Gene: NPTX1

LinkedOmicsKB © 2022-2023 Zhang Lab

Basic information

Full name
neuronal pentraxin 1
Ensembl
ENSG00000171246.6
Summary
NPTX1 is a member of the neuronal pentraxin gene family. Neuronal pentraxin 1 is similar to the rat NP1 gene which encodes a binding protein for the snake venom toxin taipoxin. Human NPTX1 mRNA is exclusively localized to the nervous system. [provided by RefSeq, Jul 2008]
Annotation
Ligand

Protein product

  • ENST00000306773.5 Primary ENSP00000307549.4 (0 phosphosite)
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-0.096--1.7e-20--4.2e-5-0.0662.8e-11-2.6e-3-
protein0.41------0.41---

* 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
BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC01234567891011121314log2(RSEM+1)tumornormal
Protein expression
GBMLUADOV16171819202122232425262728log2(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

BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC024681012141618200-2-4-6-8-10-12-14-16-18-20Pan-cancer02468101214161820220-2-4-6-8-10-12-14-16-18-20-22proteinRNASCNVclinicalpathwaycell 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 NPTX1 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_disease2.2e-16---2.2e-16------
HALLMARK_SPERMATOGENESIS1.7e-4---1.2e-5--0.35---
HALLMARK_PANCREAS_BETA_CELLS1.7e-4---3.5e-7--0.82---
KINASE-PSP_CDK52.6e-4---2.5e-4------
HALLMARK_KRAS_SIGNALING_DN4.8e-4---2.6e-7---0.83---
HALLMARK_HEDGEHOG_SIGNALING7.4e-4---0.004--0.058---
PROGENy: Trail0.038---0.15--0.14---
cibersort: NK cell activated0.053---0.021--0.67---
Clinical: Age0.12---0.049--0.8---
xcell: Hematopoietic stem cell0.15---8.8e-3---0.55---
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 NPTX1

BRCA0.13proteinmRNASCNVmethylationCCRCC-0.060.030.05proteinmRNASCNVmethylationCOAD-0.14proteinmRNASCNVmethylationGBM0.520.01-0.10-0.17-0.26-0.07proteinmRNASCNVmethylationHNSCC-0.28-0.07-0.05proteinmRNASCNVmethylationLSCC0.07-0.22-0.26proteinmRNASCNVmethylationLUAD0.53-0.100.16-0.250.240.28proteinmRNASCNVmethylationOV-0.04proteinmRNASCNVmethylationPDAC-0.32-0.190.14proteinmRNASCNVmethylationUCEC-0.040.080.02proteinmRNASCNVmethylation

* 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 NPTX1 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.