NBDC Research ID: hum0365.v1
SUMMARY
Aims: Diabetes is a major disease in the elderly and is responsible for an increased risk of myocardial infarction and stroke. Recently, the relationship between microbiota and diabetes has been reported in animals and humans. In this study, blood, stool, and saliva samples were collected from examinees at the University of Tokyo Health Screening Center, and 16S rRNA and metagenomic analyses were performed to determine the variation of microbiota. Furthermore, metabolome and transcriptome analyses using blood were performed to reveal changes in host metabolites and gene expression. By comparing the host- and bacteria-derived information with the metabolic parameters, we analyzed whether microbiota can be a predictor of metabolic diseases.
Methods: RNAs were extracted from peripheral blood mononuclear cells and used for CAGE-seq analysis.
Participants/Materials: 298 individuals (including 103, 98, and 97 individuals from normoglycemic lean, obese, and prediabetic groups, respectively) underwent their annual health check-up at the University of Tokyo Hospital.
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000569 | NGS (CAGE-seq) | Controlled-access (Type I) | 2023/06/09 |
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MOLECULAR DATA
| Participants/Materials |
normoglycemic individuals: 103 cases obese (ICD10: E669): 98 cases pre-diabetes (ICD10: E11, R730): 97 cases |
| Targets | CAGE-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [Hiseq 2500] |
| Library Source | RNAs extracted from peripheral blood mononuclear cells |
| Cell Lines | - |
| Library Construction (kit name) | dual index nanoCAGE protocol (Salimulla et al. 2011, Cold Spring Harbor Protocols) |
| Fragmentation Methods | - |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 50 bp |
| Mapping Methods | BWA version 0.5.9 |
| Mapping Quality | rDNA and low quality read filtering with MOIRAI pipeline (Hasegawa et al., BMC Bioinformatics 2014) |
| Reference Genome Sequence | hg38 |
| Coverage (Depth) | - |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000695 |
| Total Data Volume | 457.2 GB (bam) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Hiroshi Ohno
Affiliation: Laboratory for Intestinal Ecosystem, RIKEN Center for Integrative Medical Sciences
Project / Group Name:-
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| Kanagawa Institute of Industrial Science and Technology | ||
| ONO Medical Research Foundation |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Gut microbial carbohydrate metabolism contributes to insulin resistance | doi: 10.1038/s41586-023-06466-x | JGAD000695 |
| 2 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
