Gut metagenome in colorectal cancer patients, Tokyo, Japan
Cross-sectional study of 470 fecal samples from Japanese colorectal cancer patients undergoing colonoscopy at the National Cancer Research Center in Tokyo, Japan. machine-written summary
470 samples · 470 runs · JP · Age unknown · 2025 · 6.39 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 940 sample values (country, location region) |
| ✓ Abstract / description | 1,880 sample values (health condition, health condition detail, location site, subject id) |
| – 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 453 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 | 0 | 0% | ||||
| country | 470 | 100% | 470 | |||
| health_condition | 470 | 100% | 470 | |||
| subject_id | 470 | 100% | 470 | |||
| detailed_location | 470 | 100% | ||||
| health_condition_detail | 470 | 100% | 470 | |||
| location_region | 470 | 100% | 470 | |||
| location_site | 470 | 100% | 470 |
Archive description
Total microbial community DNA was isolated from the fecal samples of Japanese patients who underwent colonoscopy at National Cancer Research Center. The study population contains subjects diagnosed with Colorectal Cancer.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.80. Assay shotgun_dna.
- host study.description · “fecal samples of Japanese patients who underwent colonoscopy”
- body site study.description · “Total microbial community DNA was isolated from the fecal samples”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMD01681025 | country | JP | R1 | 0.90 | sample.attr.geo_loc_name | Japan:Tokyo |
| SAMD01681025 | health_condition | colorectal_cancer | R4 | 0.50 | study.description | subjects diagnosed with Colorectal Cancer |
| SAMD01681025 | health_condition_detail | Colorectal Cancer | R4 | 0.50 | study.description | subjects diagnosed with Colorectal Cancer |
| SAMD01681025 | location_region | Tokyo | R1 | 0.85 | biosample.attribute:geo_loc_name | Japan:Tokyo |
| SAMD01681025 | location_site | National Cancer Research Center | R4 | 0.45 | ena.study_description | colonoscopy at National Cancer Research Center |
| SAMD01681025 | subject_id | SAMD01681025 | R4 | 0.60 | design.one_sample_per_subject:description | Total microbial community DNA was isolated from the fecal samples of Japanese patients |
Sequencing
470 runs over 470 samples · mean 6.60 Gbp per run (median 6.39 Gbp, total 3,099.79 Gbp; 470 runs with a base count) · layout PAIRED 470 · platform ILLUMINA 470 · models Illumina HiSeq 2500 (470) · 96% of runs with a Sandpiper profile · first public 2025-09-28
Authors (0)
No author record.
Downloads
PRJDB37508.csv.gz (12.7 KB) · parquet (89.2 KB) — all 470 samples, every field with route and confidence · PRJDB37508_determinations.csv.gz (13.8 KB) — 2,820 evidence rows