Genome-wide association study identifies three novel loci for type 2 diabetes

Soumya Raychaudhuri, Kazuo Hara, Hayato Fujita, Todd A. Johnson, Toshimasa Yamauchi, Kazuki Yasuda, Momoko Horikoshi, Chen Peng, Cheng Hu, Ronald C W Ma, Minako Imamura, Minoru Iwata, Tatsuhiko Tsunoda, Takashi Morizono, Nobuhiro Shojima, Wing Yee So, Ting Fan Leung, Patrick Kwan, Rong Zhang, Jie WangWeihui Yu, Hiroshi Maegawa, Hiroshi Hirose, Kohei Kaku, Chikako Ito, Hirotaka Watada, Yasushi Tanaka, Kazuyuki Tobe, Atsunori Kashiwagi, Ryuzo Kawamori, Weiping Jia, Juliana C N Chan, Yik Ying Teo, Tai E. Shyong, Naoyuki Kamatani, Michiaki Kubo, Shiro Maeda, Takashi Kadowaki

    Research output: Contribution to journalArticlepeer-review


    Although over 60loci for type 2 diabetes (T2D) havebeenidentified, there still remains a large geneticcomponent to be clarified. To explore unidentified loci for T2D, we performed a genome-wide association study (GWAS) of 6 209 637 single-nucleotide polymorphisms (SNPs), which were directly genotyped or imputed using East Asian references from the 1000 Genomes Project (June 2011 release) in 5976 Japanese patients with T2D and 20 829 nondiabetic individuals. Nineteen unreported loci were selected and taken forward to follow-up analyses. Combined discovery and follow-up analyses (30 392 cases and 34 814 controls) identified three new loci with genome-wide significance, which were MIR129-LEP [rs791595; risk allele 5 A; risk allele frequency (RAF) 5 0.080; P 5 2.55 × 10-13; odds ratio (OR) 5 1.17], GPSM1 [rs11787792; risk allele 5 A; RAF 5 0.874; P 5 1.74 × 10-10; OR 5 1.15] and SLC16A13 (rs312457; risk allele 5 G; RAF 5 0.078; P 5 7.69 × 10-13; OR 5 1.20). This study demonstrates that GWASs based on the imputation of genotypes using modern reference haplotypes such as that from the 1000 Genomes Project data can assist in identification of new loci for common diseases. © The Author 2013. Published by Oxford University Press. All rights reserved.
    Original languageEnglish
    Article numberddt399
    Pages (from-to)239-246
    Number of pages7
    JournalHuman Molecular Genetics
    Issue number1
    Publication statusPublished - Jan 2014


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