SZGR2

Summary ?

GeneID	10097
Symbol	ACTR2
Synonyms	ARP2
Description	ARP2 actin-related protein 2 homolog (yeast)
Reference	MIM:604221\|HGNC:HGNC:169\|Ensembl:ENSG00000138071\|HPRD:05023\|Vega:OTTHUMG00000129540
Gene type	protein-coding
Map location	2p14
Pascal p-value	0.77
Sherlock p-value	0.688
Fetal beta	0.077
DMG	1 (# studies)
eGene	Cortex Frontal Cortex BA9 Myers' cis & trans Meta
Support	STRUCTURAL PLASTICITY G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-CONSENSUS G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL G2Cdb.human_BAYES-COLLINS-MOUSE-PSD-CONSENSUS CompositeSet

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
DMG:Jaffe_2016	Genome-wide DNA methylation analysis	This dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05.	1
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
GO_Annotation	Mapping neuro-related keywords to Gene Ontology annotations	Hits with neuro-related keywords: 1

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg14629348	2	65455242	ACTR2	5.88E-9	-0.011	3.16E-6	DMG:Jaffe_2016

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs2105242	chr1	163568328	ACTR2	10097		0.03		trans
rs7076997	chr10	134046707	ACTR2	10097		0.08		trans

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
EIF4ENIF1	0.90	0.88
AC020663.1	0.90	0.88
C1orf163	0.90	0.92
PDXDC1	0.89	0.89
RABGEF1	0.89	0.88
HEATR5B	0.89	0.91
NHEDC2	0.89	0.87
ALS2	0.89	0.91
BAI3	0.89	0.88
MSL1	0.89	0.88

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
MT-CO2	-0.84	-0.83
AF347015.31	-0.83	-0.84
AF347015.21	-0.81	-0.84
AF347015.33	-0.80	-0.81
FXYD1	-0.80	-0.81
AF347015.8	-0.80	-0.82
AF347015.27	-0.80	-0.82
MT-CYB	-0.79	-0.80
HIGD1B	-0.79	-0.81
AF347015.2	-0.77	-0.80

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0000166	nucleotide binding	IEA		-
GO:0003779	actin binding	IEA		-
GO:0005515	protein binding	IEA		-
GO:0005515	protein binding	IPI		17353931
GO:0005524	ATP binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0006928	cell motion	TAS		9230079
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0042995	cell projection	IEA	axon (GO term level: 4)	-
GO:0005737	cytoplasm	IEA		-
GO:0005885	Arp2/3 protein complex	TAS		9230079

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
ACTC1	ACTC \| CMD1R \| CMH11	actin, alpha, cardiac muscle 1	-	HPRD,BioGRID	12019562
ACTR3	ARP3	ARP3 actin-related protein 3 homolog (yeast)	Co-purification	BioGRID	11741539
ACTR3	ARP3	ARP3 actin-related protein 3 homolog (yeast)	Arp2/3 complex subunits Arp2 and Arp3 interact	BIND	11721045 \|11741539
ACTR3B	ARP11 \| ARP3BETA \| DKFZp686O24114	ARP3 actin-related protein 3 homolog B (yeast)	Affinity Capture-MS	BioGRID	17353931
ARPC1B	ARC41 \| p40-ARC \| p41-ARC	actin related protein 2/3 complex, subunit 1B, 41kDa	-	HPRD	9230079 \|11721045
ARPC1B	ARC41 \| p40-ARC \| p41-ARC	actin related protein 2/3 complex, subunit 1B, 41kDa	Arp2/3 complex subunits p41 and Arp2 interact	BIND	11741539
ARPC2	ARC34 \| PNAS-139 \| PRO2446 \| p34-Arc	actin related protein 2/3 complex, subunit 2, 34kDa	-	HPRD	9230079
ARPC3	ARC21 \| p21-Arc	actin related protein 2/3 complex, subunit 3, 21kDa	-	HPRD	9000076
ARPC4	ARC20 \| MGC13544 \| p20-Arc	actin related protein 2/3 complex, subunit 4, 20kDa	Arp2/3 complex subunits p20 and Arp2 interact	BIND	11721045 \|11741539
ARPC4	ARC20 \| MGC13544 \| p20-Arc	actin related protein 2/3 complex, subunit 4, 20kDa	-	HPRD	11162547
ARPC5	ARC16 \| MGC88523 \| dJ127C7.3 \| p16-Arc	actin related protein 2/3 complex, subunit 5, 16kDa	Arp2/3 complex subunits p16 and Arp2 interact	BIND	11741539
BAK1	BAK \| BAK-LIKE \| BCL2L7 \| CDN1 \| MGC117255 \| MGC3887	BCL2-antagonist/killer 1	Affinity Capture-MS	BioGRID	17353931
BMP2	BMP2A	bone morphogenetic protein 2	Reconstituted Complex	BioGRID	10880444
CTTN	EMS1 \| FLJ34459	cortactin	Affinity Capture-MS	BioGRID	11018051
HCLS1	CTTNL \| HS1	hematopoietic cell-specific Lyn substrate 1	-	HPRD	12534372
IQGAP2	-	IQ motif containing GTPase activating protein 2	-	HPRD	12515716
WASF2	SCAR2 \| WAVE2 \| dJ393P12.2	WAS protein family, member 2	-	HPRD	9889097

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
BIOCARTA SALMONELLA PATHWAY	13	10	All SZGR 2.0 genes in this pathway
BIOCARTA MPR PATHWAY	34	28	All SZGR 2.0 genes in this pathway
BIOCARTA RHO PATHWAY	32	23	All SZGR 2.0 genes in this pathway
BIOCARTA CDC42RAC PATHWAY	16	13	All SZGR 2.0 genes in this pathway
BIOCARTA ACTINY PATHWAY	20	14	All SZGR 2.0 genes in this pathway
SIG CHEMOTAXIS	45	37	All SZGR 2.0 genes in this pathway
SIG REGULATION OF THE ACTIN CYTOSKELETON BY RHO GTPASES	35	25	All SZGR 2.0 genes in this pathway
ST INTEGRIN SIGNALING PATHWAY	82	62	All SZGR 2.0 genes in this pathway
PID CDC42 PATHWAY	70	51	All SZGR 2.0 genes in this pathway
PID ERBB1 DOWNSTREAM PATHWAY	105	78	All SZGR 2.0 genes in this pathway
PID PDGFRB PATHWAY	129	103	All SZGR 2.0 genes in this pathway
PID RAC1 PATHWAY	54	37	All SZGR 2.0 genes in this pathway
GAZDA DIAMOND BLACKFAN ANEMIA ERYTHROID DN	493	298	All SZGR 2.0 genes in this pathway
THUM SYSTOLIC HEART FAILURE UP	423	283	All SZGR 2.0 genes in this pathway
CASORELLI ACUTE PROMYELOCYTIC LEUKEMIA DN	663	425	All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP	1382	904	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
WANG LMO4 TARGETS DN	352	225	All SZGR 2.0 genes in this pathway
OSWALD HEMATOPOIETIC STEM CELL IN COLLAGEN GEL DN	275	168	All SZGR 2.0 genes in this pathway
HOEBEKE LYMPHOID STEM CELL DN	86	59	All SZGR 2.0 genes in this pathway
MULLIGHAN MLL SIGNATURE 1 UP	380	236	All SZGR 2.0 genes in this pathway
MULLIGHAN MLL SIGNATURE 2 UP	418	263	All SZGR 2.0 genes in this pathway
SENESE HDAC1 TARGETS UP	457	269	All SZGR 2.0 genes in this pathway
SENESE HDAC3 TARGETS UP	501	327	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
KIM WT1 TARGETS DN	459	276	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED UP	633	376	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA ANAPLASTIC UP	722	443	All SZGR 2.0 genes in this pathway
HAHTOLA MYCOSIS FUNGOIDES CD4 UP	64	46	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE DN	485	334	All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE DN	712	443	All SZGR 2.0 genes in this pathway
YANAGIHARA ESX1 TARGETS	30	19	All SZGR 2.0 genes in this pathway
MARTORIATI MDM4 TARGETS FETAL LIVER DN	514	319	All SZGR 2.0 genes in this pathway
WOOD EBV EBNA1 TARGETS DN	47	33	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
FALVELLA SMOKERS WITH LUNG CANCER	80	52	All SZGR 2.0 genes in this pathway
GEORGES TARGETS OF MIR192 AND MIR215	893	528	All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT OK VS DONOR UP	555	346	All SZGR 2.0 genes in this pathway
LEI MYB TARGETS	318	215	All SZGR 2.0 genes in this pathway
REN ALVEOLAR RHABDOMYOSARCOMA DN	408	274	All SZGR 2.0 genes in this pathway
MCCLUNG DELTA FOSB TARGETS 8WK	47	38	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN	1237	837	All SZGR 2.0 genes in this pathway
MCCLUNG COCAINE REWARD 5D	79	62	All SZGR 2.0 genes in this pathway
CHENG RESPONSE TO NICKEL ACETATE	45	29	All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 UNSTIMULATED	1229	713	All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR UP	294	199	All SZGR 2.0 genes in this pathway
QI PLASMACYTOMA UP	259	185	All SZGR 2.0 genes in this pathway
WANG TUMOR INVASIVENESS DN	210	128	All SZGR 2.0 genes in this pathway
MOOTHA PGC	420	269	All SZGR 2.0 genes in this pathway
SPIRA SMOKERS LUNG CANCER UP	38	24	All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS UP	518	299	All SZGR 2.0 genes in this pathway
HOSHIDA LIVER CANCER LATE RECURRENCE UP	62	42	All SZGR 2.0 genes in this pathway
HOSHIDA LIVER CANCER SURVIVAL UP	73	49	All SZGR 2.0 genes in this pathway
YAGI AML WITH T 9 11 TRANSLOCATION	130	87	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 DN	88	68	All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS CALB1 CORR UP	548	370	All SZGR 2.0 genes in this pathway
GABRIELY MIR21 TARGETS	289	187	All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN	1972	1213	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
let-7/98	1650	1656	1A	hsa-let-7a^brain	UGAGGUAGUAGGUUGUAUAGUU
				hsa-let-7b^brain	UGAGGUAGUAGGUUGUGUGGUU
				hsa-let-7c^brain	UGAGGUAGUAGGUUGUAUGGUU
				hsa-let-7d^brain	AGAGGUAGUAGGUUGCAUAGU
				hsa-let-7e^brain	UGAGGUAGGAGGUUGUAUAGU
				hsa-let-7f^brain	UGAGGUAGUAGAUUGUAUAGUU
				hsa-miR-98^brain	UGAGGUAGUAAGUUGUAUUGUU
				hsa-let-7g^SZ	UGAGGUAGUAGUUUGUACAGU
				hsa-let-7i^brain	UGAGGUAGUAGUUUGUGCUGU
miR-15/16/195/424/497	235	241	m8	hsa-miR-15a^brain	UAGCAGCACAUAAUGGUUUGUG
				hsa-miR-16^brain	UAGCAGCACGUAAAUAUUGGCG
				hsa-miR-15b^brain	UAGCAGCACAUCAUGGUUUACA
				hsa-miR-195^SZ	UAGCAGCACAGAAAUAUUGGC
				hsa-miR-424	CAGCAGCAAUUCAUGUUUUGAA
				hsa-miR-497	CAGCAGCACACUGUGGUUUGU
				hsa-miR-15a^brain	UAGCAGCACAUAAUGGUUUGUG
				hsa-miR-16^brain	UAGCAGCACGUAAAUAUUGGCG
				hsa-miR-15b^brain	UAGCAGCACAUCAUGGUUUACA
				hsa-miR-195^SZ	UAGCAGCACAGAAAUAUUGGC
				hsa-miR-424	CAGCAGCAAUUCAUGUUUUGAA
				hsa-miR-497	CAGCAGCACACUGUGGUUUGU
miR-24*	255	261	m8	hsa-miR-189	GUGCCUACUGAGCUGAUAUCAGU
miR-338	1681	1688	1A,m8	hsa-miR-338^brain	UCCAGCAUCAGUGAUUUUGUUGA
miR-503	309	315	1A	hsa-miR-503	UAGCAGCGGGAACAGUUCUGCAG

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: ACTR2