CHLSN, variants, traits, and what the research shows

CHLSN - what this gene does

Variants in CHLSN are associated with three broad trait themes in genome-wide association studies (GWAS - a research method that scans genetic positions across large populations to find variants statistically linked to traits): cancer, metabolic traits, and cardiovascular traits. The available data do not characterize the gene's precise molecular function, so this entry describes those trait associations rather than making mechanistic claims.

Key takeaways

• The highest-scoring variant in this gene, rs9639696 (magnitude 4.50), carries a cancer association - the lone cancer signal in the top tier.
• More than a dozen catalogued variants are linked to metabolic traits, making metabolism the broadest single theme in the gene's variant catalog.
• One variant, rs10262232, is associated with a cardiovascular trait, extending the gene's phenotypic reach beyond metabolism.
• 73 variants are on file in total; most are GWAS associations with population-level effect sizes, not individual predictions.
• Magnitude scores reflect a composite of effect size and evidence strength; higher scores indicate comparatively stronger or better-supported signals.

Notable variants

The standout signal in this gene is rs9639696 (magnitude 4.50), a cancer-linked variant whose score sits more than a full point above the next tier. Variants rs1405310498 and rs141160829 each reach magnitude 3.00, though neither carries a trait label in the current dataset. rs10256972 (magnitude 2.80) sits just below that tier. Among the magnitude-2.20 group, rs10262232 is the sole cardiovascular-linked variant, while a cluster of metabolic-labeled variants includes rs10229964, rs10233430, rs10241018, rs1057558, rs10265736, and rs111705570, among others.

Trait associations

• Cancer: rs9639696 is the only cancer-flagged variant in the catalogued list and holds the highest magnitude score (4.50) in the gene. The specific cancer type is not specified in the available metadata.
• Metabolic traits: A broad cluster of variants at magnitude 2.20 carries metabolic trait labels, including rs10229964, rs10233430, rs10241018, rs10265736, rs10266519, rs10272002, rs10275712, rs10282584, rs1057558, rs111705570, rs111899361, and rs113642700. The breadth of this cluster is notable, though the specific metabolic phenotypes are not detailed in the current catalog.
• Cardiovascular: rs10262232 (magnitude 2.20) is the sole cardiovascular-linked variant in the published list.

Evidence quality

The strongest individual signal, rs9639696 at magnitude 4.50, stands out by the catalog's internal scoring, but specific study sample sizes, replication cohorts, and effect-size statistics such as odds ratios or beta coefficients are not available in the current metadata. The large metabolic cluster - twelve or more variants sharing the same magnitude tier - shows phenotypic breadth; whether these represent distinct biological signals or correlated tagging variants at a shared locus cannot be determined from the metadata alone. Several high-tier variants including rs1405310498 and rs141160829 lack trait labels entirely, limiting their interpretation. No variants in this dataset are annotated as ClinVar pathogenic or likely pathogenic entries.

What this is NOT

These variants are population-level statistical signals from genome-wide association studies; they describe patterns across large groups and carry no deterministic predictive value for any individual. This entry does not constitute medical advice, a diagnosis, or a recommendation of any kind.