Gene Page: PCDHB2
Summary ?
| GeneID | 56133 |
| Symbol | PCDHB2 |
| Synonyms | PCDH-BETA2 |
| Description | protocadherin beta 2 |
| Reference | MIM:606328|HGNC:HGNC:8687|HPRD:07558| |
| 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 |
| ATHL1 | 0.78 | 0.82 |
| C1orf175 | 0.74 | 0.75 |
| COL16A1 | 0.73 | 0.76 |
| MICALL2 | 0.72 | 0.72 |
| ITIH4 | 0.72 | 0.77 |
| COL5A3 | 0.72 | 0.77 |
| LCN12 | 0.70 | 0.68 |
| ADCY4 | 0.70 | 0.75 |
| RGL3 | 0.67 | 0.68 |
| ITGA7 | 0.67 | 0.71 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| TXNL1 | -0.49 | -0.56 |
| MOBKL3 | -0.47 | -0.54 |
| MRPL44 | -0.46 | -0.56 |
| MMADHC | -0.46 | -0.53 |
| TAF9 | -0.45 | -0.51 |
| CCT4 | -0.45 | -0.53 |
| MED19 | -0.45 | -0.51 |
| EIF3M | -0.45 | -0.53 |
| ASNSD1 | -0.45 | -0.51 |
| METTL9 | -0.45 | -0.52 |
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 |
|---|---|---|---|
| HAMAI APOPTOSIS VIA TRAIL DN | 186 | 107 | All SZGR 2.0 genes in this pathway |
| LOPEZ MBD TARGETS | 957 | 597 | All SZGR 2.0 genes in this pathway |
| RICKMAN HEAD AND NECK CANCER A | 100 | 63 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN IPS ICP WITH H3K27ME3 | 54 | 32 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN NPC ICP WITH H3K4ME3 | 445 | 257 | All SZGR 2.0 genes in this pathway |