Gene: VANGL1

LinkedOmicsKB © 2022-2023 Zhang Lab

Basic information

Full name
VANGL planar cell polarity protein 1
Ensembl
ENSG00000173218.15
Summary
This gene encodes a member of the tretraspanin family. The encoded protein may be involved in mediating intestinal trefoil factor induced wound healing in the intestinal mucosa. Mutations in this gene are associated with neural tube defects. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Feb 2010]

Protein product

Phosphosites on the primary protein product

Tumor and normal comparison

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Signed p-values
Data type
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
RNA1e-27-0.39--0.131.1e-241.5e-17-1.1e-3-
protein0.013--2.8e-3-1.3e-6-0.599.4e-200.0672.1e-3-0.410.24

* P-values are from Wilcoxon rank sum test and can be clicked to show the box plots. Positive values mean higher abundance in tumor. BRCA and GBM do not have normal samples.

mRNA expression at gene level
BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC6.577.588.599.51010.51111.51212.513log2(RSEM+1)tumornormal
Protein expression
BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC171819202122232425log2(MS1 intensity)tumornormal

* Mild outlier: filled circle; Extreme outlier: empty circle.

Phenotype and mutation association

Manhattan plot summarizing associations of phenotypes and mutations across all cohorts and omics data types

BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC0.00.51.01.52.02.53.03.54.04.55.05.56.06.57.00.0-0.5-1.0-1.5-2.0-2.5-3.0-3.5-4.0-4.5-5.0-5.5-6.0-6.5-7.0Pan-cancer012345678910110-1-2-3-4-5-6-7-8-9-10-11proteinRNASCNVclinicalpathwaycell typegenomicmutation-log10 of P-value

* Data points of significant associations above and below the dotted lines can be hovered to show the phenotype.

Associations of the protein abundance of VANGL1 with phenotypes and mutations

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Signed p-values
Phenotype
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
HALLMARK_ESTROGEN_RESPONSE_LATE4.6e-81.1e-5-0.270.0111.8e-30.522.1e-30.540.0950.490.1
Tumor Purity (WGS)5.3e-8-0.11--0.554.9e-51.7e-33.9e-3-0.73.5e-3
PROGENy: VEGF9.5e-70.880.990.460.822.0e-51.8e-30.0390.727.1e-40.24
HALLMARK_GLYCOLYSIS1.5e-6-0.690.210.0370.0150.0681.8e-30.370.150.370.094
PROGENy: Hypoxia2.1e-6-0.296.2e-30.398.3e-33.2e-41.9e-30.810.660.670.043
HALLMARK_OXIDATIVE_PHOSPHORYLATION1.2e-4-0.180.320.340.910.0641.1e-50.0260.160.460.42
KINASE-PSP_Chk1/CHEK11.2e-4---0.530.0010.0130.150.610.280.0860.31
HALLMARK_DNA_REPAIR2.4e-4-0.25-0.89-0.950.496.1e-50.0180.0820.540.0170.24
HALLMARK_PEROXISOME6.8e-41.4e-3-0.92-0.079-0.510.520.370.116.7e-30.136.3e-3
HALLMARK_FATTY_ACID_METABOLISM7.7e-40.17-10.560.027-0.814.9e-30.0580.890.360.33
Showing 1 to 10 of 256 rows

* P-values could be from test for Spearman correlation, Wilcoxon rank sum test, Jonckheere-Terpstra trend test or Cox regression depending on the data type. P-values for individual cohorts can be clicked to show the data plots. The matrix icons in each row can be clicked to show a heatmap summary of associations across all cohorts and omics. The rows in the table can be expanded to show results from other omics.

Cis-association

Associations between omics data of VANGL1

BRCA0.410.240.31proteinmRNASCNVmethylationCCRCC0.13-0.020.22-0.060.30-0.09proteinmRNASCNVmethylationCOAD0.190.300.35proteinmRNASCNVmethylationGBM0.21-0.060.10-0.060.220.12proteinmRNASCNVmethylationHNSCC0.66-0.040.34-0.130.49-0.10proteinmRNASCNVmethylationLSCC0.710.100.22-0.070.45-0.05proteinmRNASCNVmethylationLUAD0.44-0.170.19-0.040.51-0.11proteinmRNASCNVmethylationOV0.420.150.60proteinmRNASCNVmethylationPDAC0.44-0.190.45-0.000.54-0.03proteinmRNASCNVmethylationUCEC0.55-0.210.14-0.230.34-0.24proteinmRNASCNVmethylation

* The numbers are Spearman correlation coefficients and can be clicked to show the scatter plots. The color and size of the circles correlate with the coefficients.

Trans-association

Associations of the protein abundance of VANGL1 and the protein abundance of other genes

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Signed p-values
Gene
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
No matching records found

* P-values are from test for Spearman correlation. P-values for individual cohorts can be clicked to show the data plots. The matrix icons in each row can be clicked to show a heatmap summary of associations across all cohorts and omics. The rows in the table can be expanded to show results from other omics.

Gene set enrichment analysis

Submit genes and the common logarithm of the p-values of their association with to WebGestalt.