Low-frequency and rare variants may contribute to elucidate the genetics of major depressive disorder

Chenglong Yu, Mauricio Arcos-Burgos, Bernhard T. Baune, Volker Arolt, Udo Dannlowski, Ma Li Wong, Julio Licinio

Research output: Contribution to journalArticlepeer-review

22 Scopus citations


Major depressive disorder (MDD) is a common but serious psychiatric disorder with significant levels of morbidity and mortality. Recent genome-wide association studies (GWAS) on common variants increase our understanding of MDD; however, the underlying genetic basis remains largely unknown. Many studies have been proposed to explore the genetics of complex diseases from a viewpoint of the "missing heritability" by considering low-frequency and rare variants, copy-number variations, and other types of genetic variants. Here we developed a novel computational and statistical strategy to investigate the "missing heritability" of MDD. We applied Hamming distance on common, low-frequency, and rare single-nucleotide polymorphism (SNP) sets to measure genetic distance between two individuals, and then built the multi-dimensional scaling (MDS) pictures. Whole-exome genotyping data from a Los Angeles Mexican-American cohort (203 MDD and 196 controls) and a European-ancestry cohort (473 MDD and 497 controls) were examined using our proposed methodology. MDS plots showed very significant separations between MDD cases and healthy controls for low-frequency SNP set (P value < 2.2e-16) and rare SNP set (P value = 7.681e-12). Our results suggested that low-frequency and rare variants may play more significant roles in the genetics of MDD.

Original languageEnglish (US)
Article number70
JournalTranslational Psychiatry
Issue number1
StatePublished - Dec 1 2018

All Science Journal Classification (ASJC) codes

  • Psychiatry and Mental health
  • Cellular and Molecular Neuroscience
  • Biological Psychiatry


Dive into the research topics of 'Low-frequency and rare variants may contribute to elucidate the genetics of major depressive disorder'. Together they form a unique fingerprint.

Cite this