Human SNP ID | rs2108622 |
---|---|
Human chromosome | chr19 |
Human SNP position | 15879621 |
Pig chromosome | chr2 |
Pig SNP position | 61345248 |
PubMed ID | 21729881 |
---|---|
Journal | Hum Mol Genet |
Link | www.ncbi.nlm.nih.gov/pubmed/21729881 |
Study | Genome-wide association study identifies common variants associated with circulating vitamin E levels. |
Disease/Trait | Vitamin E levels |
Initial sample | 2,402 European ancestry cases, 1612 European ancestry controls |
Replication sample | 475 European ancestry cases, 517 European ancestry controls, 1,416 cases, 1,359 controls |
Region | 19p13.12 |
Chromosome id | chr19 |
Chromosome position | 15879621 |
Reported gene | CYP4F2 |
Mapped gene | CYP4F2 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 8529 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs2108622-T |
SNPs | rs2108622 |
Merged | 0 |
SNP id current | 2108622 |
Context | missense_variant |
Intergenic | 0 |
Allele frequency | 0.21 |
P value | 0.0000000001 |
Pvalue mlog | 10 |
P value text | |
Or beta | 0.03 |
%95 Ci | [0.01-0.05] unit increase |
Platform | Illumina [NR] |
CNV | N |
Mapped trait | vitamin E measurement |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004867 |
Study accession | GCST001142 |
PubMed ID | 19300499 |
Journal | PLoS Genet |
Link | www.ncbi.nlm.nih.gov/pubmed/19300499 |
Study | A genome-wide association study confirms VKORC1, CYP2C9, and CYP4F2 as principal genetic determinants of warfarin dose. |
Disease/Trait | Warfarin maintenance dose |
Initial sample | 1,053 European ancestry individuals |
Replication sample | 588 European ancestry individuals |
Region | 19p13.12 |
Chromosome id | chr19 |
Chromosome position | 15879621 |
Reported gene | CYP4F2 |
Mapped gene | CYP4F2 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 8529 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs2108622-? |
SNPs | rs2108622 |
Merged | 0 |
SNP id current | 2108622 |
Context | missense_variant |
Intergenic | 0 |
Allele frequency | 0.24 |
P value | 0.0000000003 |
Pvalue mlog | 9.52287874528033 |
P value text | |
Or beta | 0.21 |
%95 Ci | [0.14-0.27] mg/week increase |
Platform | Illumina [325997] |
CNV | N |
Mapped trait | response to anticoagulant |
Mapped trait URI | http://purl.obolibrary.org/obo/GO_0061476 |
Study accession | GCST000360 |
PubMed ID | 19578179 |
Journal | Hum Mol Genet |
Link | www.ncbi.nlm.nih.gov/pubmed/19578179 |
Study | A genome-wide association study of acenocoumarol maintenance dosage. |
Disease/Trait | Acenocoumarol maintenance dosage |
Initial sample | 1,451 European ancestry individuals |
Replication sample | 287 individuals |
Region | 19p13.12 |
Chromosome id | chr19 |
Chromosome position | 15879621 |
Reported gene | CYP4F2 |
Mapped gene | CYP4F2 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 8529 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs2108622-? |
SNPs | rs2108622 |
Merged | 0 |
SNP id current | 2108622 |
Context | missense_variant |
Intergenic | 0 |
Allele frequency | NR |
P value | 0.0000000003 |
Pvalue mlog | 9.52287874528033 |
P value text | |
Or beta | |
%95 Ci | |
Platform | Illumina [~ 550000] |
CNV | N |
Mapped trait | response to anticoagulant |
Mapped trait URI | http://purl.obolibrary.org/obo/GO_0061476 |
Study accession | GCST000436 |
PubMed ID | 20833655 |
Journal | Hum Mol Genet |
Link | www.ncbi.nlm.nih.gov/pubmed/20833655 |
Study | Genome-wide association study identifies genetic determinants of warfarin responsiveness for Japanese. |
Disease/Trait | Warfarin maintenance dose |
Initial sample | 807 Japanese ancestry low dose individuals, 701 Japanese ancestry high dose individuals |
Replication sample | 444 Japanese ancestry individuals |
Region | 19p13.12 |
Chromosome id | chr19 |
Chromosome position | 15879621 |
Reported gene | CYP4F2 |
Mapped gene | CYP4F2 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 8529 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs2108622-T |
SNPs | rs2108622 |
Merged | 0 |
SNP id current | 2108622 |
Context | missense_variant |
Intergenic | 0 |
Allele frequency | NR |
P value | 0.00000003 |
Pvalue mlog | 7.52287874528033 |
P value text | |
Or beta | |
%95 Ci | |
Platform | Illumina [485227] |
CNV | N |
Mapped trait | response to anticoagulant |
Mapped trait URI | http://purl.obolibrary.org/obo/GO_0061476 |
Study accession | GCST000792 |
PubMed ID | 22437554 |
Journal | J Nutr |
Link | www.ncbi.nlm.nih.gov/pubmed/22437554 |
Study | Genome-wide association study identifies three common variants associated with serologic response to vitamin E supplementation in men. |
Disease/Trait | Response to Vitamin E supplementation |
Initial sample | 2,112 European ancestry individuals |
Replication sample | NA |
Region | 19p13.12 |
Chromosome id | chr19 |
Chromosome position | 15879621 |
Reported gene | CYP4F2, LOC729645 |
Mapped gene | CYP4F2 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 8529 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs2108622-T |
SNPs | rs2108622 |
Merged | 0 |
SNP id current | 2108622 |
Context | missense_variant |
Intergenic | 0 |
Allele frequency | 0.19 |
P value | 0.0000002 |
Pvalue mlog | 6.69897000433601 |
P value text | (alpha-TOH) |
Or beta | 0.04 |
%95 Ci | [0.020-0.060] mg/L increase |
Platform | Illumina [549989] |
CNV | N |
Mapped trait | response to vitamin |
Mapped trait URI | http://purl.obolibrary.org/obo/GO_0033273 |
Study accession | GCST001450 |
PubMed ID | 23281178 |
Journal | Hum Mutat |
Link | www.ncbi.nlm.nih.gov/pubmed/23281178 |
Study | A genome-wide assessment of variability in human serum metabolism. |
Disease/Trait | Metabolite levels |
Initial sample | 214 European ancestry prostate cancer cases, 188 European ancestry controls |
Replication sample | 489 European ancestry prostate cancer cases |
Region | 19p13.12 |
Chromosome id | chr19 |
Chromosome position | 15879621 |
Reported gene | CYP4F2 |
Mapped gene | CYP4F2 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 8529 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs2108622-T |
SNPs | rs2108622 |
Merged | 0 |
SNP id current | 2108622 |
Context | missense_variant |
Intergenic | 0 |
Allele frequency | NR |
P value | 9E-24 |
Pvalue mlog | 23.0457574905606 |
P value text | (Glycerolphosphocholine) |
Or beta | |
%95 Ci | |
Platform | Affymetrix [333722] |
CNV | N |
Mapped trait | metabolite measurement |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004725 |
Study accession | GCST001882 |
PubMed ID | 25411281 |
Journal | Am J Clin Nutr |
Link | www.ncbi.nlm.nih.gov/pubmed/25411281 |
Study | Meta-analysis of genome-wide association studies for circulating phylloquinone concentrations. |
Disease/Trait | Circulating phylloquinone levels |
Initial sample | 2,138 European ancestry individuals |
Replication sample | NA |
Region | 19p13.12 |
Chromosome id | chr19 |
Chromosome position | 15879621 |
Reported gene | CYP4F2 |
Mapped gene | CYP4F2 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 8529 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs2108622-T |
SNPs | rs2108622 |
Merged | 0 |
SNP id current | 2108622 |
Context | missense_variant |
Intergenic | 0 |
Allele frequency | 0.3 |
P value | 0.0000003 |
Pvalue mlog | 6.52287874528033 |
P value text | (Model 2) |
Or beta | 0.16 |
%95 Ci | [0.10-0.22] unit increase |
Platform | Affymetrix, Illumina [2543887] (imputed) |
CNV | N |
Mapped trait | vitamin K measurement |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004618 |
Study accession | GCST002653 |