SZGR2

Summary ?

GeneID	9806
Symbol	SPOCK2
Synonyms	testican-2
Description	sparc/osteonectin, cwcv and kazal-like domains proteoglycan (testican) 2
Reference	MIM:607988\|HGNC:HGNC:13564\|Ensembl:ENSG00000107742\|HPRD:12146\|Vega:OTTHUMG00000018430
Gene type	protein-coding
Map location	10pter-q25.3
Pascal p-value	0.034
Sherlock p-value	0.015
Fetal beta	-3.603
DMG	1 (# studies)
eGene	Cerebellar Hemisphere Cerebellum

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
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
cg09661010	10	73848153	SPOCK2	3.45E-8	-0.013	1.02E-5	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
CUL1	0.95	0.95
CLPX	0.94	0.94
FBXO11	0.93	0.95
STRN3	0.93	0.94
ZC3H14	0.93	0.94
CUL3	0.93	0.94
YME1L1	0.92	0.94
FBXO38	0.92	0.92
ELP3	0.92	0.91
LSG1	0.92	0.93

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
MT-CO2	-0.82	-0.85
AF347015.31	-0.81	-0.84
IFI27	-0.79	-0.84
AF347015.21	-0.79	-0.82
HIGD1B	-0.78	-0.81
MT-CYB	-0.78	-0.80
AF347015.8	-0.78	-0.82
FXYD1	-0.77	-0.82
AF347015.33	-0.77	-0.80
AF347015.27	-0.76	-0.80

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005509	calcium ion binding	IDA		10386950
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007416	synaptogenesis	NAS	Synap (GO term level: 6)	10386950
GO:0030198	extracellular matrix organization	NAS		10386950
GO:0045595	regulation of cell differentiation	NAS		10386950
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005576	extracellular region	IEA		-
GO:0005578	proteinaceous extracellular matrix	NAS		10386950

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
DAVICIONI TARGETS OF PAX FOXO1 FUSIONS DN	68	49	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS 8HR DN	129	84	All SZGR 2.0 genes in this pathway
WAMUNYOKOLI OVARIAN CANCER LMP DN	199	124	All SZGR 2.0 genes in this pathway
DELYS THYROID CANCER UP	443	294	All SZGR 2.0 genes in this pathway
CHEBOTAEV GR TARGETS UP	77	62	All SZGR 2.0 genes in this pathway
KANG GIST WITH PDGFRA UP	50	27	All SZGR 2.0 genes in this pathway
HATADA METHYLATED IN LUNG CANCER UP	390	236	All SZGR 2.0 genes in this pathway
BENPORATH SUZ12 TARGETS	1038	678	All SZGR 2.0 genes in this pathway
STARK PREFRONTAL CORTEX 22Q11 DELETION UP	195	138	All SZGR 2.0 genes in this pathway
LEE TARGETS OF PTCH1 AND SUFU DN	83	69	All SZGR 2.0 genes in this pathway
CHEOK RESPONSE TO MERCAPTOPURINE DN	22	15	All SZGR 2.0 genes in this pathway
PENG RAPAMYCIN RESPONSE UP	203	130	All SZGR 2.0 genes in this pathway
FERRANDO T ALL WITH MLL ENL FUSION UP	87	67	All SZGR 2.0 genes in this pathway
MCCLUNG COCAINE REWARD 5D	79	62	All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL AND PROGENITOR	681	420	All SZGR 2.0 genes in this pathway
BAELDE DIABETIC NEPHROPATHY DN	434	302	All SZGR 2.0 genes in this pathway
GAVIN FOXP3 TARGETS CLUSTER P3	160	103	All SZGR 2.0 genes in this pathway
ZHANG GATA6 TARGETS DN	64	46	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
SWEET LUNG CANCER KRAS DN	435	289	All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3K4ME2	491	319	All SZGR 2.0 genes in this pathway
GUTIERREZ CHRONIC LYMPHOCYTIC LEUKEMIA DN	56	39	All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 7	76	46	All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS OLIGODENDROCYTE NUMBER CORR UP	756	494	All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS UP	745	475	All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS DN	784	464	All SZGR 2.0 genes in this pathway
PEDRIOLI MIR31 TARGETS DN	418	245	All SZGR 2.0 genes in this pathway
ACEVEDO FGFR1 TARGETS IN PROSTATE CANCER MODEL DN	308	187	All SZGR 2.0 genes in this pathway
NABA PROTEOGLYCANS	35	23	All SZGR 2.0 genes in this pathway
NABA CORE MATRISOME	275	148	All SZGR 2.0 genes in this pathway
NABA MATRISOME	1028	559	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	2925	2931	m8	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
miR-124/506	2925	2931	m8	hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-141/200a	3484	3490	1A	hsa-miR-141	UAACACUGUCUGGUAAAGAUGG
miR-141/200a	3484	3490	1A	hsa-miR-200a	UAACACUGUCUGGUAACGAUGU
miR-142-5p	3712	3719	1A,m8	hsa-miR-142-5p	CAUAAAGUAGAAAGCACUAC
miR-26	2168	2175	1A,m8	hsa-miR-26a^brain	UUCAAGUAAUCCAGGAUAGGC
miR-26	2168	2175	1A,m8	hsa-miR-26b^SZ	UUCAAGUAAUUCAGGAUAGGUU
miR-543	3681	3687	1A	hsa-miR-543	AAACAUUCGCGGUGCACUUCU

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: SPOCK2