Gene Page: LY6G6D
Summary ?
| GeneID | 58530 |
| Symbol | LY6G6D |
| Synonyms | C6orf23|G6D|LY6-D|MEGT1|NG25 |
| Description | lymphocyte antigen 6 complex, locus G6D |
| Reference | MIM:606038|HGNC:HGNC:13935|Ensembl:ENSG00000244355|HPRD:16192|Vega:OTTHUMG00000137370 |
| Gene type | protein-coding |
| Map location | 6p21.3 |
| Pascal p-value | 1E-12 |
| Fetal beta | 0.378 |
| DMG | 1 (# studies) |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| 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). | 1 |
| GSMA_I | Genome scan meta-analysis | Psr: 0.033 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg11165765 | 6 | 31685494 | LY6G6D | 3.952E-4 | -0.347 | 0.043 | DMG:Wockner_2014 |
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 |
| POLR1E | 0.92 | 0.90 |
| ARG2 | 0.92 | 0.92 |
| KARS | 0.92 | 0.92 |
| CCT3 | 0.91 | 0.93 |
| IGBP1 | 0.91 | 0.92 |
| EFTUD1 | 0.90 | 0.90 |
| APEX1 | 0.90 | 0.93 |
| ST7 | 0.90 | 0.90 |
| RBM4 | 0.90 | 0.93 |
| KDM1 | 0.90 | 0.92 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| AF347015.27 | -0.72 | -0.89 |
| AF347015.33 | -0.71 | -0.89 |
| MT-CO2 | -0.70 | -0.88 |
| HLA-F | -0.70 | -0.81 |
| AF347015.31 | -0.70 | -0.86 |
| MT-CYB | -0.70 | -0.88 |
| AF347015.8 | -0.69 | -0.88 |
| AF347015.15 | -0.68 | -0.89 |
| AIFM3 | -0.67 | -0.77 |
| TINAGL1 | -0.67 | -0.79 |
Section III. Gene Ontology annotation
| Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| GO:0005886 | plasma membrane | IEA | - | |
| GO:0031225 | anchored to membrane | IEA | - |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| WATANABE COLON CANCER MSI VS MSS DN | 81 | 42 | All SZGR 2.0 genes in this pathway |
| SABATES COLORECTAL ADENOMA UP | 141 | 75 | All SZGR 2.0 genes in this pathway |
| MARTINEZ RB1 TARGETS DN | 543 | 317 | All SZGR 2.0 genes in this pathway |
| MARTINEZ TP53 TARGETS DN | 593 | 372 | All SZGR 2.0 genes in this pathway |
| MARTINEZ RB1 AND TP53 TARGETS DN | 591 | 366 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN ES ICP WITH H3K4ME3 | 718 | 401 | All SZGR 2.0 genes in this pathway |
| WIERENGA STAT5A TARGETS DN | 213 | 127 | All SZGR 2.0 genes in this pathway |
| ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY | 1725 | 838 | All SZGR 2.0 genes in this pathway |