Gene: PSD

LinkedOmicsKB © 2022-2023 Zhang Lab

Basic information

Full name
pleckstrin and Sec7 domain containing
Ensembl
ENSG00000059915.17
Summary
This gene encodes a Plekstrin homology and SEC7 domains-containing protein that functions as a guanine nucleotide exchange factor. The encoded protein regulates signal transduction by activating ADP-ribosylation factor 6. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2012]

Protein product

Phosphosites on the primary protein product

Tumor and normal comparison

Loading, please wait
Signed p-values
Data type
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
RNA2.1e-3--4.8e-19--7.6e-72.1e-72e-12--0.038-
protein-----------

* 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
BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC123456789101112log2(RSEM+1)tumornormal
Protein expression
GBMLSCCOVUCEC1617181920212223242526log2(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

BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC024681012141618202224260-2-4-6-8-10-12-14-16-18-20-22-24-26Pan-cancer05101520253035400-5-10-15-20-25-30-35-40proteinRNASCNVclinicalpathwaycell 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 PSD with phenotypes and mutations

Loading, please wait
Signed p-values
Phenotype
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
HALLMARK_PANCREAS_BETA_CELLS2.6e-6---1e-8-0.14---0.34
DISEASE-PSP_Alzheimer's_disease1.2e-4---4.5e-9------0.66
xcell: Hematopoietic stem cell2.2e-3---0.054-0.29---0.021
HALLMARK_KRAS_SIGNALING_DN0.01---2.8e-10--0.11----0.79
cibersort: Macrophage M20.013----0.64-0.016---0.017
KINASE-PSP_P38A/MAPK140.016----0.83-0.022---0.033
KINASE-PSP_CDK50.019---9.0e-4-0.36----0.86
xcell: T cell CD4+ naive0.033---0.15-0.34---0.2
KINASE-PSP_GSK3B0.034---0.054-0.23---0.58
HALLMARK_HEDGEHOG_SIGNALING0.061---0.012-0.33----0.8
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 PSD

BRCA-0.03proteinmRNASCNVmethylationCCRCC-0.10-0.040.01proteinmRNASCNVmethylationCOAD-0.10proteinmRNASCNVmethylationGBM0.680.000.010.030.09-0.28proteinmRNASCNVmethylationHNSCC-0.190.030.18proteinmRNASCNVmethylationLSCC0.34-0.170.41-0.110.340.03proteinmRNASCNVmethylationLUAD0.010.130.06proteinmRNASCNVmethylationOV0.51proteinmRNASCNVmethylationPDAC-0.090.140.09proteinmRNASCNVmethylationUCEC0.53-0.350.03-0.220.150.26proteinmRNASCNVmethylation

* 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 PSD and the protein abundance of other genes

Loading, please wait
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.