SZGR2

Summary ?

GeneID	6616
Symbol	SNAP25
Synonyms	CMS18\|RIC-4\|RIC4\|SEC9\|SNAP\|SNAP-25\|bA416N4.2\|dJ1068F16.2
Description	synaptosome associated protein 25kDa
Reference	MIM:600322\|HGNC:HGNC:11132\|Ensembl:ENSG00000132639\|HPRD:02637\|Vega:OTTHUMG00000031863
Gene type	protein-coding
Map location	20p12-p11.2
Pascal p-value	0.083
Sherlock p-value	0.651
Fetal beta	-3.912
DMG	1 (# studies)
Support	CANABINOID DOPAMINE EXOCYTOSIS METABOTROPIC GLUTAMATE RECEPTOR SEROTONIN G2Cdb.humanNRC G2Cdb.humanPSD G2Cdb.humanPSP CompositeSet Darnell 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
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.
GSMA_I	Genome scan meta-analysis	Psr: 0.046
Literature	High-throughput literature-search	Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophrenics,schizophrenias	Click to show details
GO_Annotation	Mapping neuro-related keywords to Gene Ontology annotations	Hits with neuro-related keywords: 8
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.0523

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg06433879	20	10200138	SNAP25	5.923E-4	-0.448	0.05	DMG:Wockner_2014

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
ARX	0.93	0.84
DLX2	0.88	0.82
DLX1	0.87	0.77
E2F2	0.85	0.70
DLX5	0.85	0.76
SPC24	0.85	0.62
SP9	0.84	0.83
AC018470.3	0.84	0.83
CDCA7	0.84	0.74
HJURP	0.84	0.67

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
C5orf53	-0.36	-0.65
HLA-F	-0.34	-0.56
AF347015.31	-0.34	-0.68
S100B	-0.34	-0.63
AF347015.27	-0.34	-0.66
MT-CO2	-0.33	-0.69
AF347015.33	-0.33	-0.66
PTGDS	-0.33	-0.56
CA4	-0.33	-0.55
TINAGL1	-0.33	-0.52

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005515	protein binding	IPI		8692999 \|11438518
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007269	neurotransmitter secretion	NAS	neuron, axon, Synap, serotonin, Neurotransmitter, dopamine (GO term level: 8)	-
GO:0007268	synaptic transmission	NAS	neuron, Synap, Neurotransmitter (GO term level: 6)	8760387
GO:0016081	synaptic vesicle docking during exocytosis	NAS	Synap (GO term level: 10)	8760387
GO:0001504	neurotransmitter uptake	NAS	neuron, Cholinergic, Synap, Neurotransmitter, Glial (GO term level: 8)	8760387
GO:0050796	regulation of insulin secretion	TAS		15537656
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0043005	neuron projection	ISS	neuron, axon, neurite, dendrite (GO term level: 5)	-
GO:0031201	SNARE complex	ISS	neuron, Synap (GO term level: 6)	-
GO:0019717	synaptosome	IEA	Synap, Brain (GO term level: 7)	-
GO:0030426	growth cone	ISS	axon, dendrite (GO term level: 5)	-
GO:0045202	synapse	IEA	neuron, Synap, Neurotransmitter, Glial (GO term level: 2)	-
GO:0016020	membrane	IEA		-
GO:0030054	cell junction	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
CPLX1	CPX-I \| CPX1	complexin 1	Co-crystal Structure Reconstituted Complex	BioGRID	11832227 \|12200427
DNM1	DNM	dynamin 1	-	HPRD	10373452
GOSR1	GOLIM2 \| GOS-28 \| GOS28 \| GOS28/P28 \| GS28 \| P28	golgi SNAP receptor complex member 1	Reconstituted Complex	BioGRID	9325254
HGS	HRS \| ZFYVE8	hepatocyte growth factor-regulated tyrosine kinase substrate	-	HPRD	10825299 \|11493665\|11493665
HGS	HRS \| ZFYVE8	hepatocyte growth factor-regulated tyrosine kinase substrate	-	HPRD	11493665
ITSN1	ITSN \| MGC134948 \| MGC134949 \| SH3D1A \| SH3P17	intersectin 1 (SH3 domain protein)	-	HPRD,BioGRID	10373452
KCNB1	DRK1 \| KV2.1 \| h-DRK1	potassium voltage-gated channel, Shab-related subfamily, member 1	-	HPRD,BioGRID	12403834
KIF5B	KINH \| KNS \| KNS1 \| UKHC	kinesin family member 5B	-	HPRD,BioGRID	12475239
NAPA	SNAPA	N-ethylmaleimide-sensitive factor attachment protein, alpha	Reconstituted Complex	BioGRID	7622514
PRRT2	DKFZp547J199 \| FLJ25513	proline-rich transmembrane protein 2	Two-hybrid	BioGRID	16169070
SCAMP1	SCAMP \| SCAMP37	secretory carrier membrane protein 1	Reconstituted Complex	BioGRID	10777571
SNAPIN	SNAPAP	SNAP-associated protein	-	HPRD,BioGRID	10195194
SNAPIN	SNAPAP	SNAP-associated protein	SNAP25 interacts with Snapin.	BIND	15635093
SNIP	KIAA1684	SNAP25-interacting protein	-	HPRD,BioGRID	10625663
STX11	FHL4 \| HLH4 \| HPLH4	syntaxin 11	Two-hybrid	BioGRID	16169070 \|16189514
STX12	MGC51957 \| STX13 \| STX14	syntaxin 12	-	HPRD,BioGRID	10886332
STX1A	HPC-1 \| STX1 \| p35-1	syntaxin 1A (brain)	-	HPRD	7622514 \|7768895 \|9556632 \|10373452 \|11509230\|10954418
STX1A	HPC-1 \| STX1 \| p35-1	syntaxin 1A (brain)	-	HPRD	7622514 \|9556632\|10954418
STX1A	HPC-1 \| STX1 \| p35-1	syntaxin 1A (brain)	Affinity Capture-Western Co-crystal Structure Reconstituted Complex Two-hybrid	BioGRID	7553862 \|7768895 \|7961655 \|8663154 \|9852078 \|10195194 \|10449403 \|10954418 \|11524423 \|11832227 \|16169070
STX2	EPIM \| EPM \| MGC51014 \| STX2A \| STX2B \| STX2C	syntaxin 2	-	HPRD,BioGRID	7768895
STX3	STX3A	syntaxin 3	-	HPRD,BioGRID	7768895
STX4	STX4A \| p35-2	syntaxin 4	-	HPRD	8760387
STX4	STX4A \| p35-2	syntaxin 4	Affinity Capture-Western Reconstituted Complex Two-hybrid	BioGRID	7768895 \|8663154 \|9852078 \|10194441
STX5	SED5 \| STX5A	syntaxin 5	Reconstituted Complex	BioGRID	9325254
STXBP1	EIEE4 \| MUNC18-1 \| UNC18 \| hUNC18 \| rbSec1	syntaxin binding protein 1	-	HPRD	9395480
STXBP6	FLJ39638 \| HSPC156 \| amisyn	syntaxin binding protein 6 (amisyn)	-	HPRD	12145319
SYT1	DKFZp781D2042 \| P65 \| SVP65 \| SYT	synaptotagmin I	-	HPRD,BioGRID	10692432
SYT3	DKFZp761O132 \| SytIII	synaptotagmin III	-	HPRD,BioGRID	10692432
SYT9	FLJ45896	synaptotagmin IX	-	HPRD	12062043
TRIM9	KIAA0282 \| RNF91 \| SPRING	tripartite motif-containing 9	-	HPRD,BioGRID	11524423
UNC13B	MGC133279 \| MGC133280 \| MUNC13 \| UNC13 \| Unc13h2 \| hmunc13	unc-13 homolog B (C. elegans)	Co-fractionation	BioGRID	8999968
VAMP2	FLJ11460 \| SYB2 \| VAMP-2	vesicle-associated membrane protein 2 (synaptobrevin 2)	-	HPRD	7961655
VAMP2	FLJ11460 \| SYB2 \| VAMP-2	vesicle-associated membrane protein 2 (synaptobrevin 2)	Affinity Capture-Western Co-crystal Structure Far Western Reconstituted Complex Two-hybrid	BioGRID	9030619 \|11524423 \|11832227
VAMP7	SYBL1 \| TI-VAMP \| VAMP-7	vesicle-associated membrane protein 7	-	HPRD,BioGRID	12853575
VAMP8	EDB	vesicle-associated membrane protein 8 (endobrevin)	-	HPRD	10336434

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG SNARE INTERACTIONS IN VESICULAR TRANSPORT	38	25	All SZGR 2.0 genes in this pathway
REACTOME BOTULINUM NEUROTOXICITY	19	14	All SZGR 2.0 genes in this pathway
REACTOME PROTEOLYTIC CLEAVAGE OF SNARE COMPLEX PROTEINS	17	12	All SZGR 2.0 genes in this pathway
REACTOME GLUTAMATE NEUROTRANSMITTER RELEASE CYCLE	15	13	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 NEUROTRANSMITTER RELEASE CYCLE	34	30	All SZGR 2.0 genes in this pathway
REACTOME INTEGRATION OF ENERGY METABOLISM	120	84	All SZGR 2.0 genes in this pathway
REACTOME DOPAMINE NEUROTRANSMITTER RELEASE CYCLE	11	11	All SZGR 2.0 genes in this pathway
REACTOME ACETYLCHOLINE NEUROTRANSMITTER RELEASE CYCLE	10	9	All SZGR 2.0 genes in this pathway
REACTOME DIABETES PATHWAYS	133	91	All SZGR 2.0 genes in this pathway
REACTOME NOREPINEPHRINE NEUROTRANSMITTER RELEASE CYCLE	10	10	All SZGR 2.0 genes in this pathway
REACTOME INSULIN SYNTHESIS AND PROCESSING	21	15	All SZGR 2.0 genes in this pathway
REACTOME REGULATION OF INSULIN SECRETION	93	65	All SZGR 2.0 genes in this pathway
REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION	17	16	All SZGR 2.0 genes in this pathway
JAEGER METASTASIS UP	44	23	All SZGR 2.0 genes in this pathway
UDAYAKUMAR MED1 TARGETS DN	240	171	All SZGR 2.0 genes in this pathway
LEE NEURAL CREST STEM CELL UP	146	99	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA ANAPLASTIC UP	722	443	All SZGR 2.0 genes in this pathway
HAMAI APOPTOSIS VIA TRAIL UP	584	356	All SZGR 2.0 genes in this pathway
WATTEL AUTONOMOUS THYROID ADENOMA UP	73	47	All SZGR 2.0 genes in this pathway
LIAO METASTASIS	539	324	All SZGR 2.0 genes in this pathway
AMIT EGF RESPONSE 20 HELA	11	8	All SZGR 2.0 genes in this pathway
ROZANOV MMP14 TARGETS UP	266	171	All SZGR 2.0 genes in this pathway
NELSON RESPONSE TO ANDROGEN UP	86	61	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN	1237	837	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
LEIN NEURON MARKERS	69	45	All SZGR 2.0 genes in this pathway
WANG LSD1 TARGETS DN	39	30	All SZGR 2.0 genes in this pathway
KONDO PROSTATE CANCER HCP WITH H3K27ME3	97	72	All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS SILENCED BY METHYLATION UP	461	298	All SZGR 2.0 genes in this pathway
VICENT METASTASIS UP	14	11	All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS UP	1305	895	All SZGR 2.0 genes in this pathway
RUIZ TNC TARGETS UP	153	107	All SZGR 2.0 genes in this pathway
MIKKELSEN MEF HCP WITH H3K27ME3	590	403	All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS CALB1 CORR UP	548	370	All SZGR 2.0 genes in this pathway
PURBEY TARGETS OF CTBP1 NOT SATB1 UP	344	215	All SZGR 2.0 genes in this pathway
DELACROIX RAR BOUND ES	462	273	All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4 ISOFORM A	182	108	All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY	1725	838	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-1/206	360	367	1A,m8	hsa-miR-1	UGGAAUGUAAAGAAGUAUGUA
				hsa-miR-206^SZ	UGGAAUGUAAGGAAGUGUGUGG
				hsa-miR-613	AGGAAUGUUCCUUCUUUGCC
miR-128	354	360	1A	hsa-miR-128a	UCACAGUGAACCGGUCUCUUUU
				hsa-miR-128b	UCACAGUGAACCGGUCUCUUUC
				hsa-miR-128a	UCACAGUGAACCGGUCUCUUUU
				hsa-miR-128b	UCACAGUGAACCGGUCUCUUUC
miR-130/301	498	505	1A,m8	hsa-miR-130a^brain	CAGUGCAAUGUUAAAAGGGCAU
				hsa-miR-301	CAGUGCAAUAGUAUUGUCAAAGC
				hsa-miR-130b^brain	CAGUGCAAUGAUGAAAGGGCAU
				hsa-miR-454-3p	UAGUGCAAUAUUGCUUAUAGGGUUU
miR-138	692	698	1A	hsa-miR-138^brain	AGCUGGUGUUGUGAAUC
miR-153	1022	1028	m8	hsa-miR-153	UUGCAUAGUCACAAAAGUGA
miR-200bc/429	661	667	m8	hsa-miR-200b	UAAUACUGCCUGGUAAUGAUGAC
				hsa-miR-200c	UAAUACUGCCGGGUAAUGAUGG
				hsa-miR-429	UAAUACUGUCUGGUAAAACCGU
				hsa-miR-200b	UAAUACUGCCUGGUAAUGAUGAC
				hsa-miR-200c	UAAUACUGCCGGGUAAUGAUGG
				hsa-miR-429	UAAUACUGUCUGGUAAAACCGU
miR-27	1103	1109	m8	hsa-miR-27a^brain	UUCACAGUGGCUAAGUUCCGC
				hsa-miR-27b^brain	UUCACAGUGGCUAAGUUCUGC
				hsa-miR-27a^brain	UUCACAGUGGCUAAGUUCCGC
				hsa-miR-27b^brain	UUCACAGUGGCUAAGUUCUGC
miR-342	1105	1111	1A	hsa-miR-342^brain	UCUCACACAGAAAUCGCACCCGUC
miR-361	1055	1061	1A	hsa-miR-361^brain	UUAUCAGAAUCUCCAGGGGUAC

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: SNAP25