Gene Page: PCDHB3
Summary ?
| GeneID | 56132 |
| Symbol | PCDHB3 |
| Synonyms | PCDH-BETA3 |
| Description | protocadherin beta 3 |
| Reference | MIM:606329|HGNC:HGNC:8688|Ensembl:ENSG00000113205|HPRD:08398|Vega:OTTHUMG00000129622 |
| Gene type | protein-coding |
| Map location | 5q31 |
| Pascal p-value | 0.009 |
| eGene | Cerebellar Hemisphere |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| GSMA_I | Genome scan meta-analysis | Psr: 0.0032 | |
| GO_Annotation | Mapping neuro-related keywords to Gene Ontology annotations | Hits with neuro-related keywords: 2 |
Section I. Genetics and epigenetics annotation
Section II. Transcriptome annotation
General gene expression (GTEx)
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 |
| YWHAG | 0.90 | 0.90 |
| SV2A | 0.89 | 0.90 |
| ATXN7L3 | 0.89 | 0.88 |
| NUDCD3 | 0.89 | 0.89 |
| ABR | 0.89 | 0.91 |
| EPB41L1 | 0.88 | 0.89 |
| SCAMP5 | 0.88 | 0.89 |
| FBXO31 | 0.88 | 0.89 |
| WDR37 | 0.88 | 0.91 |
| MFN2 | 0.88 | 0.89 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| GNG11 | -0.62 | -0.62 |
| AP002478.3 | -0.61 | -0.60 |
| HIGD1B | -0.61 | -0.56 |
| AF347015.21 | -0.60 | -0.55 |
| AC098691.2 | -0.60 | -0.60 |
| FXYD1 | -0.60 | -0.52 |
| NOSTRIN | -0.60 | -0.53 |
| C1orf54 | -0.60 | -0.63 |
| MT-CO2 | -0.59 | -0.53 |
| SAT1 | -0.58 | -0.64 |
Section III. Gene Ontology annotation
| Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| GO:0005509 | calcium ion binding | IEA | - | |
| GO:0005515 | protein binding | NAS | 11322959 | |
| Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0007416 | synaptogenesis | TAS | Synap (GO term level: 6) | 12231349 |
| GO:0007268 | synaptic transmission | TAS | neuron, Synap, Neurotransmitter (GO term level: 6) | 12231349 |
| GO:0007155 | cell adhesion | TAS | 10380929 | |
| GO:0007156 | homophilic cell adhesion | IEA | - | |
| GO:0016339 | calcium-dependent cell-cell adhesion | NAS | 11322959 | |
| Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0005886 | plasma membrane | IEA | - | |
| GO:0005887 | integral to plasma membrane | TAS | 10380929 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| WANG CLIM2 TARGETS DN | 186 | 114 | All SZGR 2.0 genes in this pathway |
| SMID BREAST CANCER BASAL UP | 648 | 398 | All SZGR 2.0 genes in this pathway |