NBDC Research ID: hum0229.v1
SUMMARY
Aims: Identification of age associated molecular markers from blood cells using a single-cell RNA-seq technology
Methods: Single-cell RNA-seq using 10X Genomics library kit
Participants/Materials: Supercentenarian (over 110 years old), family members, and unrelated donors
URL: https://aging-project.riken.jp/en/research/piero-carninci/
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000230 | NGS (scRNA-seq) | Controlled-access (Type I) | 2020/05/15 |
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MOLECULAR DATA
| Participants/Materials |
7 supercentenarians (7 for total RNA library, 2 of 7 for TCR library) 2 family members 2 unrelated donors |
| Targets | scRNA-seq |
| Target Loci for Capture Methods | TCR library: TCR region |
| Platform | Illumina [HiSeq 2500] |
| Library Source |
total RNA library: RNAs extracted from PBMC TCR library: RNAs extracted from CD4+ T Cell |
| Cell Lines | - |
| Library Construction (kit name) |
total RNA library: Chromium Single Cell 3ʹ v2 Reagent Kits TCR library: Chromium Single Cell 5ʹ Library Kit, Chromium Single Cell V(D)J Enrichment Kits |
| Fragmentation Methods | Enzymatic Fragmentation |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) |
total RNA library: 98 bp TCR library: 150 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000324 |
| Total Data Volume | 676 GB (fastq) |
| Comments (Policies) |
DATA PROVIDER
Principal Investigator: Piero Carninci
Affiliation: RIKEN Center for Integrative Medical Sciences
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Single-cell transcriptomics reveals expansion of cytotoxic CD4 T cells in supercentenarians. | doi: 10.1073/pnas.1907883116 | JGAD000324 |
| 2 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
| Bo Li | Lyda Hill Department of Bioinformatics, UT Southwestern Medical Center | Identify novel age-related biomarkers through T cell repertoire sharing | JGAD000324 | 2020/08/17-2021/06/20 | |
| Elizabeth Anne Gaskell | Broad Institute of MIT and Harvard | United States of America | Investigating transcriptomic and epigenomic alterations over human aging | JGAD000324 | 2022/11/09-2024/08/26 |
| Mohammad Mahdi Karimi | King's College London | United Kingdom of Great Britain and Northern Ireland | Functional role of transposable elements in ageing | JGAD000324 | 2023/07/18-2024/12/31 |
