NBDC Research ID: hum0481.v1
SUMMARY
Aims: Identification of genes associated with Alzheimer's disease and its application of the disease prediction model
Methods: RNA-seq of peripheral blood cells
Participants/Materials: Alzheimer's disease, Mild cognitive impairment Alzheimer's disease, Mild cognitive impairment
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000755 | NGS (RNA-seq) | Controlled-access (Type I) | 2024/11/25 |
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MOLECULAR DATA
| Participants/Materials |
Alzheimer's disease (ICD10: F00): 424 cases (424 samples) Mild cognitive impairment Alzheimer's disease (ICD10: F06.7): 543 cases (424 samples) Mild cognitive impairment: 260 individuals (260 samples) |
| Targets | RNA-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [NovaSeq 6000] |
| Library Source | RNAs extracted from peripheral blood cells |
| Cell Lines | - |
| Library Construction (kit name) | TruSeq Stranded Total RNA with Ribo-Zero Globin, IDT for Illumina TruSeq UD Indexes |
| Fragmentation Methods | Enzymatic fragmentation (Elute, Prime, Fragment High Mix) |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 151 bp |
| Mapping Methods | STAR (ver. 2.5.2b) |
| Reference Genome Sequence | GRCh37 |
| Detecting method for read count (software) | subread package (ver. 1.6.6) |
| QC | FastQC (ver. 0.11.7), Cutadapt (ver. 1.16) |
| Gene Number | 57820 |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000896 |
| Total Data Volume | 237.4 MB (TPM matrix data: txt) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Daichi Shigemizu
Affiliation: Medical Genome Center, Research Institute, National Center for Geriatrics and Gerontology
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| Research Funding for Longevity Sciences, National Center for Geriatrics and Gerontology | Exploration of dementia-related factors and modules and development of a risk prediction model using AI | 21-24 |
| Research Funding for Longevity Sciences, National Center for Geriatrics and Gerontology | Identifying genetic mutations related to geriatric diseases through large-scale genome analysis and developing risk prediction models using AI | 24-11 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Alzheimer’s disease may develop from changes in the immune system, cell cycle, and protein processing following alterations in ribosome function | JGAD000896 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
