Gut metagenome in healthy vs obese adults, Tokyo, Japan
Cross-sectional study of 52 fecal samples from adults in Tokyo, Japan, comparing healthy-weight and obese subjects to examine EPS hydrolase, glycolysis, and SCFA-related pathways. machine-written summary
52 samples · 52 runs · JP · Adult · 2024 · 6.61 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 260 sample values (collection date, country, health condition, health condition detail, location region) |
| ○ Abstract / description | read; no usable statement |
| – Full text | no open-access full text linked |
| ✓ Supplementary tables | 52 sample values (subject id) |
| – 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 |
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 52 | 100% | ||||
| country | 52 | 100% | 52 | |||
| health_condition | 52 | 100% | 52 | |||
| subject_id | 52 | 100% | 52 | |||
| collection_date | 52 | 100% | 52 | |||
| detailed_location | 52 | 100% | ||||
| health_condition_detail | 52 | 100% | 52 | |||
| location_region | 52 | 100% | 52 |
Archive description
Human fecal samples were collected from 30 healthy (18.5<BMI<30) and 30 obese (BMI>=30) subjects to examine EPS and SCFAs synthesis and glycolysis pathways.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by sonnet_x2 with confidence 0.75. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.description · “Human fecal samples were collected”
- life stage study.description · “healthy (18.5<BMI<30) and 30 obese”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMD00665595 | collection_date | 2020-06-01 | R1 | 0.90 | biosample.attribute:collection_date | 2020-06-01 |
| SAMD00665595 | country | JP | R1 | 0.90 | sample.attr.geo_loc_name | Japan:Tokyo |
| SAMD00665595 | health_condition | healthy_control | R1 | 0.70 | sample.name_rule:sample_name | Lean_1 |
| SAMD00665595 | health_condition_detail | Healthy / control [sample-name token 'Lean'] | R1 | 0.70 | sample.name_rule:sample_name | Lean_1 |
| SAMD00665595 | location_region | Tokyo | R1 | 0.85 | biosample.attribute:geo_loc_name | Japan:Tokyo |
| SAMD00665595 | subject_id | Lean_1 | R2 | 0.80 | archive |
Sequencing
52 runs over 52 samples · mean 6.59 Gbp per run (median 6.61 Gbp, total 342.80 Gbp; 52 runs with a base count) · layout PAIRED 52 · platform DNBSEQ 52 · models DNBSEQ-G400 (52) · 0% of runs with a Sandpiper profile · first public 2024-12-29
Authors (0)
No author record.
Downloads
PRJDB17227.csv.gz (2.2 KB) · parquet (71.5 KB) — all 52 samples, every field with route and confidence · PRJDB17227_determinations.csv.gz (3.0 KB) — 312 evidence rows