NBDC Research ID: hum0130.v1
Click to Latest version.
SUMMARY
Aims: To compare genetic features of plasma cells from polyneuropathy, organomegaly, endocrinopathy, M-Protein, and skin changes (POEMS) syndrome, multiple myeloma (MM), and monoclonal gammopathy of undetermined significance (MGUS).
Methods: Genomic analysis of POEMS syndrome, and gene expression analysis of 3 dieases.
Participants/Materials: Plasma cells from POEMS syndrome, MM, and MGUS
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000150 | NGS (Exome, Target Capture, RNA-seq) | Controlled-access (Type I) | 2019/01/18 |
*Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data. Learn more
MOLECULAR DATA
| Participants/Materials | POEMS syndrome (ICD10: C90.2): 15 cases |
| Targets | Exome |
| Target Loci for Capture Methods | Coding exons |
| Platform | Illumina [HiSeq 2500] |
| Library Source | DNA purified from Plasma cells or buccal cell of POEMS syndrome, MM, MGUS |
| Cell Lines | - |
| Library Construction (kit name) | SureSelect Human ALL Exon V5 |
| Fragmentation Methods | Ultrasonic fragmentation |
| Spot Type | Paired-end or Single-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 121 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000226 |
| Total Data Volume | 171 GB (bam [ref: hg19]) |
| Comments (Policies) | NBDC policy |
| Participants/Materials | POEMS syndrome (ICD10: C90.2): 20 cases |
| Targets | Target Capture |
| Target Loci for Capture Methods | Coding exons |
| Platform | Illumina [MiSeq] |
| Library Source | DNA purified from Plasma cells or buccal cell of POEMS syndrome, MM, MGUS |
| Cell Lines | - |
| Library Construction (kit name) | custom designed SureSelect XT2 Kit |
| Fragmentation Methods | Ultrasonic fragmentation |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 273 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000226 |
| Total Data Volume | 171 GB (bam [ref: hg19]) |
| Comments (Policies) | NBDC policy |
| Participants/Materials |
POEMS syndrome (ICD10: C90.2): 5 cases MM (ICD10: C90.0): 4 cases MGUS (ICD10: D47.2): 5 cases |
| Targets | RNA-seq |
| Target Loci for Capture Methods | |
| Platform | Illumina [HiSeq 1500] |
| Library Source | RNA purified from Plasma cells or buccal cell of POEMS syndrome, MM, MGUS |
| Cell Lines | - |
| Library Construction (kit name) | SMART-Seq v4 Ultra Low Input RNA Kit for Sequencing, NEBNext Ultra DNALibrary Prep Kit |
| Fragmentation Methods | Ultrasonic fragmentation |
| Spot Type | Single-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 60 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000226 |
| Total Data Volume | 171 GB (fastq) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Emiko Sakaida
Affiliation: Chiba University Graduate school of Medicine, Clinical Cell Bilogy and Medicine
Project / Group Name:
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| KAKENHI Grant-in-Aid for Scientific Research (C) | Genetic and transcriptional landscape of plasma cells in POEMS syndrome | 26461397 |
| KAKENHI Grant-in-Aid for Scientific Research (C) | Clonal immunoglobulin lamda light-chain gene rearrangements detected by NGS in POEMS syndrome | 15K09494 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Genetic and transcriptional landscape of plasma cells in POEMS syndrome. | doi: 10.1038/s41375-018-0348-x | JGAD000226 |
| 2 |
USRES (Controlled-access Data)
| Principal Investigator: | Affiliation: | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|
