Human SNP ID | rs1883025 |
---|---|
Human chromosome | chr9 |
Human SNP position | 104902020 |
Pig chromosome | chr1 |
Pig SNP position | 275817661 |
PubMed ID | 20686565 |
---|---|
Journal | Nature |
Link | www.ncbi.nlm.nih.gov/pubmed/20686565 |
Study | Biological, clinical and population relevance of 95 loci for blood lipids. |
Disease/Trait | HDL cholesterol |
Initial sample | 99,900 European ancestry individuals |
Replication sample | NA |
Region | 9q31.1 |
Chromosome id | chr9 |
Chromosome position | 104902020 |
Reported gene | ABCA1 |
Mapped gene | ABCA1 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 19 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs1883025-T |
SNPs | rs1883025 |
Merged | 0 |
SNP id current | 1883025 |
Context | intron_variant |
Intergenic | 0 |
Allele frequency | 0.25 |
P value | 2E-33 |
Pvalue mlog | 32.698970004336 |
P value text | |
Or beta | 0.94 |
%95 Ci | [0.76-1.12] mg/dL decrease |
Platform | Affymetrix, Illumina, Perlegen [~ 2600000] (imputed) |
CNV | N |
Mapped trait | high density lipoprotein cholesterol measurement |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004612 |
Study accession | GCST000755 |
PubMed ID | 19060906 |
Journal | Nat Genet |
Link | www.ncbi.nlm.nih.gov/pubmed/19060906 |
Study | Common variants at 30 loci contribute to polygenic dyslipidemia. |
Disease/Trait | HDL cholesterol |
Initial sample | 19,840 European ancestry individuals |
Replication sample | Up to 20,623 European ancestry individuals |
Region | 9q31.1 |
Chromosome id | chr9 |
Chromosome position | 104902020 |
Reported gene | ABCA1 |
Mapped gene | ABCA1 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 19 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs1883025-T |
SNPs | rs1883025 |
Merged | 0 |
SNP id current | 1883025 |
Context | intron_variant |
Intergenic | 0 |
Allele frequency | 0.26 |
P value | 0.000000001 |
Pvalue mlog | 9 |
P value text | |
Or beta | 0.08 |
%95 Ci | [0.04-0.12] s.d. decrease |
Platform | Affymetrix, Illumina [~ 2600000] (imputed) |
CNV | N |
Mapped trait | high density lipoprotein cholesterol measurement |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004612 |
Study accession | GCST000290 |
PubMed ID | 20686565 |
Journal | Nature |
Link | www.ncbi.nlm.nih.gov/pubmed/20686565 |
Study | Biological, clinical and population relevance of 95 loci for blood lipids. |
Disease/Trait | Cholesterol, total |
Initial sample | 100,184 European ancestry individuals |
Replication sample | NA |
Region | 9q31.1 |
Chromosome id | chr9 |
Chromosome position | 104902020 |
Reported gene | ABCA1 |
Mapped gene | ABCA1 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 19 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs1883025-T |
SNPs | rs1883025 |
Merged | 0 |
SNP id current | 1883025 |
Context | intron_variant |
Intergenic | 0 |
Allele frequency | 0.25 |
P value | 3E-27 |
Pvalue mlog | 26.5228787452803 |
P value text | |
Or beta | 2.24 |
%95 Ci | [1.77-2.71] mg/dL decrease |
Platform | Affymetrix, Illumina, Perlegen [~ 2600000] (imputed) |
CNV | N |
Mapped trait | total cholesterol measurement |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004574 |
Study accession | GCST000760 |
PubMed ID | 22399527 |
Journal | Circ Cardiovasc Genet |
Link | www.ncbi.nlm.nih.gov/pubmed/22399527 |
Study | Genome-wide screen for metabolic syndrome susceptibility Loci reveals strong lipid gene contribution but no evidence for common genetic basis for clustering of metabolic syndrome traits. |
Disease/Trait | Metabolic syndrome |
Initial sample | 2,637 European ancestry cases, 7,927 European ancestry controls |
Replication sample | NA |
Region | 9q31.1 |
Chromosome id | chr9 |
Chromosome position | 104902020 |
Reported gene | ABCA1 |
Mapped gene | ABCA1 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 19 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs1883025-T |
SNPs | rs1883025 |
Merged | 0 |
SNP id current | 1883025 |
Context | intron_variant |
Intergenic | 0 |
Allele frequency | 0.19 |
P value | 0.0000000006 |
Pvalue mlog | 9.22184874961635 |
P value text | (HDL) |
Or beta | 0.1 |
%95 Ci | [NR] mmol/l decrease |
Platform | Illumina [1257079] (imputed) |
CNV | N |
Mapped trait | metabolic syndrome |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0000195 |
Study accession | GCST001436 |
PubMed ID | 24097068 |
Journal | Nat Genet |
Link | www.ncbi.nlm.nih.gov/pubmed/24097068 |
Study | Discovery and refinement of loci associated with lipid levels. |
Disease/Trait | HDL cholesterol |
Initial sample | 94,595 European ancestry individuals |
Replication sample | 93,982 European ancestry individuals |
Region | 9q31.1 |
Chromosome id | chr9 |
Chromosome position | 104902020 |
Reported gene | ABCA1 |
Mapped gene | ABCA1 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 19 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs1883025-T |
SNPs | rs1883025 |
Merged | 0 |
SNP id current | 1883025 |
Context | intron_variant |
Intergenic | 0 |
Allele frequency | 0.25 |
P value | 2E-65 |
Pvalue mlog | 64.698970004336 |
P value text | |
Or beta | 0.07 |
%95 Ci | [NR] unit decrease |
Platform | NR [NR] (imputed) |
CNV | N |
Mapped trait | high density lipoprotein cholesterol measurement |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004612 |
Study accession | GCST002223 |
PubMed ID | 24097068 |
Journal | Nat Genet |
Link | www.ncbi.nlm.nih.gov/pubmed/24097068 |
Study | Discovery and refinement of loci associated with lipid levels. |
Disease/Trait | Cholesterol, total |
Initial sample | 94,595 European ancestry individuals |
Replication sample | 93,982 European ancestry individuals |
Region | 9q31.1 |
Chromosome id | chr9 |
Chromosome position | 104902020 |
Reported gene | ABCA1 |
Mapped gene | ABCA1 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 19 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs1883025-T |
SNPs | rs1883025 |
Merged | 0 |
SNP id current | 1883025 |
Context | intron_variant |
Intergenic | 0 |
Allele frequency | 0.25 |
P value | 6E-53 |
Pvalue mlog | 52.2218487496163 |
P value text | |
Or beta | 0.067 |
%95 Ci | [NR] unit decrease |
Platform | NR [NR] (imputed) |
CNV | N |
Mapped trait | total cholesterol measurement |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004574 |
Study accession | GCST002221 |