
RICKMAN TUMOR DIFFERENTIATED WELL VS MODERATELY DN	110	64	All SZGR 2.0 genes in this pathway
BENPORATH MYC MAX TARGETS	775	494	All SZGR 2.0 genes in this pathway
BENPORATH CYCLING GENES	648	385	All SZGR 2.0 genes in this pathway
UEDA PERIFERAL CLOCK	169	111	All SZGR 2.0 genes in this pathway
BROCKE APOPTOSIS REVERSED BY IL6	144	98	All SZGR 2.0 genes in this pathway
NING CHRONIC OBSTRUCTIVE PULMONARY DISEASE UP	157	105	All SZGR 2.0 genes in this pathway
WANG SMARCE1 TARGETS DN	371	218	All SZGR 2.0 genes in this pathway
HU GENOTOXIN ACTION DIRECT VS INDIRECT 24HR	55	38	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 48HR DN	504	323	All SZGR 2.0 genes in this pathway
HENDRICKS SMARCA4 TARGETS DN	53	34	All SZGR 2.0 genes in this pathway
SESTO RESPONSE TO UV C0	107	72	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 12HR DN	101	64	All SZGR 2.0 genes in this pathway
DOUGLAS BMI1 TARGETS UP	566	371	All SZGR 2.0 genes in this pathway
RIGGINS TAMOXIFEN RESISTANCE UP	66	44	All SZGR 2.0 genes in this pathway
DE YY1 TARGETS DN	92	64	All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER UP	973	570	All SZGR 2.0 genes in this pathway
LABBE TGFB1 TARGETS DN	108	64	All SZGR 2.0 genes in this pathway
LIN NPAS4 TARGETS UP	163	100	All SZGR 2.0 genes in this pathway
ROME INSULIN TARGETS IN MUSCLE UP	442	263	All SZGR 2.0 genes in this pathway
WANG RECURRENT LIVER CANCER DN	16	9	All SZGR 2.0 genes in this pathway
GUTIERREZ MULTIPLE MYELOMA UP	35	24	All SZGR 2.0 genes in this pathway
DANG BOUND BY MYC	1103	714	All SZGR 2.0 genes in this pathway
SASSON RESPONSE TO GONADOTROPHINS UP	91	59	All SZGR 2.0 genes in this pathway
SASSON RESPONSE TO FORSKOLIN UP	90	58	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 30MIN DN	150	99	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 4HR DN	254	158	All SZGR 2.0 genes in this pathway
WHITFIELD CELL CYCLE G2 M	216	124	All SZGR 2.0 genes in this pathway
MARTENS TRETINOIN RESPONSE DN	841	431	All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN	1972	1213	All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 3 UP	430	288	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP A	898	516	All SZGR 2.0 genes in this pathway
KOINUMA TARGETS OF SMAD2 OR SMAD3	824	528	All SZGR 2.0 genes in this pathway
PURBEY TARGETS OF CTBP1 NOT SATB1 UP	344	215	All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS UP	279	155	All SZGR 2.0 genes in this pathway
ZWANG CLASS 3 TRANSIENTLY INDUCED BY EGF	222	159	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-129-5p	996	1003	1A,m8	hsa-miR-129^brain	CUUUUUGCGGUCUGGGCUUGC
miR-129-5p	996	1003	1A,m8	hsa-miR-129-5p	CUUUUUGCGGUCUGGGCUUGCU
miR-130/301	717	723	m8	hsa-miR-130a^brain	CAGUGCAAUGUUAAAAGGGCAU
				hsa-miR-301	CAGUGCAAUAGUAUUGUCAAAGC
				hsa-miR-130b^brain	CAGUGCAAUGAUGAAAGGGCAU
				hsa-miR-454-3p	UAGUGCAAUAUUGCUUAUAGGGUUU
miR-138	1214	1220	m8	hsa-miR-138^brain	AGCUGGUGUUGUGAAUC
miR-141/200a	1207	1213	m8	hsa-miR-141	UAACACUGUCUGGUAAAGAUGG
miR-141/200a	1207	1213	m8	hsa-miR-200a	UAACACUGUCUGGUAACGAUGU
miR-144	1157	1163	m8	hsa-miR-144	UACAGUAUAGAUGAUGUACUAG
miR-150	1189	1195	1A	hsa-miR-150	UCUCCCAACCCUUGUACCAGUG
miR-182	347	353	1A	hsa-miR-182	UUUGGCAAUGGUAGAACUCACA
miR-19	716	722	m8	hsa-miR-19a	UGUGCAAAUCUAUGCAAAACUGA
miR-19	716	722	m8	hsa-miR-19b	UGUGCAAAUCCAUGCAAAACUGA
miR-203.1	449	455	1A	hsa-miR-203	UGAAAUGUUUAGGACCACUAG
miR-218	360	366	1A	hsa-miR-218^brain	UUGUGCUUGAUCUAACCAUGU
miR-218	360	366	1A	hsa-miR-218^brain	UUGUGCUUGAUCUAACCAUGU
miR-26	1084	1090	m8	hsa-miR-26a^brain	UUCAAGUAAUCCAGGAUAGGC
miR-26	1084	1090	m8	hsa-miR-26b^SZ	UUCAAGUAAUUCAGGAUAGGUU
miR-29	2216	2223	1A,m8	hsa-miR-29a^SZ	UAGCACCAUCUGAAAUCGGUU
				hsa-miR-29b^SZ	UAGCACCAUUUGAAAUCAGUGUU
				hsa-miR-29c^SZ	UAGCACCAUUUGAAAUCGGU
miR-30-5p	501	508	1A,m8	hsa-miR-30a-5p	UGUAAACAUCCUCGACUGGAAG
				hsa-miR-30c^brain	UGUAAACAUCCUACACUCUCAGC
				hsa-miR-30d^SZ	UGUAAACAUCCCCGACUGGAAG
				hsa-miR-30b^SZ	UGUAAACAUCCUACACUCAGCU
				hsa-miR-30e-5p	UGUAAACAUCCUUGACUGGA
miR-339	739	745	1A	hsa-miR-339	UCCCUGUCCUCCAGGAGCUCA
miR-380-5p	1143	1149	1A	hsa-miR-380-5p	UGGUUGACCAUAGAACAUGCGC
miR-380-5p	1143	1149	1A	hsa-miR-563	AGGUUGACAUACGUUUCCC
miR-381	369	376	1A,m8	hsa-miR-381	UAUACAAGGGCAAGCUCUCUGU
miR-450	996	1002	1A	hsa-miR-450	UUUUUGCGAUGUGUUCCUAAUA
miR-96	346	353	1A,m8	hsa-miR-96^brain	UUUGGCACUAGCACAUUUUUGC

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: PTP4A1