| Sequence Name | Change(s) |
|---|---|
| GRCh38.p7 chr 9 | NC_000009.12:g.95790481C>T |
| GRCh37.p13 chr 9 | NC_000009.11:g.98552763C>T |
| Study | Population | Group | Sample # | Ref Allele | Alt Allele |
|---|---|---|---|---|---|
| 1000Genomes | African | Sub | 1322 | C=0.346 | T=0.654 |
| 1000Genomes | American | Sub | 694 | C=0.500 | T=0.500 |
| 1000Genomes | East Asian | Sub | 1008 | C=0.494 | T=0.506 |
| 1000Genomes | Europe | Sub | 1006 | C=0.420 | T=0.580 |
| 1000Genomes | Global | Study-wide | 5008 | C=0.445 | T=0.555 |
| 1000Genomes | South Asian | Sub | 978 | C=0.520 | T=0.480 |
| The Avon Longitudinal Study of Parents and Children | PARENT AND CHILD COHORT | Study-wide | 3854 | C=0.438 | T=0.562 |
| The Genome Aggregation Database | African | Sub | 8704 | C=0.353 | T=0.647 |
| The Genome Aggregation Database | American | Sub | 838 | C=0.500 | T=0.500 |
| The Genome Aggregation Database | East Asian | Sub | 1612 | C=0.507 | T=0.493 |
| The Genome Aggregation Database | Europe | Sub | 18416 | C=0.447 | T=0.552 |
| The Genome Aggregation Database | Global | Study-wide | 29872 | C=0.424 | T=0.575 |
| The Genome Aggregation Database | Other | Sub | 302 | C=0.470 | T=0.530 |
| Trans-Omics for Precision Medicine | Global | Study-wide | 29118 | C=0.409 | T=0.590 |
| UK 10K study - Twins | TWIN COHORT | Study-wide | 3708 | C=0.414 | T=0.586 |
| PMID | Title | Author | Journal |
|---|---|---|---|
| 28440896 | Genome-wide meta-analysis identifies a novel susceptibility signal at CACNA2D3 for nicotine dependence. | Yin X | Am J Med Genet B Neuropsychiatr Genet |
| SNP ID | p-value | Traits | Study |
|---|---|---|---|
| rs10759883 | 1E-06 | nicotine dependence | 28440896 |
| Position (v37) | eGene | GeneID | Variant | p-value | TSS | Tissue |
|---|---|---|---|---|---|---|
| Chr9:98552763 | LINC00476 | ENSG00000175611.7 | C>T | 4.6676e-10 | -85219 | Cerebellum |
| Chr9:98552763 | LINC00476 | ENSG00000175611.7 | C>T | 7.0049e-9 | -85219 | Frontal_Cortex_BA9 |
| Chr9:98552763 | ERCC6L2 | ENSG00000182150.11 | C>T | 9.8594e-3 | -85497 | Frontal_Cortex_BA9 |
| Chr9:98552763 | LINC00476 | ENSG00000175611.7 | C>T | 8.1594e-12 | -85219 | Hypothalamus |
| Chr9:98552763 | LINC00476 | ENSG00000175611.7 | C>T | 4.9980e-14 | -85219 | Cortex |
| Chr9:98552763 | LINC00476 | ENSG00000175611.7 | C>T | 1.6706e-14 | -85219 | Caudate_basal_ganglia |
| Chr9:98552763 | LINC00476 | ENSG00000175611.7 | C>T | 2.0424e-9 | -85219 | Brain_Spinal_cord_cervical |
| Chr9:98552763 | LINC00476 | ENSG00000175611.7 | C>T | 9.4609e-9 | -85219 | Hippocampus |
| Chr9:98552763 | LINC00476 | ENSG00000175611.7 | C>T | 4.0680e-5 | -85219 | Substantia_nigra |
| Chr9:98552763 | LINC00476 | ENSG00000175611.7 | C>T | 3.1868e-12 | -85219 | Putamen_basal_ganglia |
| Chr9:98552763 | LINC00476 | ENSG00000175611.7 | C>T | 1.7043e-12 | -85219 | Anterior_cingulate_cortex |
| Chr9:98552763 | LINC00476 | ENSG00000175611.7 | C>T | 1.5002e-8 | -85219 | Nucleus_accumbens_basal_ganglia |
| Chr9:98552763 | LINC00476 | ENSG00000175611.7 | C>T | 2.9765e-7 | -85219 | Amygdala |
| Probe ID | Position | Gene | beta | p-value | |||
|---|---|---|---|---|---|---|---|
| There is no meQTL annotation for this SNP | |||||||
There is no significant Hi-C chromatin interaction data for this SNP.
| Chromosome | Start | End | Region | Distance ( -/+ : Up/Downstream ) |
|---|---|---|---|---|
| chr9 | 98533715 | 98534560 | E067 | -18203 |
| chr9 | 98534602 | 98535203 | E067 | -17560 |
| chr9 | 98535317 | 98535579 | E067 | -17184 |
| chr9 | 98550257 | 98550643 | E067 | -2120 |
| chr9 | 98550757 | 98551041 | E067 | -1722 |
| chr9 | 98551044 | 98551258 | E067 | -1505 |
| chr9 | 98534602 | 98535203 | E068 | -17560 |
| chr9 | 98535317 | 98535579 | E068 | -17184 |
| chr9 | 98570096 | 98570238 | E068 | 17333 |
| chr9 | 98515870 | 98517702 | E069 | -35061 |
| chr9 | 98533715 | 98534560 | E069 | -18203 |
| chr9 | 98534602 | 98535203 | E069 | -17560 |
| chr9 | 98568888 | 98568938 | E069 | 16125 |
| chr9 | 98568978 | 98569208 | E069 | 16215 |
| chr9 | 98534602 | 98535203 | E070 | -17560 |
| chr9 | 98515870 | 98517702 | E071 | -35061 |
| chr9 | 98523214 | 98523553 | E071 | -29210 |
| chr9 | 98523664 | 98523770 | E071 | -28993 |
| chr9 | 98534602 | 98535203 | E071 | -17560 |
| chr9 | 98570096 | 98570238 | E071 | 17333 |
| chr9 | 98570260 | 98570706 | E071 | 17497 |
| chr9 | 98570737 | 98570896 | E071 | 17974 |
| chr9 | 98570926 | 98571002 | E071 | 18163 |
| chr9 | 98518747 | 98519891 | E072 | -32872 |
| chr9 | 98519928 | 98519978 | E072 | -32785 |
| chr9 | 98533715 | 98534560 | E072 | -18203 |
| chr9 | 98534602 | 98535203 | E072 | -17560 |
| chr9 | 98535317 | 98535579 | E072 | -17184 |
| chr9 | 98570096 | 98570238 | E072 | 17333 |
| chr9 | 98515299 | 98515358 | E073 | -37405 |
| chr9 | 98515471 | 98515548 | E073 | -37215 |
| chr9 | 98515641 | 98515741 | E073 | -37022 |
| chr9 | 98515870 | 98517702 | E073 | -35061 |
| chr9 | 98570096 | 98570238 | E073 | 17333 |
| chr9 | 98570260 | 98570706 | E073 | 17497 |
| chr9 | 98570737 | 98570896 | E073 | 17974 |
| chr9 | 98570926 | 98571002 | E073 | 18163 |
| chr9 | 98533715 | 98534560 | E074 | -18203 |
| chr9 | 98534602 | 98535203 | E074 | -17560 |
| chr9 | 98568740 | 98568790 | E074 | 15977 |
| chr9 | 98533715 | 98534560 | E081 | -18203 |
| chr9 | 98534602 | 98535203 | E081 | -17560 |
| chr9 | 98533715 | 98534560 | E082 | -18203 |