{{Rsnum
|rsid=2650000
|Chromosome=12
|position=120951159
|Orientation=minus
|GMAF=0.3274
|Assembly=GRCh38
|GenomeBuild=38.1
|dbSNPBuild=141
|geno1=(G;G)
|geno2=(G;T)
|geno3=(T;T)
}}{{ population diversity
| geno1=(G;G)
| geno2=(G;T)
| geno3=(T;T)
| CEU | 41.6 | 44.2 | 14.2
| HCB | 30.7 | 50.4 | 19.0
| JPT | 9.7 | 59.3 | 31.0
| YRI | 89.8 | 10.2 | 0.0
| ASW | 80.4 | 19.6 | 0.0
| CHB | 30.7 | 50.4 | 19.0
| CHD | 33.9 | 46.8 | 19.3
| GIH | 33.7 | 45.5 | 20.8
| LWK | 78.2 | 20.9 | 0.9
| MEX | 48.3 | 41.4 | 10.3
| MKK | 62.8 | 35.9 | 1.3
| TSI | 40.2 | 48.0 | 11.8
| HapMapRevision=28
}}per the [http://blog.23andme.com/2008/12/08/new-papers-from-nature-genetics-yield-a-bounty-of-cholesterol-snps/ 23andMe blog], the minor allele of this SNP (A) was associated with increased LDL [[cholesterol]]
 
{| border="1"
|-
!SNP
!Rarer allele
!LDL
!HDL
!TG
|-
| [[rs6544713]] || T || + || ||
|-
| [[rs2650000]] || A || + || ||
|-
| [[rs471364]] || C || || - ||
|-
| [[rs1800961]] || T || || - ||
|-
| [[rs7679]] || C || || - || +
|-
| [[rs2967605]] || T || || - ||
|-
| [[rs2409722]] || T || || || -
|-
| [[rs10903129]] || A || - || - || -
|-
| [[rs6756629]] || A || - || + || -
|-
| [[rs12670798]] || C || + || + || +
|-
| [[rs7395662]] || A || - || + || +
|-
| [[rs174570]] || T || - || - || +
|-
| [[rs2271293]] || A || - || + || -
|-
| [[rs2624265]] || C || || || +
|-
| [[rs2167079]] || T || || + ||
|-
| [[rs9891572]] || T || || + ||
|-
| [[rs4844614]] || T || + || ||
|-
| [[rs5031002]] || G || + || ||
|-
|}

{{PMID Auto GWAS
|PMID=19060906
|Trait=LDL cholesterol
|Title=Common variants at 30 loci contribute to polygenic dyslipidemia
|RiskAllele=A
|Pval=2E-8
|OR=0.07
|ORtxt=[0.03-0.11] SD increase
|OA=1
}}
{{PMID Auto GWAS
|PMID=19060910
|Trait=Other metabolic traits
|Title=Genome-wide association analysis of metabolic traits in a birth cohort from a founder population
|RiskAllele=A
|Pval=3E-11
|OR=0.40
|ORtxt=[0.25-0.55] mmol/l decrease
|OA=1
}}

{{PharmGKB
|RSID=rs2650000
|Name_s=
|Gene_s=-
|Feature=
|Evidence=PubMed ID:19060906; Web Resource:http://www.genome.gov/gwastudies/
|Annotation=GWAS results: Common variants at 30 loci contribute to polygenic dyslipidemia. (Initial Sample Size: 19,840 individuals; Replication Sample Size: Up to 20,623 individuals); (Region: 12q24.31; Reported Gene(s): HNF1A; Risk Allele: rs2650000-A); (p-value= 0.00000002).This variant is associated with LDL cholesterol.
|Drugs=
|Drug Classes=
|Diseases=
|Curation Level=Non-Curated
|PharmGKB Accession ID=PA164740253
}}

{{PharmGKB
|RSID=rs2650000
|Name_s=
|Gene_s=-
|Feature=
|Evidence=PubMed ID:19060910; Web Resource:http://www.genome.gov/gwastudies/
|Annotation=GWAS results: Genome-wide association analysis of metabolic traits in a birth cohort from a founder population. (Initial Sample Size: 4,763 individuals; Replication Sample Size: NR); (Region: 12q24.31; Reported Gene(s): LEF1; Risk Allele: rs2650000-A); (p-value= 0.00000000003).This variant is associated with Other metabolic traits.
|Drugs=
|Drug Classes=
|Diseases=
|Curation Level=Non-Curated
|PharmGKB Accession ID=PA164740283
}}

{{PMID Auto
|PMID=18439548
|Title=Loci related to metabolic-syndrome pathways including LEPR,HNF1A, IL6R, and GCKR associate with plasma C-reactive protein: the Women's Genome Health Study.
|OA=1
}}

{{PMID Auto
|PMID=19474294
|Title=Potential etiologic and functional implications of genome-wide association loci for human diseases and traits.
|OA=1
}}

{{PMID Auto
|PMID=19951432
|Title=Analysis of recently identified dyslipidemia alleles reveals two loci that contribute to risk for carotid artery disease.
|OA=1
}}

{{GET Evidence
|impact=pathogenic
|qualified_impact=Insufficiently evaluated pathogenic
|inheritance=unknown
|quality_scores=Array
|dbsnp_id=rs2650000
|overall_frequency_n=100
|overall_frequency_d=128
|overall_frequency=0.78125
|n_genomes=53
|n_genomes_annotated=0
|n_haplomes=87
|n_articles=0
|n_articles_annotated=0
|in_gwas=Y
|in_pharmgkb=Y
|autoscore=2
|webscore=N
}}

{{on chip | 23andMe v1}}
{{on chip | 23andMe v2}}
{{on chip | 23andMe v3}}
{{on chip | 23andMe v4}}
{{on chip | Affy GenomeWide 6}}
{{on chip | HumanOmni1Quad}}
{{on chip | Illumina Human 1M}}