Gene Page:VAC14

Summary?
GeneID 55697
Symbol VAC14
Synonyms ArPIKfyve|TAX1BP2|TRX
Description Vac14 homolog (S. cerevisiae)
Reference MIM:604632|HGNC:HGNC:25507|Ensembl:ENSG00000103043|HPRD:07660|Vega:OTTHUMG00000137583
Gene type protein-coding
Map location 16q22.1
Pascal p-value 0.1
Sherlock p-value 0.029
Fetal beta -0.426
DMG 1 (# studies)
eGene Myers' cis & trans

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

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg05547993 16 70835035 VAC14 2.72E-9 -0.013 1.95E-6 DMG:Jaffe_2016

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs4526604 chr1 42182143 VAC14 55697 0.02 trans
rs710235 chr1 42202713 VAC14 55697 0.02 trans
rs4284254 chr1 42213075 VAC14 55697 0.02 trans
rs12495201 chr3 112896372 VAC14 55697 0.15 trans

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
死神:胎儿(13 - 26 postconception凌晨ks), 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
PML 0.93 0.89
FSCN1 0.90 0.88
C17orf62 0.89 0.90
IRF2BP2 0.89 0.85
THAP11 0.89 0.91
C7orf13 0.89 0.88
ZNF574 0.89 0.89
var 0.89 0.86
FIZ1 0.88 0.88
RBM14 0.88 0.91
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
AF347015.27 -0.61 -0.78
C5orf53 -0.61 -0.70
AF347015.31 -0.60 -0.75
MT-CO2 -0.60 -0.77
AF347015.33 -0.59 -0.76
AF347015.8 -0.59 -0.78
MT-CYB -0.57 -0.75
AF347015.21 -0.57 -0.82
COPZ2 -0.56 -0.67
S100B -0.56 -0.71

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
REACTOME SYNTHESIS OF PIPS AT THE EARLY ENDOSOME MEMBRANE 12 8 All SZGR 2.0 genes in this pathway
REACTOME SYNTHESIS OF PIPS AT THE GOLGI MEMBRANE 17 10 All SZGR 2.0 genes in this pathway
REACTOME PHOSPHOLIPID METABOLISM 198 112 All SZGR 2.0 genes in this pathway
REACTOME SYNTHESIS OF PIPS AT THE LATE ENDOSOME MEMBRANE 10 7 All SZGR 2.0 genes in this pathway
REACTOME PI METABOLISM 48 34 All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF LIPIDS AND LIPOPROTEINS 478 302 All SZGR 2.0 genes in this pathway
FULCHER INFLAMMATORY RESPONSE LECTIN VS LPS UP 579 346 All SZGR 2.0 genes in this pathway
SENESE HDAC3 TARGETS DN 536 332 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 16HR UP 225 139 All SZGR 2.0 genes in this pathway
KIM GASTRIC CANCER CHEMOSENSITIVITY 103 64 All SZGR 2.0 genes in this pathway
BONOME OVARIAN CANCER SURVIVAL SUBOPTIMAL DEBULKING 510 309 All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE 1137 655 All SZGR 2.0 genes in this pathway
RATTENBACHER BOUND BY CELF1 467 251 All SZGR 2.0 genes in this pathway