Gene Page: SDK1
Summary ?
| GeneID | 221935 |
| Symbol | SDK1 |
| Synonyms | - |
| Description | sidekick cell adhesion molecule 1 |
| Reference | MIM:607216|HGNC:HGNC:19307|Ensembl:ENSG00000146555|HPRD:07388|Vega:OTTHUMG00000151733 |
| Gene type | protein-coding |
| Map location | 7p22.2 |
| Fetal beta | 2.457 |
| DMG | 1 (# studies) |
| eGene | Myers' cis & trans Meta |
| Support | Potential synaptic genes |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:GWASdb | Genome-wide Association Studies | GWASdb records for schizophrenia | |
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| DMG:Wockner_2014 | Genome-wide DNA methylation analysis | This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). | 5 |
| PMID:cooccur | High-throughput literature-search | Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included. | |
| Literature | High-throughput literature-search | Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenias | Click to show details |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg09461837 | 7 | 3341524 | SDK1 | 1.44E-6 | -0.46 | 0.007 | DMG:Wockner_2014 |
| cg20648979 | 7 | 4287171 | SDK1 | 2.56E-5 | 0.602 | 0.017 | DMG:Wockner_2014 |
| cg13261883 | 7 | 3988772 | SDK1 | 3.188E-4 | 0.493 | 0.04 | DMG:Wockner_2014 |
| cg26664107 | 7 | 4201510 | SDK1 | 3.197E-4 | 0.248 | 0.04 | DMG:Wockner_2014 |
| cg23972767 | 7 | 4277473 | SDK1 | 4.241E-4 | 0.272 | 0.045 | DMG:Wockner_2014 |
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs7370564 | 0 | SDK1 | 221935 | 0.16 | 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 V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| GOZGIT ESR1 TARGETS DN | 781 | 465 | All SZGR 2.0 genes in this pathway |
| ACEVEDO LIVER CANCER WITH H3K27ME3 UP | 295 | 149 | All SZGR 2.0 genes in this pathway |
| ACEVEDO METHYLATED IN LIVER CANCER DN | 940 | 425 | All SZGR 2.0 genes in this pathway |
| ASGHARZADEH NEUROBLASTOMA POOR SURVIVAL DN | 46 | 30 | All SZGR 2.0 genes in this pathway |
| DELACROIX RAR BOUND ES | 462 | 273 | All SZGR 2.0 genes in this pathway |
| ZWANG EGF INTERVAL UP | 105 | 46 | All SZGR 2.0 genes in this pathway |