Gene Page: NPM2
Summary ?
| GeneID | 10361 |
| Symbol | NPM2 |
| Synonyms | - |
| Description | nucleophosmin/nucleoplasmin 2 |
| Reference | MIM:608073|HGNC:HGNC:7930|Ensembl:ENSG00000158806|HPRD:12160|Vega:OTTHUMG00000131129 |
| Gene type | protein-coding |
| Map location | 8p21.3 |
| Pascal p-value | 0.76 |
| Sherlock p-value | 0.882 |
| Fetal beta | -0.836 |
| DMG | 1 (# studies) |
| eGene | Cerebellum Myers' cis & trans |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| DMG:Jaffe_2016 | Genome-wide DNA methylation analysis | This dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. | 1 |
| GSMA_I | Genome scan meta-analysis | Psr: 0.031 | |
| GSMA_IIA | Genome scan meta-analysis (All samples) | Psr: 0.03086 | |
| GSMA_IIE | Genome scan meta-analysis (European-ancestry samples) | Psr: 0.00057 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg03998605 | 8 | 21882061 | NPM2 | 2.04E-9 | -0.021 | 1.65E-6 | DMG:Jaffe_2016 |
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs1949359 | chr10 | 64356992 | NPM2 | 10361 | 0.18 | trans |
Section II. Transcriptome annotation
General gene expression (GTEx)
Gene expression during devlopment (BrainCloud)
Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.
Gene expression of temporal and spatial changes (BrainSpan)
Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.
No co-expressed genes in brain regions
Section III. Gene Ontology annotation
| Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| GO:0003676 | nucleic acid binding | IEA | - | |
| GO:0042393 | histone binding | TAS | 12581654 | |
| Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0006338 | chromatin remodeling | IDA | 12714744 | |
| GO:0007338 | single fertilization | IMP | 12714744 | |
| GO:0007096 | regulation of exit from mitosis | IMP | 12714744 | |
| GO:0009790 | embryonic development | IMP | 12714744 | |
| GO:0009994 | oocyte differentiation | IEP | 12714744 | |
| GO:0045836 | positive regulation of meiosis | IMP | 12714744 | |
| Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0000789 | cytoplasmic chromatin | IDA | 12714744 | |
| GO:0000790 | nuclear chromatin | IDA | 12714744 | |
| GO:0005634 | nucleus | IDA | 12714744 | |
| GO:0005634 | nucleus | IEA | - |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| NUYTTEN EZH2 TARGETS DN | 1024 | 594 | All SZGR 2.0 genes in this pathway |
| RICKMAN METASTASIS DN | 261 | 155 | All SZGR 2.0 genes in this pathway |
| GAZIN EPIGENETIC SILENCING BY KRAS | 26 | 16 | All SZGR 2.0 genes in this pathway |
| MATZUK MATERNAL EFFECT | 9 | 8 | All SZGR 2.0 genes in this pathway |
| ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY | 1725 | 838 | All SZGR 2.0 genes in this pathway |