Sensitive

Systemic lupus erythematosus

LPP · rs6762714

Stands on its own. Nothing else here links to this position yet — but the page above is the point: what the research found, what each genotype means, and where it came from, in language you can read. Links to conditions, drugs and the senses appear automatically if we write them.

Strength of the evidence

1 / 4

Its strongest genetic-study result is p = 10⁻¹⁴, with 2 associations in the GWAS Catalog.

How this is scored

4: ClinVar disease-causing, reviewed by an expert panel or a guideline (3–4 stars). 3: ClinVar, several labs agreeing (2 stars), or a genetic study at p ≤ 10⁻⁵⁰. 2: ClinVar from one lab (1 star), or p ≤ 10⁻²⁰. 1: ClinVar submitted without criteria (0 stars), or genome-wide significance (p ≤ 5×10⁻⁸). The higher of the two counts. It says how solid the evidence is, not whether it matters for a particular person.

What the study found

Who was studied 1,659 Chinese ancestry cases, 3,398 Chinese ancestry controls, 4,036 European ancestry cases, 6,959 European ancestry controls; replicated in 3,043 Chinese ancestry cases, 5,074 Chinese ancestry controls, 2,643 European ancestry cases, 9,032 European ancestry controls.

The effect Each copy of the T allele carried 1.16 times the odds of Systemic lupus erythematosus (95% confidence interval 1.12-1.20); p = 4 × 10⁻¹⁵.

How common The T allele had a frequency of about 39% in the people studied.

Where it sits Chromosome 3, band 3q28 — in an intron of LPP.

How common each version is

CT

Korean KRGDB

C 19.0% · T 81.0%

Korean Korea4K

C 18.3% · T 81.7%

Korean Korea1K

C 18.3% · T 81.7%

Japanese ToMMo

C 18.6% · T 81.3%

Vietnamese

C 15.9% · T 84.1%

World gnomAD

C 46.7% · T 53.3%

World 1000 Genomes

C 34.7% · T 65.3%

World TOPMed

C 45.4% · T 54.6%

The share of all copies of this position that are each version. Source: the population studies published in dbSNP (US NCBI); each row names its study.

What each result means

C/C No copy of the version the research linked to Systemic lupus erythematosus. This is the starting point the study compared everyone against.

C/T One copy of the version the research linked to Systemic lupus erythematosus. That is a smaller link than two copies.

T/T Two copies of the version the research linked to Systemic lupus erythematosus. That is the strongest link of the three results. A link in a study is not a diagnosis.

Source

Genome-wide association meta-analysis in Chinese and European individuals identifies ten new loci associated with systemic lupus erythematosus

Morris DL, Sheng Y, Zhang Y, Wang YF, Zhu Z, Tombleson P, Chen L, Cunninghame Graham DS, Bentham J, Roberts AL, Chen R, Zuo X

and 20 more — show all

Wang T, Wen L, Yang C, Liu L, Yang L, Li F, Huang Y, Yin X, Yang S, Rönnblom L, Fürnrohr BG, Voll RE, Schett G, Costedoat-Chalumeau N, Gaffney PM, Lau YL, Zhang X, Yang W, Cui Y, Vyse TJ

Nature genetics · 2016 · PMID 27399966

Quoting this page

Licensed CC BY-NC 4.0: free to read, share and adapt for non-commercial use, naming MyGeneLog™ and linking the exact page. Commercial use, including training or serving a commercial AI system, needs a licence — https://www.mygenelog.com/license

Systemic lupus erythematosus (rs6762714). MyGeneLog™. https://www.mygenelog.com/variants/rs6762714

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