SZGR2

Summary ?

GeneID	5499
Symbol	PPP1CA
Synonyms	PP-1A\|PP1A\|PP1alpha\|PPP1A
Description	protein phosphatase 1 catalytic subunit alpha
Reference	MIM:176875\|HGNC:HGNC:9281\|Ensembl:ENSG00000172531\|HPRD:15942\|Vega:OTTHUMG00000167671
Gene type	protein-coding
Map location	11q13
Pascal p-value	0.301
Sherlock p-value	0.999
Fetal beta	-0.325
DMG	2 (# studies)
Support	G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-CONSENSUS G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL G2Cdb.human_BAYES-COLLINS-MOUSE-PSD-CONSENSUS CompositeSet Chromatin Remodeling Genes

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
DMG:Montano_2016	Genome-wide DNA methylation analysis	This dataset includes 172 replicated associations between CpGs with schizophrenia.	2
DMG:Nishioka_2013	Genome-wide DNA methylation analysis	The authors investigated the methylation profiles of DNA in peripheral blood cells from 18 patients with first-episode schizophrenia (FESZ) and from 15 normal controls.	2
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.035

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg12939085	11	67166104	PPP1CA	2.45E-6	0.008	0.023	DMG:Montano_2016
cg11867686	11	67169368	PPP1CA		-0.024	0.63	DMG:Nishioka_2013

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
PRMT1	0.97	0.96
DDX39	0.95	0.93
PAFAH1B3	0.95	0.94
SMARCB1	0.94	0.92
RALY	0.94	0.89
IP6K2	0.94	0.92
ERGIC3	0.94	0.96
C17orf49	0.94	0.96
WRAP53	0.94	0.93
NXT1	0.94	0.89

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
AF347015.27	-0.73	-0.86
AF347015.33	-0.71	-0.85
HLA-F	-0.71	-0.72
AF347015.31	-0.70	-0.81
MT-CO2	-0.70	-0.81
MT-CYB	-0.69	-0.84
AF347015.8	-0.68	-0.84
AF347015.15	-0.68	-0.84
C5orf53	-0.68	-0.69
AIFM3	-0.67	-0.69

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005506	iron ion binding	IEA		-
GO:0005515	protein binding	IPI		17274640 \|17511879
GO:0004722	protein serine/threonine phosphatase activity	TAS		8392016
GO:0004721	phosphoprotein phosphatase activity	IEA		-
GO:0016787	hydrolase activity	IEA		-
GO:0030145	manganese ion binding	IEA		-
GO:0046872	metal ion binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0006470	protein amino acid dephosphorylation	IEA		-
GO:0006470	protein amino acid dephosphorylation	TAS		8392016
GO:0005977	glycogen metabolic process	IEA		-
GO:0005975	carbohydrate metabolic process	IEA		-
GO:0007049	cell cycle	IEA		-
GO:0048754	branching morphogenesis of a tube	IEA		-
GO:0051301	cell division	IEA		-
GO:0030324	lung development	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005654	nucleoplasm	IEA		-
GO:0005737	cytoplasm	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
ACTA1	ACTA \| ASMA \| CFTD \| CFTD1 \| CFTDM \| MPFD \| NEM1 \| NEM2 \| NEM3	actin, alpha 1, skeletal muscle	Affinity Capture-Western	BioGRID	15107502
AKAP1	AKAP \| AKAP121 \| AKAP149 \| AKAP84 \| D-AKAP1 \| MGC1807 \| PRKA1 \| SAKAP84	A kinase (PRKA) anchor protein 1	-	HPRD	10995432
AKAP11	AKAP220 \| DKFZp781I12161 \| FLJ11304 \| KIAA0629 \| PRKA11	A kinase (PRKA) anchor protein 11	Affinity Capture-Western Reconstituted Complex	BioGRID	10209101 \|12147701
AKAP9	AKAP350 \| AKAP450 \| CG-NAP \| HYPERION \| KIAA0803 \| MU-RMS-40.16A \| PRKA9 \| YOTIAO	A kinase (PRKA) anchor protein (yotiao) 9	-	HPRD	10358086
AURKA	AIK \| ARK1 \| AURA \| AURORA2 \| BTAK \| MGC34538 \| STK15 \| STK6 \| STK7	aurora kinase A	-	HPRD	11551964
BAD	BBC2 \| BCL2L8	BCL2-associated agonist of cell death	-	HPRD	10811615
BCL2	Bcl-2	B-cell CLL/lymphoma 2	-	HPRD	11390485
BCL2L1	BCL-XL/S \| BCL2L \| BCLX \| Bcl-X \| DKFZp781P2092 \| bcl-xL \| bcl-xS	BCL2-like 1	-	HPRD,BioGRID	12115603
BCL2L2	BCL-W \| BCLW \| KIAA0271	BCL2-like 2	Affinity Capture-Western Reconstituted Complex	BioGRID	12115603
BRCA1	BRCAI \| BRCC1 \| IRIS \| PSCP \| RNF53	breast cancer 1, early onset	Affinity Capture-Western Reconstituted Complex	BioGRID	12438214
CAV1	CAV \| MSTP085 \| VIP21	caveolin 1, caveolae protein, 22kDa	CAV1 interacts with PP1-C.	BIND	14645548
CDC5L	CEF1 \| KIAA0432 \| PCDC5RP \| dJ319D22.1 \| hCDC5	CDC5 cell division cycle 5-like (S. pombe)	-	HPRD	10827081
EED	HEED \| WAIT1	embryonic ectoderm development	Reconstituted Complex	BioGRID	12788942
EIF2AK2	EIF2AK1 \| MGC126524 \| PKR \| PRKR	eukaryotic translation initiation factor 2-alpha kinase 2	-	HPRD,BioGRID	12138106
FXYD1	MGC44983 \| PLM	FXYD domain containing ion transport regulator 1	-	HPRD,BioGRID	10087003
GSK3B	-	glycogen synthase kinase 3 beta	Affinity Capture-Western	BioGRID	12147701
HCFC1	CFF \| HCF-1 \| HCF1 \| HFC1 \| MGC70925 \| VCAF	host cell factor C1 (VP16-accessory protein)	Affinity Capture-Western Reconstituted Complex	BioGRID	10637318
HSPA8	HSC54 \| HSC70 \| HSC71 \| HSP71 \| HSP73 \| HSPA10 \| LAP1 \| MGC131511 \| MGC29929 \| NIP71	heat shock 70kDa protein 8	Affinity Capture-Western	BioGRID	9269769
KCNQ1	ATFB1 \| FLJ26167 \| JLNS1 \| KCNA8 \| KCNA9 \| KVLQT1 \| Kv1.9 \| Kv7.1 \| LQT \| LQT1 \| RWS \| SQT2 \| WRS	potassium voltage-gated channel, KQT-like subfamily, member 1	Affinity Capture-Western Reconstituted Complex	BioGRID	11799244
LMTK2	AATYK2 \| BREK \| KIAA1079 \| KPI-2 \| KPI2 \| LMR2 \| cprk	lemur tyrosine kinase 2	Affinity Capture-Western Biochemical Activity Reconstituted Complex Two-hybrid	BioGRID	12393858
MAP3K3	MAPKKK3 \| MEKK3	mitogen-activated protein kinase kinase kinase 3	-	HPRD	14743216
MYO16	KIAA0865 \| MYR8 \| Myo16b	myosin XVI	-	HPRD	11588169
NOC2L	DKFZp564C186 \| FLJ35172 \| NIR	nucleolar complex associated 2 homolog (S. cerevisiae)	Reconstituted Complex	BioGRID	10637318
PHACTR1	KIAA1733 \| MGC126575 \| MGC126577 \| RPEL \| RPEL1 \| dJ257A7.2	phosphatase and actin regulator 1	Affinity Capture-Western Two-hybrid	BioGRID	15107502
PHACTR3	C20orf101 \| H17739 \| MGC117178 \| SCAPIN1 \| SCAPININ	phosphatase and actin regulator 3	-	HPRD,BioGRID	12925532
PPP1R10	CAT53 \| FB19 \| PNUTS \| PP1R10	protein phosphatase 1, regulatory (inhibitor) subunit 10	Reconstituted Complex	BioGRID	10637318
PPP1R15A	GADD34	protein phosphatase 1, regulatory (inhibitor) subunit 15A	Affinity Capture-Western Phenotypic Suppression	BioGRID	11564868 \|12016208 \|12724406
PPP1R2	IPP2 \| MGC87148	protein phosphatase 1, regulatory (inhibitor) subunit 2	-	HPRD,BioGRID	10807923
PPP1R8	ARD-1 \| ARD1 \| NIPP-1 \| NIPP1 \| PRO2047	protein phosphatase 1, regulatory (inhibitor) subunit 8	Reconstituted Complex	BioGRID	10637318 \|12788942
PPP1R9A	FLJ20068 \| KIAA1222 \| NRB1 \| NRBI \| Neurabin-I	protein phosphatase 1, regulatory (inhibitor) subunit 9A	-	HPRD	10504266 \|12052877
PPP1R9B	FLJ30345 \| PPP1R6 \| PPP1R9 \| SPINO \| Spn	protein phosphatase 1, regulatory (inhibitor) subunit 9B	Affinity Capture-Western Reconstituted Complex	BioGRID	10194355
RRP1B	KIAA0179 \| NNP1L \| Nnp1 \| RRP1	ribosomal RNA processing 1 homolog B (S. cerevisiae)	Reconstituted Complex	BioGRID	10637318
RYR2	ARVC2 \| ARVD2 \| VTSIP	ryanodine receptor 2 (cardiac)	Co-fractionation	BioGRID	10830164
SMARCB1	BAF47 \| INI1 \| RDT \| SNF5 \| SNF5L1 \| Sfh1p \| Snr1 \| hSNFS	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1	Affinity Capture-Western Phenotypic Enhancement Reconstituted Complex	BioGRID	12016208
TGFBR1	AAT5 \| ACVRLK4 \| ALK-5 \| ALK5 \| LDS1A \| LDS2A \| SKR4 \| TGFR-1	transforming growth factor, beta receptor 1	T-beta-RI interacts with an unspecific isoform of PPP1C. This interaction was modeled on a demonstrated interaction between human T-beta-RI and mouse PPP1C.	BIND	15761153
TGFBR2	AAT3 \| FAA3 \| LDS1B \| LDS2B \| MFS2 \| RIIC \| TAAD2 \| TGFR-2 \| TGFbeta-RII	transforming growth factor, beta receptor II (70/80kDa)	T-beta-RII interacts with an unspecific isoform of PPP1C. This interaction was modeled on a demonstrated interaction between human T-beta-RII and mouse PPP1C.	BIND	15761153

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG OOCYTE MEIOSIS	114	79	All SZGR 2.0 genes in this pathway
KEGG VASCULAR SMOOTH MUSCLE CONTRACTION	115	81	All SZGR 2.0 genes in this pathway
KEGG FOCAL ADHESION	201	138	All SZGR 2.0 genes in this pathway
KEGG LONG TERM POTENTIATION	70	57	All SZGR 2.0 genes in this pathway
KEGG REGULATION OF ACTIN CYTOSKELETON	216	144	All SZGR 2.0 genes in this pathway
KEGG INSULIN SIGNALING PATHWAY	137	103	All SZGR 2.0 genes in this pathway
BIOCARTA AKAP95 PATHWAY	12	9	All SZGR 2.0 genes in this pathway
BIOCARTA AKAPCENTROSOME PATHWAY	15	14	All SZGR 2.0 genes in this pathway
BIOCARTA CK1 PATHWAY	17	17	All SZGR 2.0 genes in this pathway
BIOCARTA EIF2 PATHWAY	11	8	All SZGR 2.0 genes in this pathway
PID BMP PATHWAY	42	31	All SZGR 2.0 genes in this pathway
PID ALK1 PATHWAY	26	21	All SZGR 2.0 genes in this pathway
PID TGFBR PATHWAY	55	38	All SZGR 2.0 genes in this pathway
REACTOME DOWNREGULATION OF TGF BETA RECEPTOR SIGNALING	23	13	All SZGR 2.0 genes in this pathway
REACTOME TGF BETA RECEPTOR SIGNALING ACTIVATES SMADS	26	16	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY GPCR	920	449	All SZGR 2.0 genes in this pathway
REACTOME OPIOID SIGNALLING	78	56	All SZGR 2.0 genes in this pathway
REACTOME DARPP 32 EVENTS	25	20	All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF LIPIDS AND LIPOPROTEINS	478	302	All SZGR 2.0 genes in this pathway
REACTOME HORMONE SENSITIVE LIPASE HSL MEDIATED TRIACYLGLYCEROL HYDROLYSIS	13	11	All SZGR 2.0 genes in this pathway
REACTOME LIPID DIGESTION MOBILIZATION AND TRANSPORT	46	37	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY TGF BETA RECEPTOR COMPLEX	63	42	All SZGR 2.0 genes in this pathway
HOLLMANN APOPTOSIS VIA CD40 DN	267	178	All SZGR 2.0 genes in this pathway
CHOW RASSF1 TARGETS DN	29	19	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE UP	530	342	All SZGR 2.0 genes in this pathway
LASTOWSKA NEUROBLASTOMA COPY NUMBER DN	800	473	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 UP	309	199	All SZGR 2.0 genes in this pathway
LOPEZ MBD TARGETS	957	597	All SZGR 2.0 genes in this pathway
LOCKWOOD AMPLIFIED IN LUNG CANCER	214	139	All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 6HR DN	514	330	All SZGR 2.0 genes in this pathway
STARK PREFRONTAL CORTEX 22Q11 DELETION DN	517	309	All SZGR 2.0 genes in this pathway
GEORGES CELL CYCLE MIR192 TARGETS	62	46	All SZGR 2.0 genes in this pathway
GEORGES TARGETS OF MIR192 AND MIR215	893	528	All SZGR 2.0 genes in this pathway
NIKOLSKY BREAST CANCER 11Q12 Q14 AMPLICON	158	93	All SZGR 2.0 genes in this pathway
SASAKI ADULT T CELL LEUKEMIA	176	122	All SZGR 2.0 genes in this pathway
THEILGAARD NEUTROPHIL AT SKIN WOUND DN	225	163	All SZGR 2.0 genes in this pathway
YIH RESPONSE TO ARSENITE C2	18	15	All SZGR 2.0 genes in this pathway
WEIGEL OXIDATIVE STRESS BY HNE AND TBH	60	42	All SZGR 2.0 genes in this pathway
ZAMORA NOS2 TARGETS DN	96	71	All SZGR 2.0 genes in this pathway
KYNG RESPONSE TO H2O2	71	42	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
YOSHIMURA MAPK8 TARGETS UP	1305	895	All SZGR 2.0 genes in this pathway
HOFFMANN PRE BI TO LARGE PRE BII LYMPHOCYTE UP	36	24	All SZGR 2.0 genes in this pathway
HOFFMANN LARGE TO SMALL PRE BII LYMPHOCYTE UP	163	102	All SZGR 2.0 genes in this pathway
YAGI AML WITH 11Q23 REARRANGED	351	238	All SZGR 2.0 genes in this pathway
MOOTHA GLYCOGEN METABOLISM	21	16	All SZGR 2.0 genes in this pathway
NAKAMURA ADIPOGENESIS EARLY UP	66	44	All SZGR 2.0 genes in this pathway
NAKAMURA ADIPOGENESIS LATE UP	104	67	All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS OLIGODENDROCYTE NUMBER CORR UP	756	494	All SZGR 2.0 genes in this pathway
PURBEY TARGETS OF CTBP1 AND SATB1 UP	87	52	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-125/351	236	242	m8	hsa-miR-125b^brain	UCCCUGAGACCCUAACUUGUGA
miR-125/351	236	242	m8	hsa-miR-125a^brain	UCCCUGAGACCCUUUAACCUGUG
miR-192/215	334	340	1A	hsa-miR-192	CUGACCUAUGAAUUGACAGCC
miR-192/215	334	340	1A	hsa-miR-215	AUGACCUAUGAAUUGACAGAC
miR-335	323	329	1A	hsa-miR-335^brain	UCAAGAGCAAUAACGAAAAAUGU

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: PPP1CA