rs3813929

A SNP in the HTR2C gene on chromosome X. Its most notable genotype is C;C: possible weight gain if taking olanzapine

Gene
HTR2C
Location
Chr X114,584,047 (GRCh38)
Highest magnitude
0.0Typical
Tested on
23andMe, AncestryDNA
Minor allele frequency
12%

Genotypes

As shown in 23andMe and AncestryDNA files.

  1. C;CMost notableBadpossible weight gain if taking olanzapineTypical · 0.090% of people
  2. C;TGoodnormalTypical · 0.05% of people
  3. T;TGoodnormalTypical · 0.05% of people

On SNPedia: (C;C), (C;T), (T;T). Magnitude rates how notable a genotype is from 0 to 10, not how risky it is.

Frequency

Share of each genotype in 7 HapMap populations.

  • AverageC;C 90% C;T 5% T;T 5%
  • Han Chinese (Beijing)C;C 82% C;T 7% T;T 11%
  • Japanese (Tokyo)C;C 86% C;T 9% T;T 5%
  • Yoruba (Nigeria)C;C 100% C;T 0% T;T 0%
  • African ancestry (Southwest US)C;C 96% C;T 2% T;T 2%
  • Luhya (Kenya)C;C 94% C;T 3% T;T 4%
  • Maasai (Kenya)C;C 91% C;T 5% T;T 4%
  • TuscanC;C 82% C;T 10% T;T 8%

Notes

From SNPedia

Show notes, about 300 words

rs3813929, also known as -759C/T, is a SNP in the 5-hydroxytryptamine (serotonin) receptor 2C HTR2C gene. A study of 107 patients with schizophrenia being treated with olanzapine reported a protective effect against weight-gain from the (T) allele of this SNP; zero patients (of 28) with a rs3813929(T) allele had a body mass index increase of >=10% (p=0.002), whereas (C;C) homozygotes did. This effect may also involve nearby SNP rs518147. T allele showed borderline significant association with higher BMI and incidence of lifetime major depressive disorder among 4978 persons from the European Prospective Investigation into Cancer (EPIC)-Norfolk study, however, only the association with BMI remained borderline significant within the full EPIC-Norfolk cohort (20,981 persons) The association between HTR2C polymorphisms and obesity in psychiatric patients using antipsychotics: a cross-sectional study. Association of the HTR2C gene and antipsychotic induced weight gain: a meta-analysis. The association between HTR2C gene polymorphisms and the metabolic syndrome in patients with schizophrenia. Multivariate permutation analysis associates multiple polymorphisms with subphenotypes of major depression. Focus on HTR2C: A possible suggestion for genetic studies of complex disorders. HTR2C gene polymorphisms and the metabolic syndrome in patients with schizophrenia: a replication study. Cohort profile: risk patterns and processes for psychopathology emerging during adolescence: the ROOTS project. Association of polymorphisms of the serotonergic system with smoking initiation in Caucasians. Pharmacogenetics and antipsychotics: therapeutic efficacy and side effects prediction. Functional consequences of two HTR2C polymorphisms associated with antipsychotic-induced weight gain.

Source and license

Adapted from rs3813929 on SNPedia, using a snapshot taken October 16, 2026. SNPedia content is shared under CC BY-NC-SA 3.0 US, and this page is shared under the same license.

SNPedia is a community-edited wiki. Its entries can be incomplete, out of date or wrong, and nothing here is a diagnosis or medical advice. Magnitude is a community rating of how interesting a genotype is, not a risk score.