LY9 · rs540254
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
Its strongest genetic-study result is p = 10−19, with 3 associations in the GWAS Catalog.
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 997 European ancestry individuals; replicated in 338 Greater Middle Eastern (Middle Eastern, North African or Persian), South Asian ancestry, Asian ancestry individuals.
The effect Each copy of the C allele shifted the measure 0.417 higher (95% confidence interval 0.33-0.51); p = 8 × 10−20.
Where it sits Chromosome 1, band 1q23.3 — in an intron of LY9.
How common each version is
CT
C 45.7% · T 54.3%
C 44.6% · T 55.4%
C 47.2% · T 52.8%
C 51.4% · T 48.6%
C 34.4% · T 65.6%
C 33.1% · T 66.9%
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.
rs540254 is a single position in the genome, in or near the LY9 gene. Published research associates it with t-lymphocyte surface antigen ly-9 levels. A single variant does not decide an outcome — it shifts a probability, and for most common variants the shift is small.
No. Common variants like this one move a probability slightly and, on their own, rarely decide anything about one person. Nothing on this page is a diagnosis, and health decisions should be made with a clinician who can see your whole picture.
GWAS Catalog, Nature communications 2017, PMID:28240269. Every variant on MyGeneLog comes from public primary sources and is published with its citation and the date it was checked.
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T-lymphocyte surface antigen Ly-9 levels (rs540254). MyGeneLog™. https://www.mygenelog.com/variants/rs540254