NBDC Research ID: hum0045.v1
SUMMARY
Aims: Screening of oncogenic fusion genes in acute lymphoblastic leukemia (ALL) in adolescents and young adults
Methods: RNA-seq by using HiSeq 2000 / 2500
Participants/Materials: 99 Philadelphia chromosome-negative (Ph-) ALLs, 3 Philadelphia chromosome-positive (Ph+) ALLs, 5 cell lines, 8 normal hematopoietic cells
URL: https://www.ncc.go.jp/en/ri/division/genetics/index.html
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000047 | NGS (RNA-seq) | Controlled-access (Type I) | 2016/03/29 |
*Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data. Learn more
MOLECULAR DATA
| Participants/Materials |
99 Ph- ALLs 3 Ph+ ALLs, 5 cell lines 8 normal hematopoietic cells |
| Targets | RNA-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2000/2500] |
| Library Source |
[Ph- / + ALL cases] mRNA extracted from peripheral blood cells or bone marrow aspirates [cell lines, normal hematopoietic cells] mRNA extracted from cultured cells |
| Cell Lines | cell lines, normal hematopoietic cells (Takara/Lonza) |
| Library Construction (kit name) | NEBNext Ultra Directional RNA Library Prep Kit for Illumina |
| Fragmentation Methods | Heat treatment |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 104 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000047 |
| Total Data Volume | 3.29 TB (fastq) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Hiroyuki Mano
Affiliation: Division of Cellular Signaling, National Cancer Center Research Institute
Project / Group Name: -
URL: https://www.ncc.go.jp/en/ri/division/genetics/index.html
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| Leading Advanced Projects for medical innovation (LEAP), Advanced Research & Development Programs for Medical Innovation, Japan Agency for Medical Research and Development (AMED) | Projects for exploration of therapeutic targets in cancer | 15653406 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Recurrent DUX4 fusions in B-cell acute lymphoblastic leukemia of adolescents and young adults | doi:10.1038/ng.3535 | JGAD000047 |
USERS (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
| Jinyan Huang | Shanghai Jiao Tong University School of Medicine, State Key Laboratory Of Medical Genomics, Rui-jin Hospital | JGAD000047 | 2016/5/23-2017/4/1 | ||
| Robert Bradley | Fred Hutchinson Cancer Research Center, Public Health Science | JGAD000047 | 2016/08/04-2016/12/27 | ||
| Christine Harrison | Northern Institute for Cnacer Research, Newcastle University | JGAD000047 | 2019/05/07-2025/05/01 | ||
| Jinyan Huang | School of Medicine, Zhejiang University | Comprehensive analysis of alternative splicing in malignant tumors | JGAD000047 | 2022/03/07-2024/01/01 | |
| Michiaki Hamada | Faculty of Science and Engineering, Waseda University | Japan | Construction of RNA-targeted Drug Discovery Database | JGAD000047 | 2022/12/26-2025/03/31 |
