NBDC Research ID: hum0096.v1
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SUMMARY
Aims: To explore genetic alteratoins in pediatric T-cell acute lymphoblastic leukemia (T-ALL), we performed genome wide analysis using next generation sequencing methods.
Methods: We performed whole transcriptome sequencing in 123 pediatric T-ALL for detecting gene fusion and analysing gene expression.
Participants/Materials: 123 pediatric T-ALL patients
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000090 | NGS (RNA-seq) | Controlled-access (Type I) | 2017/05/25 |
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MOLECULAR DATA
| Participants/Materials | pediatric T-ALL patients (ICD10: C91.0): 123 cases |
| Targets | RNA-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2500] |
| Library Source | total RNAs extracted from bone marrow aspirates, peripheral blood cells, or lymph nodes of pediatric T-ALL patients |
| Cell Lines | - |
| Library Construction (kit name) |
Illumina TruSeq RNA Library Prep Kit NEB NEBNext Ultra RNA Library Prep Kit for Illumina |
| Fragmentation Methods | restriction enzyme reaction |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 108 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000090 |
| Total Data Volume |
927 GB Data files : 123 (bam [ref: hg19]) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Junko Takita
Affiliation: Department of Pediatrics, Graduate School of Medicine, The University of Tokyo
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| Project for Cancer Research and Therapeutic Evolution (P-CREATE), Japan Agency for Medical Research and Development (AMED) | Development for novel therapeutic stratagies of intractable cancers in children and adolescent and young adult using molecular profilings | JP16cm0106509 |
| KAKENHI Grant-in-Aid for Scientific Research (B) | Development for novel therapeutic stratagies of intractable pediatric cancers based on the multi-omics analysis | 17H04224 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Recurrent PU.1 (SPI1) fusions in high-risk pediatric T cell acute lymphoblastic leukemia | doi: 10.1038/ng.3900 | JGAD000090 |
| 2 |
USRES (Controlled-access Data)
| Principal Investigator: | Affiliation: | 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 | JGAD000090 | 2017/07/19-2018/04/01 |
| BERNARD Olivier | Institut Gustave Roussy | JGAD000090 | 2017/09/14-2019/12/31 |
| Jun J Yang | Department of Pharmaceutical Science, St. Jude Children's Hospital | JGAD000090 | 2019/04/11-2019/07/07 |
