Gut microbiota of healthy Japanese adults in Tokyo
Cross-sectional shotgun metagenomic study of 11 samples from healthy Japanese adults living in Shinjuku, Tokyo, Japan. machine-written summary
11 samples · 11 runs · JP · Adult · 2025 · 8.27 Gbp / sample
One study deposited as 4 BioProjects (178 catalog samples together): PRJDB14457 · PRJDB18384 · PRJDB18387 · PRJDB18854 · show together
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 99 sample values (age, collection date, country, latitude, location locality, location region, longitude, sex) |
| ✓ Abstract / description | 11 sample values (health condition) |
| – Full text | no open-access full text linked |
| – Supplementary tables | no supplementary tables available (or none open access) |
| – External resources | not covered by the external resources we ingest |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 10 profiled gut samples of this project (Sandpiper SingleM profiles, GTDB R232; low-depth and non-metagenome profiles left out).
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 11 | 100% | ||||
| country | 11 | 100% | 11 | |||
| health_condition | 11 | 100% | 11 | |||
| subject_id | 11 | 100% | 11 | |||
| age_at_collection_days | 11 | 100% | 11 | |||
| collection_date | 11 | 100% | 11 | |||
| detailed_location | 11 | 100% | ||||
| latitude | 11 | 100% | 11 | |||
| location_locality | 11 | 100% | 11 | |||
| location_region | 11 | 100% | 11 | |||
| longitude | 11 | 100% | 11 | |||
| sex | 11 | 100% | 11 |
Archive description
Shotgun metagenomic sequence of gut microbiota of healthy Japanese adult living in Shinjuku, Tokyo, Japan.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage reason_code age_unknown_no_evidence”
- body site study.title · “Gut microbiota of healthy”
- body site study.description · “metagenomic sequence of gut microbiota of healthy”
- life stage study.title · “of healthy Japanese adult”
- life stage study.description · “of healthy Japanese adult living in Shinjuku,”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMD00797959 | age_at_collection_days | 7933.0 | R1 | 0.85 | sample.attr.host_age | 20-24 |
| SAMD00797959 | collection_date | 2022-02 | R1 | 0.90 | biosample.attribute:collection_date | 2022-02 |
| SAMD00797959 | country | JP | R1 | 0.90 | sample.attr.geo_loc_name | Japan:Tokyo, Shinjuku |
| SAMD00797959 | health_condition | healthy_control | R4 | 0.50 | study.title | healthy Japanese adult |
| SAMD00797959 | latitude | 35.6900 | R1 | 0.90 | biosample.attribute:lat_lon | 35.69 N 139.70 E |
| SAMD00797959 | location_locality | Shinjuku | R1 | 0.85 | biosample.attribute:geo_loc_name | Japan:Tokyo, Shinjuku |
| SAMD00797959 | location_region | Tokyo | R1 | 0.85 | biosample.attribute:geo_loc_name | Japan:Tokyo, Shinjuku |
| SAMD00797959 | longitude | 139.7000 | R1 | 0.90 | biosample.attribute:lat_lon | 35.69 N 139.70 E |
| SAMD00797959 | sex | male | R1 | 0.90 | sample.attr.host_sex | male |
| SAMD00797959 | subject_id | PN015289 | R1 | 0.85 | sample.attr.host_subject_id | PN015289 |
Sequencing
11 runs over 11 samples · mean 8.22 Gbp per run (median 8.27 Gbp, total 90.45 Gbp; 11 runs with a base count) · layout PAIRED 11 · platform ILLUMINA 11 · models Illumina NovaSeq 6000 (11) · 91% of runs with a Sandpiper profile · first public 2025-06-18 – 2025-06-23
Authors (0)
No author record.
Downloads
PRJDB18384.csv.gz (1.2 KB) · parquet (70.7 KB) — all 11 samples, every field with route and confidence · PRJDB18384_determinations.csv.gz (1.4 KB) — 110 evidence rows