Kyuto Sonehara

Nov 19, 2024 | onlinelibrary.wiley.com | Kyuto Sonehara |Yukinori Okada

eQTL expression QTL GCT germ cell tumor GWAS genome-wide association study IGCT intracranial GCT LD linkage disequilibrium miRNA microRNA molQTL molecular QTL pQTL protein QTL PRS polygenic risk score QTL quantitative trait loci SNP single nucleotide polymorphism TCGA The Cancer Genome Atlas TGCT testicular GCT TWAS transcriptome-wide association study 1 INTRODUCTION Cancer has heritable components, as evidenced by epidemiological studies.1, 2 In the 1980–1990s, studies using candidate gene...

Nov 11, 2024 | nature.com | Kenichi Yamamoto |Shinichi Namba |Kyuto Sonehara |Ken Suzuki |Saori Sakaue |Koichi Matsuda | +2 more

AbstractThe tripartite ancestral structure is a recently proposed model for the genetic origin of modern Japanese, comprising indigenous Jomon hunter-gatherers and two additional continental ancestors from Northeast Asia and East Asia. To investigate the impact of the tripartite structure on genetic and phenotypic variation today, we conducted biobank-scale analyses by merging Biobank Japan (BBJ; n = 171,287) with ancient Japanese and Eurasian genomes (n = 22).

Oct 13, 2024 | nature.com | Shinichi Namba |Masato Akiyama |Haruka Hamanoue |Itaru Kushima |Koichi Matsuda |Masahiro Nakatochi | +4 more

Private enterprises offer preimplantation genetic testing with polygenic scores to select embryos with ‘desirable’ potential. In silico simulations using biobank resources show that the selected embryo would rely substantially on the choice of polygenic score method and randomness in score construction, which raises ethical concerns.

Sep 27, 2024 | nature.com | Qingbo Wang |Ho Namkoong |Ryunosuke Saiki |Kyuto Sonehara |Shuhei Azekawa |Yugo Takahashi | +12 more

Correction to: Nature Genetics https://doi.org/10.1038/s41588-024-01896-3, published online 24 September 2024. In the version of the article initially published, there was an error in the x-axis label of Fig. 1a, where in the text now reading “pQTL –log10(P) ≥ x” it originally read “… ≤ x.” In the keys to both graphs in Fig. 7b, the blue dot was listed as “β > 0” and has now been amended to “β < 0.” The symbols are corrected in the HTML and PDF versions of the article.

Sep 24, 2024 | nature.com | Qingbo Wang |Ho Namkoong |Ryunosuke Saiki |Kyuto Sonehara |Shuhei Azekawa |Saori Sakaue | +12 more

AbstractStudying the genetic regulation of protein expression (through protein quantitative trait loci (pQTLs)) offers a deeper understanding of regulatory variants uncharacterized by mRNA expression regulation (expression QTLs (eQTLs)) studies. Here we report cis-eQTL and cis-pQTL statistical fine-mapping from 1,405 genotyped samples with blood mRNA and 2,932 plasma samples of protein expression, as part of the Japan COVID-19 Task Force (JCTF).