Gene: ITM2A

LinkedOmicsKB © 2022-2023 Zhang Lab

Basic information

Full name
integral membrane protein 2A
Ensembl
ENSG00000078596.11
Summary
This gene encodes a type II membrane protein that belongs to the ITM2 family. Studies in mouse suggest that it may be involved in osteo- and chondrogenic differentiation. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jan 2010]

Protein product

  • ENST00000373298.7 Primary ENSP00000362395.2 (0 phosphosite)
  • ENST00000434584.2
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
RNA-7.9e-48-1.7e-5---7.7e-18-1.2e-32-5.8e-33--1.5e-5-
protein2.2e-3-2.2e-3--------

* 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
BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC345678910111213log2(RSEM+1)tumornormal
Protein expression
CCRCCGBMHNSCCLSCCPDAC1515.51616.51717.51818.51919.52020.52121.522log2(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

BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC02468101214161820222426280-2-4-6-8-10-12-14-16-18-20-22-24-26-28Pan-cancer01020304050607080901001100-10-20-30-40-50-60-70-80-90-100-110proteinRNASCNVclinicalpathwaycell 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 ITM2A with phenotypes and mutations

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Signed p-values
Phenotype
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
DISEASE-PSP_Alzheimer's_disease1.3e-3---1.3e-3------
xcell: microenvironment score3.7e-3-0.16--0.321.9e-30.067--0.25-
cibersort: T cell CD4+ memory activated5.6e-3-0.45-0.860.140.29--6.4e-3-
xcell: Plasmacytoid dendritic cell8.1e-3-0.043-0.940.110.18--0.38-
xcell: stroma score9.7e-3-0.089-0.0240.340.11---0.47-
xcell: T cell CD8+ effector memory0.015--0.63-0.0160.510.14--0.17-
xcell: Myeloid dendritic cell activated0.017--0.81--0.61.8e-30.28--0.058-
xcell: Endothelial cell0.019-0.024-4.9e-3-0.910.46---0.65-
xcell: Macrophage M20.022-0.67--0.60.0110.16--0.21-
ESTIMATE: ImmuneScore0.022-0.43--0.130.0190.13--0.047-
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 ITM2A

BRCA-0.01proteinmRNASCNVmethylationCCRCC0.15-0.11-0.16proteinmRNASCNVmethylationCOAD-0.01proteinmRNASCNVmethylationGBM0.85-0.01-0.00proteinmRNASCNVmethylationHNSCC0.050.330.04proteinmRNASCNVmethylationLSCC0.21-0.03-0.29proteinmRNASCNVmethylationLUAD-0.07proteinmRNASCNVmethylationOV0.11proteinmRNASCNVmethylationPDAC0.45-0.480.05proteinmRNASCNVmethylationUCEC-0.16proteinmRNASCNVmethylation

* 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 ITM2A 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.