SZGR2

Summary ?

GeneID	5126
Symbol	PCSK2
Synonyms	NEC 2\|NEC-2\|NEC2\|PC2\|SPC2
Description	proprotein convertase subtilisin/kexin type 2
Reference	MIM:162151\|HGNC:HGNC:8744\|Ensembl:ENSG00000125851\|HPRD:01202\|Vega:OTTHUMG00000031941
Gene type	protein-coding
Map location	20p11.2
Pascal p-value	0.087
Sherlock p-value	0.728
Fetal beta	-2.396
DMG	1 (# studies)
Support	NEUROTROPHIN SIGNALING

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:GWASdb	Genome-wide Association Studies	GWASdb records for schizophrenia
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
GSMA_I	Genome scan meta-analysis	Psr: 0.046
GO_Annotation	Mapping neuro-related keywords to Gene Ontology annotations	Hits with neuro-related keywords: 2

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg02706653	20	17208584	PCSK2	7.21E-10	-0.022	9.89E-7	DMG:Jaffe_2016

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
TJAP1	0.78	0.79
DNHD1	0.77	0.80
PHLDB1	0.72	0.70
KIAA1755	0.71	0.62
TBC1D2	0.70	0.72
PLEKHG3	0.69	0.64
SLC45A3	0.68	0.68
CC2D1B	0.68	0.71
MYO15B	0.68	0.66
MYO15B	0.67	0.69

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
CARD16	-0.37	-0.35
CAPZA2	-0.36	-0.36
BRP44	-0.36	-0.40
SNX3	-0.34	-0.33
NGB	-0.34	-0.36
COMMD7	-0.34	-0.35
GPR160	-0.34	-0.38
PPEF1	-0.32	-0.24
B4GALT2	-0.32	-0.30
NPPA	-0.31	-0.31

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0004252	serine-type endopeptidase activity	IEA	glutamate (GO term level: 7)	-
GO:0005515	protein binding	IPI		7913882
GO:0008233	peptidase activity	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007399	nervous system development	IEA	neurite (GO term level: 5)	-
GO:0006508	proteolysis	IEA		-
GO:0034230	enkephalin processing	ISS		-
GO:0034231	islet amyloid polypeptide processing	ISS		-
GO:0016540	protein autoprocessing	IEA		-
GO:0030070	insulin processing	IDA		7626024
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005615	extracellular space	IDA		9020868
GO:0005625	soluble fraction	IDA		8034613
GO:0016020	membrane	IDA		8034613
GO:0031410	cytoplasmic vesicle	IEA		-

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
REACTOME DIABETES PATHWAYS	133	91	All SZGR 2.0 genes in this pathway
REACTOME INSULIN SYNTHESIS AND PROCESSING	21	15	All SZGR 2.0 genes in this pathway
JAEGER METASTASIS DN	258	141	All SZGR 2.0 genes in this pathway
DELYS THYROID CANCER UP	443	294	All SZGR 2.0 genes in this pathway
WATTEL AUTONOMOUS THYROID ADENOMA UP	73	47	All SZGR 2.0 genes in this pathway
GARCIA TARGETS OF FLI1 AND DAX1 DN	176	104	All SZGR 2.0 genes in this pathway
BENPORATH ES WITH H3K27ME3	1118	744	All SZGR 2.0 genes in this pathway
ASTON MAJOR DEPRESSIVE DISORDER DN	160	110	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN	1237	837	All SZGR 2.0 genes in this pathway
WANG LSD1 TARGETS DN	39	30	All SZGR 2.0 genes in this pathway
RIGGI EWING SARCOMA PROGENITOR UP	430	288	All SZGR 2.0 genes in this pathway
MASRI RESISTANCE TO TAMOXIFEN AND AROMATASE INHIBITORS DN	20	11	All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR DN	546	362	All SZGR 2.0 genes in this pathway
LIN NPAS4 TARGETS UP	163	100	All SZGR 2.0 genes in this pathway
MIKKELSEN NPC HCP WITH H3K4ME3 AND H3K27ME3	210	148	All SZGR 2.0 genes in this pathway
ROLEF GLIS3 TARGETS	37	29	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-138	706	712	m8	hsa-miR-138^brain	AGCUGGUGUUGUGAAUC
miR-200bc/429	2288	2295	1A,m8	hsa-miR-200b	UAAUACUGCCUGGUAAUGAUGAC
				hsa-miR-200c	UAAUACUGCCGGGUAAUGAUGG
				hsa-miR-429	UAAUACUGUCUGGUAAAACCGU
miR-203.1	1760	1766	1A	hsa-miR-203	UGAAAUGUUUAGGACCACUAG
miR-299-5p	1711	1717	1A	hsa-miR-299-5p	UGGUUUACCGUCCCACAUACAU
miR-329	1924	1930	1A	hsa-miR-329^brain	AACACACCUGGUUAACCUCUUU
miR-9	1787	1793	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: PCSK2