NBDC Research ID: hum0251.v1
SUMMARY
Aims: Elucidation of molecular pathology for B-cell acute lymphocytic leukemia (B-ALL) by genomic analysis
Methods: RNA Sequencing and target capture sequencing analyses
Participants/Materials: Philadelphia chromosome-negative (Ph-negative) B-ALL
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000278 | NGS (RNA-seq, Target Capture) | Controlled-access (Type I) | 2022/10/25 |
* Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data. Learn more
MOLECULAR DATA
| Participants/Materials | Ph-negative B-ALL (ICD10: C91.0): 122 cases |
| Targets | RNA-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2500] |
| Library Source | RNA extracted from leukemia cells |
| Cell Lines | - |
| Library Construction (kit name) | NEBNext Ultra Directional RNA Library Prep Kit |
| Fragmentation Methods | Heat treatment |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 125 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000384 |
| Total Data Volume | 681.6 GB (fastq) |
| Comments (Policies) | NBDC policy |
| Participants/Materials | Ph-negative B-ALL (ICD10: C91.0): 148 cases |
| Targets | Target Capture |
| Target Loci for Capture Methods | 110 genes |
| Platform | Illumina [HiSeq 2500] |
| Library Source | DNA extracted from leukemia cells |
| Cell Lines | - |
| Library Construction (kit name) | SureSelect XT Low Input |
| Fragmentation Methods | Ultrasonic fragmentation (Covaris) |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 125 bp |
| Mapping Methods | bwa |
| Mapping Quality | > 20 |
| Reference Genome Sequence | hg19 |
| Coverage (Depth) | 570 |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000384 |
| Total Data Volume | 681.6 GB (bam) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Yoshihiro Hatta
Affiliation: Division of Hematology and Rheumatology, Nihon University School of Medicine
Project / Group Name: JALSG Ph(-)B-ALL213
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| Practical Research for Innovative Cancer Control, Japan Agency for Medical Research and Development (AMED) | Treatment with a pediatric protocols and stritified strateiesy by gene panel testing for adolescents and young adults with acute lymphoblastic leukemia | JP19ck0106331 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Two novel high-risk adult B-cell acute lymphoblastic leukemia subtypes with high expression of CDX2 and IDH1/2 mutations | doi: 10.1182/blood.2021011921 | JGAD000384 |
| 2 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
