{"id":"hum0138","secondaryIds":[],"version":1,"url":"https://humandbs.dbcls.jp/research/hum0138/v1","datePublished":"2020-07-31","versions":[{"version":1,"datePublished":"2020-07-31"},{"version":2,"datePublished":"2021-03-26"}],"title":{"ja":"固形腫瘍における遺伝子異常の網羅的解析","en":"Clonal structure and oncogenic potential of liver cirrhosis tissues"},"summary":{"aims":{"ja":"肝がんの発生母地となる肝硬変再生結節の発がんポテンシャルを明らかにすること","en":"To elucidate the oncogenic potential of regeneration nodules in cirrhotic liver."},"methods":{"ja":"全エクソン解析および全トランスクリプトーム解析","en":"whole exome sequencing and RNA sequencing"},"targets":{"ja":"肝硬変および肝がん症例","en":"liver cirrhosis and hepatocellular carcinoma"},"url":{"ja":null,"en":null}},"listingSummary":{},"releaseNote":{"ja":"肝硬変および肝がん症例の腫瘍組織及び非腫瘍組織切片から抽出したDNA・RNAを用いた全エクソン解析および全トランスクリプトーム解析結果をfastqおよびbamファイルにて提供する。SureSelect Human All Exon v5を用いてExon領域にしぼりIllumina HiSeq 2500にて平均長100bpのDNA断片を解読した（Paired-end）。TruSeq RNA Sample Preparation v2キットによるRNAライブラリ作製後、Illumina HiSeq 4000にて平均長100bpを読んだ（Paired-end）。","en":"DNAs and RNAs were extracted from tumor, non-tumor and cirrhosis tissues of liver cirrhosis and hepatocellular carcinoma. Exons were narrowed down by using of SureSelect Human All Exon v5 and read by Illumina HiSeq 2500 (paired-end: 100 bp). Libraries for RNA-seq were prepared with TruSeq RNA Sample Preparation v2 and RNA-seq was performed with HiSeq 4000 (paired-end: 100 bp). Data are provided as fastq and bam files."},"dataProviders":[{"name":{"ja":"高井 淳","en":"Atsushi Takai"},"organization":{"name":{"ja":"京都大学大学院 医学研究科 消化器内科学","en":"Gastroenterology and Hepatology, Graduate School of Medicine, Kyoto University"}}}],"researchProjects":[],"grants":[{"title":{"ja":"肝硬変\"再生結節\"の細胞クローン動態と発癌機構の解明","en":"Role of regeneration nodule in cirrhotic liver on tumorigenesis"},"agency":{"ja":"科学研究費助成事業 基盤研究（B）","en":"KAKENHI Grant-in-Aid for Scientific Research (B)"},"grantIds":["17H04158"]}],"relatedPublications":[{"title":"Comprehensive analysis of genetic aberrations linked to tumorigenesis in regenerative nodules of liver cirrhosis.","doi":"https://doi.org/10.1007/s00535-019-01555-z","datasets":["JGAD000203"]}],"datasets":["JGAD000203"],"controlledAccessUsers":[{"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":["JGAD000203"]},{"principalInvestigator":{"en":"Jinyan Huang"},"affiliation":{"en":"Zhejiang University School of Medicine, 79 Qingchun Road, Hangzhou, 310003, Zhejiang, China. Biomedical big data center, the First Affiliated Hospital, Zhejiang University"},"country":{"ja":"中国","en":"China"},"researchTitle":{"en":"Comprehensive analysis of alternative splicing in malignant tumors"},"periodStart":"2022-03-15","periodEnd":"2024-01-01","datasets":["JGAD000203"]},{"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":["JGAD000203"]}]}