Gene Page: SZT2
Summary ?
| GeneID | 23334 |
| Symbol | SZT2 |
| Synonyms | C1orf84|EIEE18|KIAA0467|SZT2A|SZT2B |
| Description | seizure threshold 2 homolog (mouse) |
| Reference | MIM:615463|HGNC:HGNC:29040|Ensembl:ENSG00000198198|HPRD:11085|Vega:OTTHUMG00000007423 |
| Gene type | protein-coding |
| Map location | 1p34.2 |
| Pascal p-value | 3.671E-5 |
| TADA p-value | 0.007 |
| Fetal beta | -0.231 |
| Support | CompositeSet |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| DNM:Xu_2012 | Whole Exome Sequencing analysis | De novo mutations of 4 genes were identified by exome sequencing of 795 samples in this study |
Section I. Genetics and epigenetics annotation
DNM table
| Gene | Chromosome | Position | Ref | Alt | Transcript | AA change | Mutation type | Sift | CG46 | Trait | Study |
|---|---|---|---|---|---|---|---|---|---|---|---|
| SZT2 | chr1 | 43891777 | C | CCA | NM_015284 | . | frameshift | Schizophrenia | DNM:Xu_2012 |
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.
Top co-expressed genes in brain regions
| Top 10 positively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| FADS2 | 0.78 | 0.84 |
| FAM59B | 0.74 | 0.83 |
| PVRL2 | 0.74 | 0.78 |
| SEMA4B | 0.73 | 0.82 |
| CNTFR | 0.72 | 0.79 |
| AL161668.2 | 0.71 | 0.77 |
| SMTN | 0.70 | 0.75 |
| SLC19A1 | 0.70 | 0.74 |
| AC130686.2 | 0.69 | 0.78 |
| C1orf56 | 0.69 | 0.68 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| KRT222P | -0.56 | -0.57 |
| CHN1 | -0.54 | -0.52 |
| ACOT13 | -0.52 | -0.57 |
| KBTBD3 | -0.52 | -0.64 |
| KMO | -0.52 | -0.56 |
| PPP4R4 | -0.51 | -0.54 |
| SERPINI1 | -0.50 | -0.50 |
| CACNA1F | -0.50 | -0.56 |
| RGS4 | -0.50 | -0.52 |
| FAM162A | -0.50 | -0.56 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| GINESTIER BREAST CANCER ZNF217 AMPLIFIED DN | 335 | 193 | All SZGR 2.0 genes in this pathway |
| GINESTIER BREAST CANCER 20Q13 AMPLIFICATION DN | 180 | 101 | All SZGR 2.0 genes in this pathway |
| BARRIER CANCER RELAPSE TUMOR SAMPLE DN | 13 | 6 | All SZGR 2.0 genes in this pathway |
| LASTOWSKA NEUROBLASTOMA COPY NUMBER DN | 800 | 473 | All SZGR 2.0 genes in this pathway |
| LIU LIVER CANCER | 38 | 18 | All SZGR 2.0 genes in this pathway |