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 |
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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 |
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