SZGR2

Summary ?

GeneID	23236
Symbol	PLCB1
Synonyms	EIEE12\|PI-PLC\|PLC-154\|PLC-I\|PLC-beta-1\|PLC154\|PLCB1A\|PLCB1B
Description	phospholipase C beta 1
Reference	MIM:607120\|HGNC:HGNC:15917\|Ensembl:ENSG00000182621\|HPRD:06177\|Vega:OTTHUMG00000031849
Gene type	protein-coding
Map location	20p12
Pascal p-value	0.185
Sherlock p-value	0.014
Fetal beta	-1.866
DMG	2 (# studies)
eGene	Myers' cis & trans
Support	CANABINOID INTRACELLULAR SIGNAL TRANSDUCTION METABOTROPIC GLUTAMATE RECEPTOR SEROTONIN G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-CONSENSUS G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL G2Cdb.human_BAYES-COLLINS-MOUSE-PSD-CONSENSUS G2Cdb.human_mGluR5 G2Cdb.humanNRC G2Cdb.humanPSD G2Cdb.humanPSP CompositeSet Darnell FMRP targets Ascano FMRP targets Potential synaptic genes

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
CV:PheWAS	Phenome-wide association studies (PheWAS)	157 SNPs associated with schizophrenia	1
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.	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
PMID:cooccur	High-throughput literature-search	Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
GSMA_I	Genome scan meta-analysis	Psr: 0.046
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: 0.3045

Section I. Genetics and epigenetics annotation

CV:PheWAS

SNP ID	Chromosome	Position	Allele	P	Function	Gene	Up/Down Distance
rs6056209	20	8836771	null	0.6712	PLCB1	null

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg23657409	20	8112754	PLCB1		-0.023	0.52	DMG:Nishioka_2013
cg23657409	20	8112754	PLCB1	9.7E-8	-0.012	2.16E-5	DMG:Jaffe_2016

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs6056552	chr20	9309712	PLCB1	23236		0.07		cis

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
PRPF6	0.97	0.97
PPM1G	0.95	0.96
CYTH2	0.94	0.94
ZNF821	0.94	0.95
IP6K2	0.94	0.93
RBM4	0.94	0.96
PRPF31	0.93	0.94
ZNF259	0.93	0.94
EWSR1	0.93	0.94
SMARCB1	0.93	0.94

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
AF347015.31	-0.80	-0.89
MT-CO2	-0.79	-0.89
AF347015.33	-0.79	-0.89
AF347015.27	-0.78	-0.89
MT-CYB	-0.77	-0.87
AF347015.8	-0.76	-0.88
FXYD1	-0.75	-0.87
HLA-F	-0.75	-0.80
C5orf53	-0.75	-0.76
S100B	-0.74	-0.83

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0004871	signal transducer activity	IEA		-
GO:0005509	calcium ion binding	IEA		-
GO:0004435	phosphoinositide phospholipase C activity	NAS		11118617
GO:0016787	hydrolase activity	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0016042	lipid catabolic process	IEA		-
GO:0007242	intracellular signaling cascade	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005634	nucleus	NAS		10760467
GO:0005737	cytoplasm	IDA		11118617
GO:0005886	plasma membrane	EXP		2841328 \|9198220

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG INOSITOL PHOSPHATE METABOLISM	54	42	All SZGR 2.0 genes in this pathway
KEGG CALCIUM SIGNALING PATHWAY	178	134	All SZGR 2.0 genes in this pathway
KEGG CHEMOKINE SIGNALING PATHWAY	190	128	All SZGR 2.0 genes in this pathway
KEGG PHOSPHATIDYLINOSITOL SIGNALING SYSTEM	76	56	All SZGR 2.0 genes in this pathway
KEGG VASCULAR SMOOTH MUSCLE CONTRACTION	115	81	All SZGR 2.0 genes in this pathway
KEGG WNT SIGNALING PATHWAY	151	112	All SZGR 2.0 genes in this pathway
KEGG GAP JUNCTION	90	68	All SZGR 2.0 genes in this pathway
KEGG LONG TERM POTENTIATION	70	57	All SZGR 2.0 genes in this pathway
KEGG LONG TERM DEPRESSION	70	53	All SZGR 2.0 genes in this pathway
KEGG GNRH SIGNALING PATHWAY	101	77	All SZGR 2.0 genes in this pathway
KEGG MELANOGENESIS	102	80	All SZGR 2.0 genes in this pathway
KEGG ALZHEIMERS DISEASE	169	110	All SZGR 2.0 genes in this pathway
KEGG HUNTINGTONS DISEASE	185	109	All SZGR 2.0 genes in this pathway
BIOCARTA SPPA PATHWAY	22	18	All SZGR 2.0 genes in this pathway
BIOCARTA CDMAC PATHWAY	16	15	All SZGR 2.0 genes in this pathway
BIOCARTA CCR3 PATHWAY	23	21	All SZGR 2.0 genes in this pathway
BIOCARTA FMLP PATHWAY	39	29	All SZGR 2.0 genes in this pathway
BIOCARTA EDG1 PATHWAY	27	24	All SZGR 2.0 genes in this pathway
BIOCARTA MYOSIN PATHWAY	31	22	All SZGR 2.0 genes in this pathway
BIOCARTA CK1 PATHWAY	17	17	All SZGR 2.0 genes in this pathway
BIOCARTA BARR MAPK PATHWAY	12	11	All SZGR 2.0 genes in this pathway
BIOCARTA BARRESTIN SRC PATHWAY	15	14	All SZGR 2.0 genes in this pathway
BIOCARTA BARRESTIN PATHWAY	10	8	All SZGR 2.0 genes in this pathway
BIOCARTA PAR1 PATHWAY	37	28	All SZGR 2.0 genes in this pathway
ST G ALPHA I PATHWAY	35	29	All SZGR 2.0 genes in this pathway
PID ENDOTHELIN PATHWAY	63	52	All SZGR 2.0 genes in this pathway
PID ER NONGENOMIC PATHWAY	41	35	All SZGR 2.0 genes in this pathway
PID CXCR4 PATHWAY	102	78	All SZGR 2.0 genes in this pathway
PID IL8 CXCR2 PATHWAY	34	26	All SZGR 2.0 genes in this pathway
PID AR NONGENOMIC PATHWAY	31	27	All SZGR 2.0 genes in this pathway
PID THROMBIN PAR1 PATHWAY	43	32	All SZGR 2.0 genes in this pathway
PID IL8 CXCR1 PATHWAY	28	19	All SZGR 2.0 genes in this pathway
REACTOME GASTRIN CREB SIGNALLING PATHWAY VIA PKC AND MAPK	205	136	All SZGR 2.0 genes in this pathway
REACTOME TRANSMISSION ACROSS CHEMICAL SYNAPSES	186	155	All SZGR 2.0 genes in this pathway
REACTOME NEURONAL SYSTEM	279	221	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY GPCR	920	449	All SZGR 2.0 genes in this pathway
REACTOME INTEGRATION OF ENERGY METABOLISM	120	84	All SZGR 2.0 genes in this pathway
REACTOME OPIOID SIGNALLING	78	56	All SZGR 2.0 genes in this pathway
REACTOME NEUROTRANSMITTER RECEPTOR BINDING AND DOWNSTREAM TRANSMISSION IN THE POSTSYNAPTIC CELL	137	110	All SZGR 2.0 genes in this pathway
REACTOME PLC BETA MEDIATED EVENTS	43	32	All SZGR 2.0 genes in this pathway
REACTOME G ALPHA Q SIGNALLING EVENTS	184	116	All SZGR 2.0 genes in this pathway
REACTOME REGULATION OF INSULIN SECRETION	93	65	All SZGR 2.0 genes in this pathway
REACTOME REGULATION OF INSULIN SECRETION BY ACETYLCHOLINE	11	9	All SZGR 2.0 genes in this pathway
REACTOME G BETA GAMMA SIGNALLING THROUGH PLC BETA	20	12	All SZGR 2.0 genes in this pathway
REACTOME GPCR DOWNSTREAM SIGNALING	805	368	All SZGR 2.0 genes in this pathway
REACTOME G PROTEIN BETA GAMMA SIGNALLING	28	18	All SZGR 2.0 genes in this pathway
REACTOME ACTIVATION OF KAINATE RECEPTORS UPON GLUTAMATE BINDING	31	23	All SZGR 2.0 genes in this pathway
PARENT MTOR SIGNALING UP	567	375	All SZGR 2.0 genes in this pathway
CASORELLI ACUTE PROMYELOCYTIC LEUKEMIA UP	177	110	All SZGR 2.0 genes in this pathway
DOANE RESPONSE TO ANDROGEN DN	241	146	All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 6HR DN	167	100	All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 24HR UP	557	331	All SZGR 2.0 genes in this pathway
JAATINEN HEMATOPOIETIC STEM CELL UP	316	190	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA ANAPLASTIC UP	722	443	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA DN	77	52	All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN	781	465	All SZGR 2.0 genes in this pathway
WEI MYCN TARGETS WITH E BOX	795	478	All SZGR 2.0 genes in this pathway
LIAO METASTASIS	539	324	All SZGR 2.0 genes in this pathway
RICKMAN TUMOR DIFFERENTIATED WELL VS MODERATELY UP	109	69	All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 6HR DN	514	330	All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 12HR UP	116	79	All SZGR 2.0 genes in this pathway
BENPORATH SUZ12 TARGETS	1038	678	All SZGR 2.0 genes in this pathway
BENPORATH EED TARGETS	1062	725	All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS	882	572	All SZGR 2.0 genes in this pathway
AFFAR YY1 TARGETS DN	234	137	All SZGR 2.0 genes in this pathway
TRAYNOR RETT SYNDROM UP	45	33	All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS MATURE CELL	293	160	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN	1237	837	All SZGR 2.0 genes in this pathway
KAAB HEART ATRIUM VS VENTRICLE UP	249	170	All SZGR 2.0 genes in this pathway
WANG SMARCE1 TARGETS UP	280	183	All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 1	528	324	All SZGR 2.0 genes in this pathway
RIGGINS TAMOXIFEN RESISTANCE DN	220	147	All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS UP	673	430	All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS DN	593	372	All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS DN	591	366	All SZGR 2.0 genes in this pathway
MARZEC IL2 SIGNALING DN	36	24	All SZGR 2.0 genes in this pathway
RIGGI EWING SARCOMA PROGENITOR DN	191	123	All SZGR 2.0 genes in this pathway
ZHANG BREAST CANCER PROGENITORS UP	425	253	All SZGR 2.0 genes in this pathway
MATZUK FERTILIZATION	8	5	All SZGR 2.0 genes in this pathway
MATZUK SPERMATOZOA	114	77	All SZGR 2.0 genes in this pathway
TAVAZOIE METASTASIS	108	68	All SZGR 2.0 genes in this pathway
BOYAULT LIVER CANCER SUBCLASS G123 UP	45	21	All SZGR 2.0 genes in this pathway
YAMASHITA LIVER CANCER STEM CELL UP	47	38	All SZGR 2.0 genes in this pathway
PHESSE TARGETS OF APC AND MBD2 DN	13	11	All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG RXRA BOUND 8D	882	506	All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG RXRA BOUND WITH H4K20ME1 MARK	145	82	All SZGR 2.0 genes in this pathway
PLASARI TGFB1 TARGETS 10HR DN	244	157	All SZGR 2.0 genes in this pathway
PEDRIOLI MIR31 TARGETS DN	418	245	All SZGR 2.0 genes in this pathway
DURAND STROMA NS UP	162	103	All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY	1839	928	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-124/506	2464	2470	m8	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
miR-124/506	2464	2470	m8	hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-125/351	1124	1130	1A	hsa-miR-125b^brain	UCCCUGAGACCCUAACUUGUGA
miR-125/351	1124	1130	1A	hsa-miR-125a^brain	UCCCUGAGACCCUUUAACCUGUG
miR-130/301	1999	2005	m8	hsa-miR-130a^brain	CAGUGCAAUGUUAAAAGGGCAU
				hsa-miR-301	CAGUGCAAUAGUAUUGUCAAAGC
				hsa-miR-130b^brain	CAGUGCAAUGAUGAAAGGGCAU
				hsa-miR-454-3p	UAGUGCAAUAUUGCUUAUAGGGUUU
miR-137	1770	1777	1A,m8	hsa-miR-137	UAUUGCUUAAGAAUACGCGUAG
miR-137	1770	1777	1A,m8	hsa-miR-137	UAUUGCUUAAGAAUACGCGUAG
miR-153	2958	2965	1A,m8	hsa-miR-153	UUGCAUAGUCACAAAAGUGA
miR-17-5p/20/93.mr/106/519.d	2001	2007	m8	hsa-miR-17-5p	CAAAGUGCUUACAGUGCAGGUAGU
				hsa-miR-20a^brain	UAAAGUGCUUAUAGUGCAGGUAG
				hsa-miR-106a	AAAAGUGCUUACAGUGCAGGUAGC
				hsa-miR-106b^SZ	UAAAGUGCUGACAGUGCAGAU
				hsa-miR-20b^SZ	CAAAGUGCUCAUAGUGCAGGUAG
				hsa-miR-519d	CAAAGUGCCUCCCUUUAGAGUGU
miR-19	1998	2004	m8	hsa-miR-19a	UGUGCAAAUCUAUGCAAAACUGA
miR-19	1998	2004	m8	hsa-miR-19b	UGUGCAAAUCCAUGCAAAACUGA
miR-205	1808	1814	m8	hsa-miR-205	UCCUUCAUUCCACCGGAGUCUG
miR-205	1808	1814	m8	hsa-miR-205	UCCUUCAUUCCACCGGAGUCUG
miR-26	2412	2419	1A,m8	hsa-miR-26a^brain	UUCAAGUAAUCCAGGAUAGGC
miR-26	2412	2419	1A,m8	hsa-miR-26b^SZ	UUCAAGUAAUUCAGGAUAGGUU
miR-328	2751	2757	m8	hsa-miR-328^brain	CUGGCCCUCUCUGCCCUUCCGU
miR-330	503	509	m8	hsa-miR-330^brain	GCAAAGCACACGGCCUGCAGAGA
miR-34/449	72	78	m8	hsa-miR-34a^brain	UGGCAGUGUCUUAGCUGGUUGUU
				hsa-miR-34c	AGGCAGUGUAGUUAGCUGAUUGC
				hsa-miR-449	UGGCAGUGUAUUGUUAGCUGGU
				hsa-miR-449b	AGGCAGUGUAUUGUUAGCUGGC
miR-377	2498	2505	1A,m8	hsa-miR-377	AUCACACAAAGGCAACUUUUGU
miR-448	2959	2965	1A	hsa-miR-448	UUGCAUAUGUAGGAUGUCCCAU
miR-7	2983	2989	1A	hsa-miR-7^SZ	UGGAAGACUAGUGAUUUUGUUG
miR-7	2983	2989	1A	hsa-miR-7^SZ	UGGAAGACUAGUGAUUUUGUUG

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: PLCB1