Gene Page: SNAPC2

Summary ?
GeneID6618
SymbolSNAPC2
SynonymsPTFDELTA|SNAP45
Descriptionsmall nuclear RNA activating complex polypeptide 2
ReferenceMIM:605076|HGNC:HGNC:11135|Ensembl:ENSG00000104976|HPRD:05464|Vega:OTTHUMG00000182456
Gene typeprotein-coding
Map location19p13
Pascal p-value0.046
Sherlock p-value0.446
Fetal beta-0.241
DMG1 (# studies)
eGeneMyers' cis & trans
Meta

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Wockner_2014Genome-wide DNA methylation analysisThis dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 1

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg08550729197987986SNAPC25.116E-40.3750.047DMG:Wockner_2014

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs4497566chr1351694324SNAPC266180.14trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

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
GenePearson's Correlation Spearman's Correlation
EOMES0.880.56
NHLH10.870.41
TFAP2C0.860.56
DMRTA20.860.51
GPC40.850.50
LRIG30.840.48
VIM0.830.60
COL4A60.820.59
ITGA20.820.38
FZD80.820.63
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
C5orf53-0.32-0.37
ASPHD1-0.32-0.28
CCNI2-0.32-0.39
LGI4-0.32-0.04
HLA-F-0.32-0.25
FBXO2-0.32-0.26
ADAP1-0.31-0.22
PTH1R-0.31-0.25
SLC9A3R2-0.31-0.14
TINAGL1-0.30-0.27

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
REACTOME RNA POL III TRANSCRIPTION 3318All SZGR 2.0 genes in this pathway
REACTOME TRANSCRIPTION 210127All SZGR 2.0 genes in this pathway
REACTOME RNA POL I RNA POL III AND MITOCHONDRIAL TRANSCRIPTION 12280All SZGR 2.0 genes in this pathway
REACTOME RNA POL III TRANSCRIPTION INITIATION FROM TYPE 3 PROMOTER 2613All SZGR 2.0 genes in this pathway
CHIARADONNA NEOPLASTIC TRANSFORMATION CDC25 DN 153100All SZGR 2.0 genes in this pathway
HAMAI APOPTOSIS VIA TRAIL DN 186107All SZGR 2.0 genes in this pathway
TSAI RESPONSE TO IONIZING RADIATION 149101All SZGR 2.0 genes in this pathway
STARK PREFRONTAL CORTEX 22Q11 DELETION DN 517309All SZGR 2.0 genes in this pathway
SANSOM APC TARGETS UP 12684All SZGR 2.0 genes in this pathway
MOREAUX MULTIPLE MYELOMA BY TACI UP 412249All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS EARLY PROGENITOR 532309All SZGR 2.0 genes in this pathway
WANG CISPLATIN RESPONSE AND XPC DN 228146All SZGR 2.0 genes in this pathway
MEDINA SMARCA4 TARGETS 4429All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP 16911088All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 12 7954All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY 1725838All SZGR 2.0 genes in this pathway