Gene Page:VAV3

Summary?
GeneID 10451
Symbol VAV3
Synonyms -
Description vav guanine nucleotide exchange factor 3
Reference MIM:605541|HGNC:HGNC:12659|Ensembl:ENSG00000134215|HPRD:05706|Vega:OTTHUMG00000010995
Gene type protein-coding
Map location 1p13.3
Pascal p-value 0.006
Sherlock p-value 0.65
Fetal beta -0.951
DMG 1 (# studies)
eGene Myers' cis & trans

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
PMID:cooccur High-throughput literature-search Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
Literature High-throughput literature-search 与精神分裂症Co-occurance关键词:schizophrenia,schizophrenic,schizophrenias Click to show details

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg24662718 1 108507468 VAV3 6.04E-9 -0.015 3.21E-6 DMG:Jaffe_2016

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs10784054 chr12 60822443 VAV3 10451 0.09 trans
rs11634764 chr15 54638663 VAV3 10451 0.17 trans
rs953994 chr15 54679345 VAV3 10451 0.07 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
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
NDUFS2 0.88 0.83
HARS 0.88 0.84
IDH3B 0.87 0.82
GRPEL1 0.86 0.78
PSMD7 0.85 0.81
NDUFA10 0.84 0.76
PSMC5 0.84 0.81
SARS 0.83 0.75
FARSA 0.82 0.75
VPS4A 0.82 0.75
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
AF347015.21 -0.71 -0.53
AF347015.8 -0.66 -0.53
MT-CO2 -0.66 -0.52
AF347015.18 -0.65 -0.50
AF347015.2 -0.65 -0.54
AF347015.31 -0.65 -0.55
AF347015.33 -0.63 -0.51
AF347015.27 -0.62 -0.55
AF347015.26 -0.62 -0.51
MT-ATP8 -0.61 -0.52

Section IV. Protein-protein interaction annotation

Interactors Aliases B Official full name B Experimental Source PubMed ID
EGFR ERBB | ERBB1 | HER1 | PIG61 | mENA epidermal growth factor receptor (erythroblastic leukemia viral (v-erb-b) oncogene homolog, avian) Affinity Capture-Western BioGRID 10938113
EGFR ERBB | ERBB1 | HER1 | PIG61 | mENA epidermal growth factor receptor (erythroblastic leukemia viral (v-erb-b) oncogene homolog, avian) - HPRD 11094073
GRB2 ASH | EGFRBP-GRB2 | Grb3-3 | MST084 | MSTP084 growth factor receptor-bound protein 2 - HPRD,BioGRID 11094073
IGF1R CD221 | IGFIR | JTK13 | MGC142170 | MGC142172 | MGC18216 insulin-like growth factor 1 receptor - HPRD,BioGRID 11094073
INSR CD220 | HHF5 insulin receptor - HPRD,BioGRID 11094073
PDGFRB CD140B | JTK12 | PDGF-R-beta | PDGFR | PDGFR1 platelet-derived growth factor receptor, beta polypeptide Affinity Capture-Western BioGRID 10938113
PIK3R1 GRB1 | p85 | p85-ALPHA phosphoinositide-3-kinase, regulatory subunit 1 (alpha) - HPRD 11094073
PLCG1 PLC-II | PLC1 | PLC148 | PLCgamma1 phospholipase C, gamma 1 - HPRD 11094073
RAC1 MGC111543 | MIG5 | TC-25 | p21-Rac1 ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1) - HPRD,BioGRID 10523675
RHOA ARH12 | ARHA | RHO12 | RHOH12 ras homolog gene family, member A - HPRD,BioGRID 10523675
RHOG ARHG | MGC125835 | MGC125836 ras homolog gene family, member G (rho G) - HPRD,BioGRID 10523675
ROS1 MCF3 | ROS | c-ros-1 c-ros oncogene 1 , receptor tyrosine kinase - HPRD,BioGRID 11094073
SHC1 FLJ26504 | SHC | SHCA SHC (Src homology 2 domain containing) transforming protein 1 - HPRD,BioGRID 11094073
ZYX ESP-2 | HED-2 zyxin - HPRD 8622875


Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
KEGG CHEMOKINE SIGNALING PATHWAY 190 128 All SZGR 2.0 genes in this pathway
KEGG FOCAL ADHESION 201 138 All SZGR 2.0 genes in this pathway
KEGG NATURAL KILLER CELL MEDIATED CYTOTOXICITY 137 92 All SZGR 2.0 genes in this pathway
KEGG T CELL RECEPTOR SIGNALING PATHWAY 108 89 All SZGR 2.0 genes in this pathway
KEGG B CELL RECEPTOR SIGNALING PATHWAY 75 56 All SZGR 2.0 genes in this pathway
KEGG FC EPSILON RI SIGNALING PATHWAY 79 58 All SZGR 2.0 genes in this pathway
KEGG FC GAMMA R MEDIATED PHAGOCYTOSIS 97 71 All SZGR 2.0 genes in this pathway
KEGG LEUKOCYTE TRANSENDOTHELIAL MIGRATION 118 78 All SZGR 2.0 genes in this pathway
KEGG REGULATION OF ACTIN CYTOSKELETON 216 144 All SZGR 2.0 genes in this pathway
SA B CELL RECEPTOR COMPLEXES 24 20 All SZGR 2.0 genes in this pathway
PID AR PATHWAY 61 46 All SZGR 2.0 genes in this pathway
PID AVB3 OPN PATHWAY 31 29 All SZGR 2.0 genes in this pathway
PID RHOA REG PATHWAY 46 30 All SZGR 2.0 genes in this pathway
PID CDC42 REG PATHWAY 30 22 All SZGR 2.0 genes in this pathway
PID AVB3 INTEGRIN PATHWAY 75 53 All SZGR 2.0 genes in this pathway
PID EPHA FWDPATHWAY 34 29 All SZGR 2.0 genes in this pathway
PID RAC1 REG PATHWAY 38 25 All SZGR 2.0 genes in this pathway
PID EPHA2 FWD PATHWAY 19 16 All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY RHO GTPASES 113 81 All SZGR 2.0 genes in this pathway
REACTOME SIGNALLING BY NGF 217 167 All SZGR 2.0 genes in this pathway
REACTOME NRAGE SIGNALS DEATH THROUGH JNK 43 33 All SZGR 2.0 genes in this pathway
REACTOME CELL DEATH SIGNALLING VIA NRAGE NRIF AND NADE 60 43 All SZGR 2.0 genes in this pathway
REACTOME P75 NTR RECEPTOR MEDIATED SIGNALLING 81 61 All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY GPCR 920 449 All SZGR 2.0 genes in this pathway
REACTOME GPVI MEDIATED ACTIVATION CASCADE 31 25 All SZGR 2.0 genes in this pathway
REACTOME G ALPHA1213 SIGNALLING EVENTS 74 56 All SZGR 2.0 genes in this pathway
REACTOME GPCR DOWNSTREAM SIGNALING 805 368 All SZGR 2.0 genes in this pathway
REACTOME HEMOSTASIS 466 331 All SZGR 2.0 genes in this pathway
REACTOME PLATELET ACTIVATION SIGNALING AND AGGREGATION 208 138 All SZGR 2.0 genes in this pathway
LIU PROSTATE CANCER DN 481 290 All SZGR 2.0 genes in this pathway
SCHUETZ BREAST CANCER DUCTAL INVASIVE DN 84 53 All SZGR 2.0 genes in this pathway
WATANABE COLON CANCER MSI VS MSS DN 81 42 All SZGR 2.0 genes in this pathway
DAVICIONI TARGETS OF PAX FOXO1 FUSIONS UP 255 177 All SZGR 2.0 genes in this pathway
DAVICIONI RHABDOMYOSARCOMA PAX FOXO1 FUSION UP 64 37 All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE LIVE DN 384 220 All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP 1382 904 All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS MESENCHYMAL UP 450 256 All SZGR 2.0 genes in this pathway
DOANE BREAST CANCER ESR1 UP 112 72 All SZGR 2.0 genes in this pathway
BASAKI YBX1 TARGETS DN 384 230 All SZGR 2.0 genes in this pathway
MULLIGHAN MLL SIGNATURE 2 DN 281 186 All SZGR 2.0 genes in this pathway
JAATINEN HEMATOPOIETIC STEM CELL UP 316 190 All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN 781 465 All SZGR 2.0 genes in this pathway
HAHTOLA SEZARY SYNDROM DN 42 26 All SZGR 2.0 genes in this pathway
COLDREN GEFITINIB RESISTANCE DN 230 115 All SZGR 2.0 genes in this pathway
ENK UV RESPONSE EPIDERMIS DN 508 354 All SZGR 2.0 genes in this pathway
CHEBOTAEV GR TARGETS DN 120 73 All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN 1781 1082 All SZGR 2.0 genes in this pathway
DN GAUSSMANN MLL AF4融合目标 90 61 All SZGR 2.0 genes in this pathway
HAMAI APOPTOSIS VIA TRAIL DN 186 107 All SZGR 2.0 genes in this pathway
BEGUM TARGETS OF PAX3 FOXO1 FUSION UP 60 45 All SZGR 2.0 genes in this pathway
TSUNODA CISPLATIN RESISTANCE UP 15 7 All SZGR 2.0 genes in this pathway
LIEN BREAST CARCINOMA METAPLASTIC VS DUCTAL DN 114 58 All SZGR 2.0 genes in this pathway
CAFFAREL RESPONSE TO THC 24HR 5 UP 34 23 All SZGR 2.0 genes in this pathway
BENPORATH ES WITH H3K27ME3 1118 744 All SZGR 2.0 genes in this pathway
HEDENFALK BREAST CANCER BRCA1 VS BRCA2 163 113 All SZGR 2.0 genes in this pathway
RIGGINS TAMOXIFEN RESISTANCE DN 220 147 All SZGR 2.0 genes in this pathway
SARRIO EPITHELIAL MESENCHYMAL TRANSITION DN 154 101 All SZGR 2.0 genes in this pathway
OUYANG PROSTATE CANCER MARKERS 19 16 All SZGR 2.0 genes in this pathway
SMID BREAST CANCER RELAPSE IN BRAIN DN 85 58 All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL DN 701 446 All SZGR 2.0 genes in this pathway
BLUM RESPONSE TO SALIRASIB DN 342 220 All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA C D DN 252 155 All SZGR 2.0 genes in this pathway
VANTVEER BREAST CANCER ESR1 UP 167 99 All SZGR 2.0 genes in this pathway
LEE RECENT THYMIC EMIGRANT 227 128 All SZGR 2.0 genes in this pathway
KOBAYASHI EGFR SIGNALING 24HR UP 101 65 All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA PCA1 UP 101 66 All SZGR 2.0 genes in this pathway
HAHTOLA CTCL PATHOGENESIS 16 9 All SZGR 2.0 genes in this pathway
VERHAAK GLIOBLASTOMA CLASSICAL 162 122 All SZGR 2.0 genes in this pathway
THILLAINADESAN ZNF217 TARGETS DN 9 5 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 UP 279 155 All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4 ISOFORM B 517 302 All SZGR 2.0 genes in this pathway
ZWANG DOWN BY 2ND EGF PULSE 293 119 All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY 1839 928 All SZGR 2.0 genes in this pathway