Gene Page: ZNF488
Summary ?
| GeneID | 118738 |
| Symbol | ZNF488 |
| Synonyms | - |
| Description | zinc finger protein 488 |
| Reference | HGNC:HGNC:23535|Ensembl:ENSG00000265763|HPRD:15801|Vega:OTTHUMG00000188322 |
| Gene type | protein-coding |
| Map location | 10q11.22 |
| Pascal p-value | 0.501 |
| Sherlock p-value | 0.202 |
| Fetal beta | -0.839 |
| DMG | 1 (# studies) |
| eGene | Caudate basal ganglia Cerebellar Hemisphere Cerebellum Nucleus accumbens basal ganglia Putamen basal ganglia |
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 |
| GO_Annotation | Mapping neuro-related keywords to Gene Ontology annotations | Hits with neuro-related keywords: 2 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg10865849 | 10 | 48355149 | ZNF488 | 7.87E-8 | -0.007 | 1.85E-5 | DMG:Jaffe_2016 |
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs1993493 | 10 | 48356071 | ZNF488 | ENSG00000165388.8 | 7.65193E-8 | 0 | 1047 | gtex_brain_putamen_basal |
| rs34211862 | 10 | 48359274 | ZNF488 | ENSG00000165388.8 | 3.04702E-7 | 0 | 4250 | gtex_brain_putamen_basal |
| rs6587052 | 10 | 48365295 | ZNF488 | ENSG00000165388.8 | 1.17359E-7 | 0 | 10271 | gtex_brain_putamen_basal |
| rs11204207 | 10 | 48366391 | ZNF488 | ENSG00000165388.8 | 1.17359E-7 | 0 | 11367 | gtex_brain_putamen_basal |
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:0003677 | DNA binding | IEA | - | |
| GO:0005515 | protein binding | IEA | - | |
| GO:0008270 | zinc ion binding | IEA | - | |
| GO:0016564 | transcription repressor activity | IEA | - | |
| GO:0046872 | metal ion binding | IEA | - | |
| Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0048714 | positive regulation of oligodendrocyte differentiation | IEA | oligodendrocyte, Glial (GO term level: 12) | - |
| GO:0014003 | oligodendrocyte development | IEA | axon, oligodendrocyte, Glial (GO term level: 10) | - |
| GO:0006355 | regulation of transcription, DNA-dependent | IEA | - | |
| GO:0006350 | transcription | IEA | - | |
| Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0005622 | intracellular | IEA | - | |
| GO:0005634 | nucleus | IEA | - |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| TOYOTA TARGETS OF MIR34B AND MIR34C | 463 | 262 | All SZGR 2.0 genes in this pathway |
| ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY | 1839 | 928 | All SZGR 2.0 genes in this pathway |