Basic information

Full name
PR/SET domain 2
Ensembl
ENSG00000116731.22
Summary
This tumor suppressor gene is a member of a nuclear histone/protein methyltransferase superfamily. It encodes a zinc finger protein that can bind to retinoblastoma protein, estrogen receptor, and the TPA-responsive element (MTE) of the heme-oxygenase-1 gene. Although the functions of this protein have not been fully characterized, it may (1) play a role in transcriptional regulation during neuronal differentiation and pathogenesis of retinoblastoma, (2) act as a transcriptional activator of the heme-oxygenase-1 gene, and (3) be a specific effector of estrogen action. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2008]
Annotation
Transcription factor

Protein product

Phosphosites on the primary protein product
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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-9.7e-8--3e-9---0.6-0.17-0.033--0.05-
protein5.7e-5--0.033--0.221.4e-141.3e-3-0.130.01-0.67

* 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
BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC8910111213141516171819log2(RSEM+1)tumornormal
Protein expression
BRCACCRCCGBMHNSCCLSCCLUADOVPDACUCEC16171819202122232425log2(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

BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC0246810121416180-2-4-6-8-10-12-14-16-18Pan-cancer010203040506070800-10-20-30-40-50-60-70-80proteinRNASCNVclinicalpathwaycell 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 PRDM2 with phenotypes and mutations

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Signed p-values
Phenotype
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
cibersort: Neutrophil5.3e-90.978.8e-3-0.41-0.860.0340.280.727.8e-91.1e-6
PROGENy: Hypoxia1.1e-80.0630.087-0.640.0750.0790.410.0261.3e-39.3e-4
PERT-PSP_NOCODAZOLE1.5e-70.870.047-0.210.132.4e-45.8e-30.990.0360.021
KINASE-PSP_CDK21.2e-5-0.770.22-0.690.251.8e-30.0190.883.2e-30.036
KINASE-PSP_CDK16.3e-50.73-0.96--10.170.0470.0770.391.8e-30.009
HALLMARK_E2F_TARGETS6.6e-5-0.830.21-0.290.141.7e-30.25-0.924.7e-30.16
KINASE-PSP_ERK2/MAPK19.3e-5-0.650.28-0.70.0215.3e-30.0190.230.850.059
HALLMARK_G2M_CHECKPOINT1.2e-40.790.28-0.380.152.8e-30.11-0.740.0120.27
PROGENy: TNFa1.9e-40.110.59-0.0830.16-0.44-0.83-0.891.4e-50.007
PROGENy: PI3K3.3e-40.890.32-0.0480.33-0.640.0050.130.270.084
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 PRDM2

BRCA0.270.250.57proteinmRNASCNVmethylationCCRCC0.010.390.25-0.21-0.03-0.13proteinmRNASCNVmethylationCOAD0.25proteinmRNASCNVmethylationGBM0.22-0.140.08-0.110.270.13proteinmRNASCNVmethylationHNSCC0.02-0.190.150.100.22-0.18proteinmRNASCNVmethylationLSCC0.120.150.22-0.010.28-0.03proteinmRNASCNVmethylationLUAD0.16-0.000.16-0.110.48-0.02proteinmRNASCNVmethylationOV0.270.440.58proteinmRNASCNVmethylationPDAC0.06-0.090.21-0.050.18-0.01proteinmRNASCNVmethylationUCEC0.09-0.03-0.02-0.170.12-0.07proteinmRNASCNVmethylation

* 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 PRDM2 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.