Gut microbiome in advanced gastric cancer vs healthy, Japan
Case-control shotgun metagenome study of 490 fecal samples from Japanese advanced gastric cancer patients and healthy individuals, comparing bacterial composition and pathway profiles associated with the disease. machine-written summary
490 samples · 490 runs · JP · Age unknown · 2025 · 6.05 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 1,470 sample values (collection date, country, subject id) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC13230625 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| – External resources | not covered by the external resources we ingest |
| – User contribution | nothing uploaded yet · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
longitudinal — not resolved
Schedule stated by the source: “before and after treatment, two points” (time origin: treatment start).
Genera, mean relative abundance over 481 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 | 490 | 100% | 490 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 490 | 100% | 490 | |||
| collection_date | 490 | 100% | 490 |
- Metabolic and functional pathways of gut microbiota in patients with gastric cancer. 2026 PMID 41963512 PMC13230625 own_data
Archive description
This is an observational/translational study to evaluate clinical outcomes of nivolumab and to discover novel immune-related biomarkers (gut microbiome, genetic polymorphism, gene expression and metabolome in plasma) in gastric cancer, using fecal and blood samples at two points before and after treatment.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by opus_adjudicated with confidence 0.80. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.description · “using fecal and blood samples”
- body site run.scientific_name · “human gut metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMD00913099 | collection_date | 2019-06-04 | R1 | 0.90 | biosample.attribute:collection_date | 2019-06-04 |
| SAMD00913099 | country | JP | R1 | 0.90 | sample.attr.geo_loc_name | Japan |
| SAMD00913099 | subject_id | GC08_002_L3_1 | R1 | 0.85 | sample.attr.host_subject_id | GC08_002_L3_1 |
Sequencing
490 runs over 490 samples · mean 5.93 Gbp per run (median 6.05 Gbp, total 2,905.66 Gbp; 490 runs with a base count) · layout PAIRED 490 · platform ILLUMINA 490 · models Illumina NovaSeq 6000 (490) · 98% of runs with a Sandpiper profile · first public 2025-10-26
Authors (24)
Matoba R first · Iijima H · Sakamoto Y · Kawabata R · Ishiguro A · Akamaru Y · Kito Y · Aizawa M · Matsuyama J · Takahashi M · Makiyama A · Suzuki T · Tsuda M · Yasui H · Hihara J · Okuda H · Kawada J · Yoshioka T · Kawakami H · Eguchi Nakajima T · Muro K · Ichikawa W · Fujii M · Sunakawa Y last
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, health_condition. Share metadata
Downloads
PRJDB20360.csv.gz (12.8 KB) · parquet (89.2 KB) — all 490 samples, every field with route and confidence · PRJDB20360_determinations.csv.gz (11.5 KB) — 1,470 evidence rows