SZGR2

Summary ?

GeneID	5062
Symbol	PAK2
Synonyms	PAK65\|PAKgamma
Description	p21 protein (Cdc42/Rac)-activated kinase 2
Reference	MIM:605022\|HGNC:HGNC:8591\|Ensembl:ENSG00000180370\|HPRD:05428\|Vega:OTTHUMG00000155534
Gene type	protein-coding
Map location	3q29
Pascal p-value	0.019
Sherlock p-value	0.099
Fetal beta	1.644
DMG	1 (# studies)
eGene	Myers' cis & trans

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CNV:YES	Copy number variation studies	Manual curation
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
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,schizophrenic,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: 0.0435

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg02319016	3	196469777	PAK2	5.425E-4	0.377	0.048	DMG:Wockner_2014

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs1983892	chr6	41537567	PAK2	5062		0.01		trans
rs1502683	chr9	85599579	PAK2	5062		0.18		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
NONO	0.96	0.94
APEX1	0.96	0.94
KDM1	0.95	0.94
HNRNPL	0.95	0.94
RBMX	0.95	0.95
RBBP4	0.95	0.94
FUBP1	0.94	0.92
SMAD4	0.94	0.90
SF3B3	0.94	0.92
TH1L	0.94	0.90

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
AF347015.31	-0.71	-0.88
AF347015.27	-0.71	-0.88
MT-CO2	-0.70	-0.88
C5orf53	-0.69	-0.76
AF347015.33	-0.69	-0.86
MT-CYB	-0.68	-0.87
HLA-F	-0.68	-0.76
AIFM3	-0.68	-0.77
AF347015.8	-0.68	-0.88
IFI27	-0.66	-0.83

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0000166	nucleotide binding	IEA		-
GO:0005524	ATP binding	IEA		-
GO:0004674	protein serine/threonine kinase activity	IDA		11805089
GO:0016740	transferase activity	IEA		-
GO:0042802	identical protein binding	IPI		16837009
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0001558	regulation of cell growth	IEA		-
GO:0006469	negative regulation of protein kinase activity	TAS		10748018
GO:0007165	signal transduction	TAS		7744004
GO:0006915	apoptosis	IEA		-
GO:0044419	interspecies interaction between organisms	IEA		-
GO:0046777	protein amino acid autophosphorylation	IDA		11805089
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005829	cytosol	EXP		15234964
GO:0005634	nucleus	IEA		-
GO:0005737	cytoplasm	IEA		-
GO:0016020	membrane	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
ABI1	ABI-1 \| E3B1 \| NAP1BP \| SSH3BP \| SSH3BP1	abl-interactor 1	-	HPRD	11956071
ABI3	NESH \| SSH3BP3	ABI family, member 3	-	HPRD,BioGRID	11956071
ABL1	ABL \| JTK7 \| bcr/abl \| c-ABL \| p150 \| v-abl	c-abl oncogene 1, receptor tyrosine kinase	-	HPRD,BioGRID	11121037
ARHGEF7	BETA-PIX \| COOL1 \| DKFZp686C12170 \| DKFZp761K1021 \| KIAA0142 \| KIAA0412 \| Nbla10314 \| P50 \| P50BP \| P85 \| P85COOL1 \| P85SPR \| PAK3 \| PIXB	Rho guanine nucleotide exchange factor (GEF) 7	-	HPRD,BioGRID	12226077
CDC42	CDC42Hs \| G25K	cell division cycle 42 (GTP binding protein, 25kDa)	-	HPRD,BioGRID	10320322
DOCK2	FLJ46592 \| KIAA0209	dedicator of cytokinesis 2	Reconstituted Complex	BioGRID	12176041
GIT1	-	G protein-coupled receptor kinase interacting ArfGAP 1	Affinity Capture-MS	BioGRID	17353931
GIT2	CAT-2 \| DKFZp686G01261 \| KIAA0148 \| MGC760	G protein-coupled receptor kinase interacting ArfGAP 2	Affinity Capture-MS	BioGRID	17353931
MCM3	HCC5 \| MGC1157 \| P1-MCM3 \| P1.h \| RLFB	minichromosome maintenance complex component 3	Affinity Capture-MS	BioGRID	17353931
MYH10	MGC134913 \| MGC134914 \| NMMHCB	myosin, heavy chain 10, non-muscle	Affinity Capture-MS	BioGRID	17353931
MYL2	CMH10 \| DKFZp779C0562 \| MLC2	myosin, light chain 2, regulatory, cardiac, slow	-	HPRD,BioGRID	10047984
NCK1	MGC12668 \| NCK \| NCKalpha	NCK adaptor protein 1	-	HPRD	11160719
PAK2	PAK65 \| PAKgamma	p21 protein (Cdc42/Rac)-activated kinase 2	hPAK65 autophosphorylates.	BIND	9151826
RAC1	MGC111543 \| MIG5 \| TC-25 \| p21-Rac1	ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)	-	HPRD,BioGRID	9535855
RAC2	EN-7 \| Gx \| HSPC022	ras-related C3 botulinum toxin substrate 2 (rho family, small GTP binding protein Rac2)	Reconstituted Complex	BioGRID	12176041
SH3KBP1	CIN85 \| GIG10 \| MIG18	SH3-domain kinase binding protein 1	-	HPRD,BioGRID	12829691

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG MAPK SIGNALING PATHWAY	267	205	All SZGR 2.0 genes in this pathway
KEGG ERBB SIGNALING PATHWAY	87	71	All SZGR 2.0 genes in this pathway
KEGG AXON GUIDANCE	129	103	All SZGR 2.0 genes in this pathway
KEGG FOCAL ADHESION	201	138	All SZGR 2.0 genes in this pathway
KEGG T CELL RECEPTOR SIGNALING PATHWAY	108	89	All SZGR 2.0 genes in this pathway
KEGG REGULATION OF ACTIN CYTOSKELETON	216	144	All SZGR 2.0 genes in this pathway
KEGG RENAL CELL CARCINOMA	70	60	All SZGR 2.0 genes in this pathway
BIOCARTA AGR PATHWAY	36	31	All SZGR 2.0 genes in this pathway
BIOCARTA FAS PATHWAY	30	22	All SZGR 2.0 genes in this pathway
BIOCARTA FCER1 PATHWAY	41	30	All SZGR 2.0 genes in this pathway
BIOCARTA HIVNEF PATHWAY	58	43	All SZGR 2.0 genes in this pathway
BIOCARTA MAPK PATHWAY	87	68	All SZGR 2.0 genes in this pathway
BIOCARTA TNFR1 PATHWAY	29	21	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 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
ST T CELL SIGNAL TRANSDUCTION	45	33	All SZGR 2.0 genes in this pathway
PID FCER1 PATHWAY	62	43	All SZGR 2.0 genes in this pathway
PID MET PATHWAY	80	60	All SZGR 2.0 genes in this pathway
PID P38 ALPHA BETA PATHWAY	31	25	All SZGR 2.0 genes in this pathway
PID CDC42 PATHWAY	70	51	All SZGR 2.0 genes in this pathway
PID MYC PATHWAY	25	22	All SZGR 2.0 genes in this pathway
PID VEGFR1 2 PATHWAY	69	57	All SZGR 2.0 genes in this pathway
PID RAC1 PATHWAY	54	37	All SZGR 2.0 genes in this pathway
REACTOME DEVELOPMENTAL BIOLOGY	396	292	All SZGR 2.0 genes in this pathway
REACTOME TCR SIGNALING	54	46	All SZGR 2.0 genes in this pathway
REACTOME GENERATION OF SECOND MESSENGER MOLECULES	27	25	All SZGR 2.0 genes in this pathway
REACTOME REGULATION OF APOPTOSIS	58	34	All SZGR 2.0 genes in this pathway
REACTOME AXON GUIDANCE	251	188	All SZGR 2.0 genes in this pathway
REACTOME CD28 CO STIMULATION	32	26	All SZGR 2.0 genes in this pathway
REACTOME ACTIVATION OF RAC	14	11	All SZGR 2.0 genes in this pathway
REACTOME SEMA3A PAK DEPENDENT AXON REPULSION	15	14	All SZGR 2.0 genes in this pathway
REACTOME CD28 DEPENDENT VAV1 PATHWAY	11	10	All SZGR 2.0 genes in this pathway
REACTOME SEMAPHORIN INTERACTIONS	68	53	All SZGR 2.0 genes in this pathway
REACTOME COSTIMULATION BY THE CD28 FAMILY	63	48	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY ROBO RECEPTOR	30	26	All SZGR 2.0 genes in this pathway
REACTOME APOPTOSIS	148	94	All SZGR 2.0 genes in this pathway
REACTOME HIV INFECTION	207	122	All SZGR 2.0 genes in this pathway
REACTOME HOST INTERACTIONS OF HIV FACTORS	132	81	All SZGR 2.0 genes in this pathway
REACTOME THE ROLE OF NEF IN HIV1 REPLICATION AND DISEASE PATHOGENESIS	28	19	All SZGR 2.0 genes in this pathway
REACTOME IMMUNE SYSTEM	933	616	All SZGR 2.0 genes in this pathway
REACTOME ADAPTIVE IMMUNE SYSTEM	539	350	All SZGR 2.0 genes in this pathway
REACTOME APOPTOTIC EXECUTION PHASE	54	37	All SZGR 2.0 genes in this pathway
HOLLMANN APOPTOSIS VIA CD40 UP	201	125	All SZGR 2.0 genes in this pathway
ZERBINI RESPONSE TO SULINDAC UP	9	6	All SZGR 2.0 genes in this pathway
BORCZUK MALIGNANT MESOTHELIOMA UP	305	185	All SZGR 2.0 genes in this pathway
WANG LMO4 TARGETS DN	352	225	All SZGR 2.0 genes in this pathway
WANG CLIM2 TARGETS UP	269	146	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
RHEIN ALL GLUCOCORTICOID THERAPY DN	362	238	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
RODRIGUES THYROID CARCINOMA ANAPLASTIC UP	722	443	All SZGR 2.0 genes in this pathway
LAU APOPTOSIS CDKN2A UP	55	40	All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE DN	712	443	All SZGR 2.0 genes in this pathway
GRUETZMANN PANCREATIC CANCER UP	358	245	All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK	1652	1023	All SZGR 2.0 genes in this pathway
PUJANA BRCA2 PCC NETWORK	423	265	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 DN	848	527	All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS DN	1024	594	All SZGR 2.0 genes in this pathway
BALDWIN PRKCI TARGETS UP	35	26	All SZGR 2.0 genes in this pathway
DING LUNG CANCER EXPRESSION BY COPY NUMBER	100	62	All SZGR 2.0 genes in this pathway
TARTE PLASMA CELL VS PLASMABLAST DN	309	206	All SZGR 2.0 genes in this pathway
JI RESPONSE TO FSH DN	58	43	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP	1691	1088	All SZGR 2.0 genes in this pathway
VERRECCHIA DELAYED RESPONSE TO TGFB1	39	26	All SZGR 2.0 genes in this pathway
JAZAERI BREAST CANCER BRCA1 VS BRCA2 UP	49	28	All SZGR 2.0 genes in this pathway
VERRECCHIA RESPONSE TO TGFB1 C4	13	10	All SZGR 2.0 genes in this pathway
SATO SILENCED BY METHYLATION IN PANCREATIC CANCER 1	419	273	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 24HR UP	148	96	All SZGR 2.0 genes in this pathway
MCCABE BOUND BY HOXC6	469	239	All SZGR 2.0 genes in this pathway
MCCABE HOXC6 TARGETS CANCER DN	20	12	All SZGR 2.0 genes in this pathway
DANG REGULATED BY MYC DN	253	192	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 2HR DN	49	33	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 B	549	316	All SZGR 2.0 genes in this pathway
PURBEY TARGETS OF CTBP1 NOT SATB1 DN	448	282	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-26	351	358	1A,m8	hsa-miR-26a^brain	UUCAAGUAAUCCAGGAUAGGC
miR-26	351	358	1A,m8	hsa-miR-26b^SZ	UUCAAGUAAUUCAGGAUAGGUU
miR-9	829	835	m8	hsa-miR-9^SZ	UCUUUGGUUAUCUAGCUGUAUGA

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: PAK2