{"id":"hum0099","version":1,"url":"https://humandbs.dbcls.jp/research/hum0099/v1","datePublished":"2017-04-24","versions":[{"version":1,"datePublished":"2017-04-24"}],"title":{"ja":"ヒト免疫細胞における遺伝子多型と遺伝子発現の関連解析","en":"Expression quantitative trait loci analysis using human immune cells"},"summary":{"aims":{"ja":"ヒト免疫細胞における遺伝子多型と遺伝子発現の関連解析","en":"Expression quantitative trait loci analysis using human immune cells"},"methods":{"ja":"5種類の免疫細胞（CD4陽性T細胞、CD8陽性T細胞、B細胞、NK細胞、単球）からtotal RNAを、全血からgenomic DNAとtotal RNAを精製し、genotypingおよびRNA-seqを実施した。","en":"Total RNA from whole blood cells and five immune cell populations (CD4⁺ T cells, CD8⁺ T cells, B cells, NK cells, and monocytes) and genomic DNA isolated from whole blood cells were used for RNA-seq and genotyping, respectively."},"targets":{"ja":"日本人健常者 105名（男性21名、女性84名）、1名につき6 サンプル（5種類の免疫細胞+全血）","en":"105 Japanese healthy volunteers"},"url":{"ja":null,"en":null}},"listingSummary":{"methods":{"ja":"eQTL\n発現\nゲノムワイド関連","en":"eQTL, Expression profiling, Genome-wide association"},"targets":{"ja":"健常者：105名\n（日本人）","en":"105 healthy volunteers\n(Japanese)"},"typeOfData":{"ja":"NGS\n（RNA-seq）\nSNP-chip","en":"NGS\n(RNA-seq)\nSNP-chip"}},"releaseNote":{"ja":"健常者105名（男性21名、女性84名）の末梢血単核細胞から5種類の免疫細胞（CD4陽性T細胞、CD8陽性T細胞、B細胞、NK細胞、単球）を単離し、各細胞からtotal RNAを抽出した。また、全血からDNAとtotal RNAを抽出した。\nDNAに対しては、Infinium OmniExpressExome BeadChips（Illumina）を用いたgenotypingを実施し、total RNAに対しては、TruSeq Stranded mRNA Library Prep Kits（Illumina）を用いてRNA-seqのライブラリーを作成後、HiSeq 2500により平均長125bpを読んだ（paired-end）。\nRNA-seqの結果は制限公開データとして個別検体の遺伝子毎の発現量をFPKM値として提供する（txt）。また、SNPアレイ情報については非制限公開データとして統計解析結果を提供する（txt）。","en":"Total RNAs were extructed from five immune cell populations (CD4+ T cells, CD8+ T cells, B cells, NK cells and monocytes) and whole blood cells. Genomic DNAs were also extracted from whole blood cells.\nGenotyping was performed by Infinium OmniExpressExome BeadChips (Illumina). Libraries for RNA-seq were prepared using TruSeq Stranded mRNA Library Prep Kits (Illumina) and RNA-seq was performed with the Illumina HiSeq 2500 sequencer (125 bp, Paired-end).\nIndividual FPKM values are provided as Controlled-access data (txt) and results of statistical analysis are provided as Unrestricted-access data (txt)."},"dataProviders":[{"name":{"ja":"山本 一彦","en":"Kazuhiko Yamamoto"},"organization":{"name":{"ja":"東京大学大学院 医学系研究科 アレルギー・リウマチ内科","en":"The University of Tokyo, Graduate School of Medicine, Allergy and Rheumatology"}}},{"name":{"ja":"久保 充明","en":"Michiaki Kubo"},"organization":{"name":{"ja":"理化学研究所 統合生命医科学研究センター 疾患多様性医科学研究部門","en":"RIKEN Center for Integrative Medical Science"}}}],"researchProjects":[],"grants":[{"title":{"ja":"eQTLを基礎とした創薬標的の探索と治療法の開発","en":"Identification of treatment targets based on eQTL"},"agency":{"ja":"武田薬品工業株式会社との共同研究","en":"Collaboration with Takeda Pharmaceutical Company Limited."},"grantIds":null}],"relatedPublications":[{"title":"Polygenic burdens on cell-specific pathways underlie the risk of rheumatoid arthritis","doi":"https://doi.org/10.1038/ng.3885","datasets":["JGAD000085","NHA000051"]}],"datasets":["JGAD000085","NHA000051"],"controlledAccessUsers":[{"principalInvestigator":{"en":"Kyuyoung Song"},"affiliation":{"en":"Biochemistry and Molecular Biology, University of Ulsan college of medicine"},"country":{"ja":"韓国","en":"South Korea"},"researchTitle":{"ja":"Analysis of genome-wide association screening data for the identification of genes associated with inflammatory bowel disease in Koreans","en":"Analysis of genome-wide association screening data for the identification of genes associated with inflammatory bowel disease in Koreans"},"periodStart":"2018-08-06","periodEnd":"2019-09-24","datasets":["JGAD000085"]},{"principalInvestigator":{"ja":"浜田 道昭","en":"Michiaki Hamada"},"affiliation":{"ja":"浜田研究室, 理工学術院, 早稲田大学","en":"Hamada Laboratory, Faculty of Science and Engineering, Waseda University"},"country":{"ja":"日本","en":"Japan"},"researchTitle":{"ja":"RNA標的創薬データベースの構築","en":"Construction of RNA-targeted Drug Discovery Database"},"periodStart":"2023-01-05","periodEnd":"2027-10-31","datasets":["JGAD000085"]},{"principalInvestigator":{"ja":"高地 雄太","en":"Yuta Kochi"},"affiliation":{"ja":"難治疾患研究所ゲノム機能多様性分野, 東京医科歯科大学","en":"Department of Genomic Function and Diversity, Medical Research Institute, Tokyo Medical and Dental University"},"country":{"ja":"日本","en":"Japan"},"researchTitle":{"ja":"機能性遺伝子多型の網羅的解析を介した多因子疾患の病態解明","en":"Genetic study of complex diseases through comprehensive analysis of functional genetic variations"},"periodStart":"2023-04-12","periodEnd":"2028-03-31","datasets":["JGAD000085"]}]}