{"id":"hum0055","version":1,"url":"https://humandbs.dbcls.jp/research/hum0055/v1","datePublished":"2017-02-20","versions":[{"version":1,"datePublished":"2017-02-20"}],"title":{"ja":"非アルコール性脂肪肝疾患のゲノム・エピゲノム解析","en":"Genetic and epigentic analysis of non-alcoholic fatty liver disease"},"summary":{"aims":{"ja":"ゲノムワイドなエピゲノム解析（mRNA発現定量）を用いた検討により、非アルコール性脂肪肝性疾患（non-alcoholic fatty liver disease：NAFLD）の発症や進展に関連した遺伝子を同定し、その病態を明らかにする。","en":"To elucidate the mRNA expression related to the development and/or progression of non-alcoholic fatty liver disease (NAFLD)."},"methods":{"ja":"肝臓組織から抽出したmRNAを対象としたRNA-seq解析、および、肝臓組織から抽出したDNAを対象としたメチル化アレイ解析","en":"RNA-seq and Methylation array analysis by using of mRNA or DNA purified from liver tissues"},"targets":{"ja":"NAFLD患者由来の肝臓組織56検体についてはRNAシークエンスとメチル化解析の両方、4検体はRNAシークエンスのみ、4検体はDNAメチル化解析のみ、（計64検体）","en":"64 NAFLD patients"},"url":{"ja":null,"en":null}},"listingSummary":{"methods":{"ja":"発現\nメチル化","en":"Expression profiling, methylation profiling"},"targets":{"ja":"NAFLD：64症例\n（日本人）","en":"64 NAFLD patients\n(Japanese)"},"typeOfData":{"ja":"NGS\n（RNA-seq）\nメチル化アレイ","en":"NGS\n(RNA-seq)\nMethylation array"}},"releaseNote":{"ja":"非アルコール性脂肪肝疾患患者由来の肝臓組織から抽出したmRNAを使用したRNA-seq解析の結果をFastqファイルで、肝臓組織から抽出したDNAを使用したメチル化アレイ解析をtxtファイル（メチル化のβ値）にて提供する。\nRNA-seqは、Agilent SureSelectXT RNA Target Enrichment for Illumina Multiplexed SequencingによるRNAライブラリ作製後、HiSeq 2500にて平均長100 ベースを読んだ（Paired-end）。\n肝臓組織から抽出したDNAを対象としてIllumina社Human Methylation 450K BeadChipによるメチル化解析を実施。メチル化率のβ値を計算した。","en":"Human liver mRNA or DNA purified from non-alcoholic fatty liver disease patients were used for RNA-seq (fastq) and Methylation array (txt [β value of methylation]).\nAgilent SureSelectXT RNA Target Enrichment for Illumina Multiplexed Sequencing was used for preparing libraries and read by Illumina HiSeq 2500 (paired-end: 100 bp).\nIllumina Infinium® Human Methylation 450K BeadChip was used for Methylation analysis."},"dataProviders":[{"name":{"ja":"堀田 紀久子","en":"Kikuko Hotta"},"organization":{"name":{"ja":"大阪大学 医学部附属病院 未来医療開発部","en":"Department of Medical Innovation, Osaka University Hospital"}}}],"researchProjects":[],"grants":[{"title":{"ja":"異所性脂肪蓄積の遺伝素因と環境因子の検索と前向き追跡調査での検証","en":"Genetic predisposition and environmental factor retrieval of ectopic fat accumulation and their verification in prospective follow-up survey"},"agency":{"ja":"科学研究費助成事業 基盤研究（C）","en":"KAKENHI Grant-in-Aid for Scientific Research (C)"},"grantIds":["25461343"]},{"title":{"ja":"非アルコール性脂肪肝疾患のゲノム・エピゲノム解析による病態解明と診断方法の開発","en":"Elucidation of pathology and development of diagnosis method of nonalcoholic fatty liver disease by using genomic, and epigenomic analysis"},"agency":{"ja":"科学研究費助成事業 基盤研究（C）","en":"KAKENHI Grant-in-Aid for Scientific Research (C)"},"grantIds":["16K09781"]},{"title":{"ja":"非アルコール性脂肪肝障害の発症・進行に関連する遺伝素因と環境因子の解析","en":"Analysis of genetic predisposition and environmental factors related to the onset and progression of nonalcoholic fatty liver disease"},"agency":{"ja":"科学研究費助成事業 基盤研究（C）","en":"KAKENHI Grant-in-Aid for Scientific Research (C)"},"grantIds":["26460999"]}],"relatedPublications":[{"title":"Identification of core gene networks and hub genes associated with progression of nonalcoholic fatty liver disease by RNA sequencing","doi":"https://doi.org/10.1111/hepr.12877","datasets":["JGAD000059"]},{"title":"Identification of the genomic region under epigenetic regulation during nonalcoholic fatty liver disease progression.","doi":"https://doi.org/10.1111/hepr.12992","datasets":["JGAD000059"]}],"datasets":["JGAD000059"],"controlledAccessUsers":[{"principalInvestigator":{"en":"Pablo Giraudi"},"affiliation":{"en":"Fondazione Italiana Fegato (ONLUS)"},"country":{"ja":"イタリア","en":"Italy"},"researchTitle":{"ja":"Meta-analysis of omics data on non-alcoholic fatty liver disease. Implications for the improvement of an in silico strategy for biomarkers discovery on liver fibrosis","en":"Meta-analysis of omics data on non-alcoholic fatty liver disease. Implications for the improvement of an in silico strategy for biomarkers discovery on liver fibrosis"},"periodStart":"2018-12-18","periodEnd":"2021-02-08","datasets":["JGAD000059"]},{"principalInvestigator":{"ja":"野島 正寛","en":"Masanori Nojima"},"affiliation":{"ja":"医科学研究所, 東京大学","en":"The Institute of Medical Science, The University of Tokyo"},"country":{"ja":"日本","en":"Japan"},"researchTitle":{"ja":"非アルコール性脂肪性肝疾患における発癌リスク予測モデル開発を目標としたゲノム網羅的DNAメチル化解析","en":"Genome-wide DNA methylation analysis for the development of prediction model for subsequent hepato-cellular carcinoma in non-alcoholic fatty liver disease patients"},"periodStart":"2019-01-21","periodEnd":"2022-03-28","datasets":["JGAD000059"]},{"principalInvestigator":{"en":"Robert Tsai"},"affiliation":{"en":"Institute of Biosciences & Technology, Texas A&M Health Science Center"},"country":{"ja":"アメリカ合衆国 (テキサス州)","en":"Texas, United States"},"researchTitle":{"en":"Genome-wide Discovery of new Plasma DNA Methylation Markers for Tracking the Progression of NAFLD to NASH and HCC"},"periodStart":"2020-11-09","periodEnd":"2023-07-25","datasets":["JGAD000059"]},{"principalInvestigator":{"ja":"堀田 紀久子","en":"Kikuko Hotta"},"affiliation":{"ja":"薬学部　薬物治療学講座, 大阪大谷大学","en":"Laboratory of Pathophysiology and Pharmacotherapeutics  Faculty of Pharmacy, Osaka Ohtani University"},"country":{"ja":"日本","en":"Japan"},"researchTitle":{"ja":"データベースを用いた肝臓疾患（非アルコール性脂肪肝疾患、ウイルス性肝炎、アルコール性肝炎、肝硬変、肝臓癌）のゲノム・エピゲノム解析","en":"Genomic and epigenomic analysis of liver disease (nonalcoholic fatty liver disease, virus hepatitis, alcoholic hepatitis, cirrhosis, and hepatocellular carcinoma) "},"periodStart":"2021-11-11","periodEnd":"2023-04-05","datasets":["JGAD000059"]},{"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":["JGAD000059"]}]}