Gut microbiome in gastric cancer patients with H. pylori, Beijing
198 fecal samples from gastric cancer patients in Beijing, China, studied for associations between H. pylori infection status and gut microbiome composition, using a case-control design. machine-written summary
198 samples · 198 runs · CN · Age unknown · 2025 · 12.34 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 990 sample values (collection date, country, latitude, location locality, longitude) |
| ✓ Abstract / description | 198 sample values (health condition detail) |
| ✓ Full text | 396 sample values (antibiotic exposure, location site) · PMC12888622 |
| ○ 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 |
Genera, mean relative abundance over 193 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 | 198 | 100% | 198 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% | ||||
| antibiotic_exposure | 198 | 100% | 198 | |||
| collection_date | 198 | 100% | 198 | |||
| detailed_location | 198 | 100% | ||||
| health_condition_detail | 198 | 100% | 198 | |||
| latitude | 198 | 100% | 198 | |||
| location_locality | 198 | 100% | 198 | |||
| location_site | 198 | 100% | 198 | |||
| longitude | 198 | 100% | 198 |
- Impact of Helicobacter pylori infection on gut and intratumoral microbiome and its association with immunotherapy response in gastrointestinal cancer. 2026 PMID 41526899 PMC12888622 own_data
Archive description
fecal sample from Caner patients with HP infection information
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.70. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.description · “fecal sample from Caner patients”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN44849048 | antibiotic_exposure | no | R3 | 0.70 | paper.fulltext.methods | received broad-spectrum antibiotics orally or intravenously within one month |
| SAMN44849048 | collection_date | 2018-03-07 | R1 | 0.90 | biosample.attribute:collection_date | 2018-03-07 |
| SAMN44849048 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China: Beijing |
| SAMN44849048 | health_condition_detail | mixed_case_control: 218 GC patients, 134 ESCC patients, 86 dMMR/MSI-H CC patients | R4 | 0.50 | paper.abstract | 218 GC patients, 134 esophageal squamous cell carcinoma |
| SAMN44849048 | latitude | 39.9000 | R1 | 0.90 | biosample.attribute:lat_lon | 39.9 N 116.3 E |
| SAMN44849048 | location_locality | Beijing | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Beijing |
| SAMN44849048 | location_site | Beijing Cancer Hospital | R3 | 0.70 | paper.fulltext.methods | received immunotherapy treatments at Beijing Cancer Hospital from 2018 to 2024 |
| SAMN44849048 | longitude | 116.3000 | R1 | 0.90 | biosample.attribute:lat_lon | 39.9 N 116.3 E |
Sequencing
198 runs over 198 samples · mean 12.43 Gbp per run (median 12.34 Gbp, total 2,461.76 Gbp; 198 runs with a base count) · layout PAIRED 198 · platform ILLUMINA 198 · models Illumina NovaSeq 6000 (198) · 97% of runs with a Sandpiper profile · first public 2025-12-22
Authors (15)
Jia K first · Chen Y · Dai D · Xie Y · Peng H · Cao Y · Zou H · Qiu C · Tan Y · Zhang X · Lu Z · Yin X · Peng Z · Li J · Shen L last
Help complete this project
3 of the 4 core fields are below 50% coverage: age_category, health_condition, subject_id. Share metadata
Downloads
PRJNA1188789.csv.gz (5.6 KB) · parquet (77.6 KB) — all 198 samples, every field with route and confidence · PRJNA1188789_determinations.csv.gz (9.0 KB) — 1,584 evidence rows