SZGR2

Summary ?

GeneID	5564
Symbol	PRKAB1
Synonyms	AMPK\|HAMPKb
Description	protein kinase AMP-activated non-catalytic subunit beta 1
Reference	MIM:602740\|HGNC:HGNC:9378\|Ensembl:ENSG00000111725\|HPRD:04116\|Vega:OTTHUMG00000168954
Gene type	protein-coding
Map location	12q24.1-q24.3
Pascal p-value	0.001
Fetal beta	0.41
eGene	Myers' cis & trans

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: 0.126

Section I. Genetics and epigenetics annotation

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs13291971	chr9	12861064	PRKAB1	5564		0.16		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
PDE7B	0.80	0.78
INF2	0.79	0.74
FBXL16	0.78	0.77
IL17RA	0.77	0.77
SMAD3	0.76	0.79
SLC6A1	0.75	0.85
STIM1	0.75	0.77
AGFG2	0.75	0.75
ACTN1	0.74	0.71
RAP1GAP	0.73	0.66

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
RPL24	-0.48	-0.59
RPS3AP47	-0.47	-0.55
RPL31	-0.46	-0.57
RPL27	-0.46	-0.56
RPL35A	-0.46	-0.61
C12orf45	-0.46	-0.54
RPS23	-0.46	-0.57
RPS20	-0.46	-0.61
EXOSC8	-0.46	-0.50
C9orf46	-0.45	-0.54

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005515	protein binding	IPI		18403135
GO:0004553	hydrolase activity, hydrolyzing O-glycosyl compounds	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005975	carbohydrate metabolic process	IEA		-
GO:0007165	signal transduction	TAS		9575201
GO:0006633	fatty acid biosynthetic process	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005634	nucleus	IEA		-
GO:0005737	cytoplasm	IDA		18029348

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
ACLY	ACL \| ATPCL \| CLATP	ATP citrate lyase	Affinity Capture-MS	BioGRID	17353931
DHX36	DDX36 \| G4R1 \| KIAA1488 \| MLEL1 \| RHAU	DEAH (Asp-Glu-Ala-His) box polypeptide 36	Affinity Capture-MS	BioGRID	17353931
EZR	CVIL \| CVL \| DKFZp762H157 \| FLJ26216 \| MGC1584 \| VIL2	ezrin	Affinity Capture-MS	BioGRID	17353931
F10	FX \| FXA	coagulation factor X	Two-hybrid	BioGRID	16169070
FNIP1	DKFZp686E18167 \| DKFZp781P0215 \| KIAA1961 \| MGC667	folliculin interacting protein 1	Affinity Capture-Western	BioGRID	17028174
GYS1	GSY \| GYS	glycogen synthase 1 (muscle)	Affinity Capture-MS	BioGRID	17353931
MARS	FLJ35667 \| METRS \| MTRNS	methionyl-tRNA synthetase	Affinity Capture-MS	BioGRID	17353931
MYH10	MGC134913 \| MGC134914 \| NMMHCB	myosin, heavy chain 10, non-muscle	Affinity Capture-MS	BioGRID	17353931
NDUFA7	B14.5a	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 7, 14.5kDa	Two-hybrid	BioGRID	16169070
PRKAB2	MGC61468	protein kinase, AMP-activated, beta 2 non-catalytic subunit	Affinity Capture-MS	BioGRID	17353931
PRKAG1	AMPKG \| MGC8666	protein kinase, AMP-activated, gamma 1 non-catalytic subunit	-	HPRD,BioGRID	10698692
PRKAG2	AAKG \| AAKG2 \| CMH6 \| H91620p \| WPWS	protein kinase, AMP-activated, gamma 2 non-catalytic subunit	-	HPRD,BioGRID	10698692
SNRNP200	ASCC3L1 \| BRR2 \| HELIC2 \| U5-200KD	small nuclear ribonucleoprotein 200kDa (U5)	Affinity Capture-MS	BioGRID	17353931

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG INSULIN SIGNALING PATHWAY	137	103	All SZGR 2.0 genes in this pathway
KEGG ADIPOCYTOKINE SIGNALING PATHWAY	67	57	All SZGR 2.0 genes in this pathway
KEGG HYPERTROPHIC CARDIOMYOPATHY HCM	85	65	All SZGR 2.0 genes in this pathway
BIOCARTA CHREBP2 PATHWAY	42	35	All SZGR 2.0 genes in this pathway
BIOCARTA LEPTIN PATHWAY	11	11	All SZGR 2.0 genes in this pathway
PID LKB1 PATHWAY	47	37	All SZGR 2.0 genes in this pathway
PID P53 DOWNSTREAM PATHWAY	137	94	All SZGR 2.0 genes in this pathway
PID VEGFR1 2 PATHWAY	69	57	All SZGR 2.0 genes in this pathway
REACTOME ACTIVATED AMPK STIMULATES FATTY ACID OXIDATION IN MUSCLE	19	16	All SZGR 2.0 genes in this pathway
REACTOME INSULIN RECEPTOR SIGNALLING CASCADE	87	64	All SZGR 2.0 genes in this pathway
REACTOME REGULATION OF AMPK ACTIVITY VIA LKB1	15	13	All SZGR 2.0 genes in this pathway
REACTOME ENERGY DEPENDENT REGULATION OF MTOR BY LKB1 AMPK	18	15	All SZGR 2.0 genes in this pathway
REACTOME REGULATION OF RHEB GTPASE ACTIVITY BY AMPK	10	9	All SZGR 2.0 genes in this pathway
REACTOME PKB MEDIATED EVENTS	29	23	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY INSULIN RECEPTOR	108	72	All SZGR 2.0 genes in this pathway
REACTOME PI3K CASCADE	71	51	All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP	1382	904	All SZGR 2.0 genes in this pathway
BASAKI YBX1 TARGETS DN	384	230	All SZGR 2.0 genes in this pathway
MULLIGHAN NPM1 MUTATED SIGNATURE 2 UP	139	83	All SZGR 2.0 genes in this pathway
MULLIGHAN NPM1 SIGNATURE 3 UP	341	197	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE EPIDERMIS UP	293	179	All SZGR 2.0 genes in this pathway
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN DN	584	395	All SZGR 2.0 genes in this pathway
BENPORATH MYC MAX TARGETS	775	494	All SZGR 2.0 genes in this pathway
KANNAN TP53 TARGETS UP	58	40	All SZGR 2.0 genes in this pathway
WESTON VEGFA TARGETS 6HR	59	38	All SZGR 2.0 genes in this pathway
WESTON VEGFA TARGETS	108	71	All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 3	720	440	All SZGR 2.0 genes in this pathway
KYNG DNA DAMAGE BY 4NQO OR UV	63	44	All SZGR 2.0 genes in this pathway
KYNG DNA DAMAGE DN	195	135	All SZGR 2.0 genes in this pathway
AMBROSINI FLAVOPIRIDOL TREATMENT TP53	109	63	All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER UP	973	570	All SZGR 2.0 genes in this pathway
NICK RESPONSE TO PROC TREATMENT DN	27	18	All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS UNANNOTATED DN	193	112	All SZGR 2.0 genes in this pathway
KYNG WERNER SYNDROM AND NORMAL AGING UP	93	62	All SZGR 2.0 genes in this pathway
DANG BOUND BY MYC	1103	714	All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 9	76	45	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 4HR DN	254	158	All SZGR 2.0 genes in this pathway
SMIRNOV RESPONSE TO IR 6HR UP	166	97	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-137	704	710	1A	hsa-miR-137	UAUUGCUUAAGAAUACGCGUAG
miR-539	748	754	m8	hsa-miR-539	GGAGAAAUUAUCCUUGGUGUGU

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: PRKAB1