Gastric mucosa microbiome after H. pylori eradication, China
135 gastric mucosa samples from functional dyspepsia patients in Kunming, China, studying changes in microbial communities following antibiotic-based Helicobacter pylori eradication treatment. machine-written summary
135 samples · 135 runs · CN · Age unknown · 2023 · 19.8 Mbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 675 sample values (collection date, country, latitude, location locality, longitude) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 405 sample values (antibiotic exposure, health condition, health condition detail) · PMC10663309 |
| ○ 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 |
intervention — arms not resolved
Antibiotic given as the study intervention (incl. eradication therapy design single_arm_before_after · population other_disease · H. pylori eradication therapy in FD patients
“effects of HP eradication treatment” — bioproject.description (study level; per-sample arms are in the intervention column below)
longitudinal — not resolved
Schedule stated by the source: “Gastric mucosa sampled at baseline (H. pylori infection) and again twelve months after eradication therapy.” (time origin: intervention_start); stated follow-up 12 mo.
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 0 | 0% | ||||
| country | 135 | 100% | 135 | |||
| health_condition | 135 | 100% | 135 | |||
| subject_id | 0 | 0% | ||||
| antibiotic_exposure | 135 | 100% | 135 | |||
| collection_date | 135 | 100% | 135 | |||
| detailed_location | 135 | 100% | ||||
| health_condition_detail | 135 | 100% | 135 | |||
| latitude | 135 | 100% | 135 | |||
| location_locality | 135 | 100% | 135 | |||
| longitude | 135 | 100% | 135 |
- Diversity recovery and probiotic shift of gastric microbiota in functional dyspepsia patients after Helicobacter pylori eradication therapy. 2023 PMID 38029178 PMC10663309 own_data
Archive description
The effects of HP eradication treatment on gastric mucosa bacteria
How this project entered the registry
Classified as human blood / tissue / internal fluids / gut / stool shotgun DNA metagenome of age unknown by opus_adjudicated with confidence 0.50. Assay shotgun_dna.
- host study.title · “gastric mucosa of FD patients”
- host run.host_tax_id · “9606”
- body site study.title · “gastric mucosa”
- body site sample.attr.env_broad_scale · “digestive tract (n=135/135)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN28766433 | antibiotic_exposure | no | R3 | 0.70 | paper.fulltext.methods | no use of antibiotics (within 3 months) |
| SAMN28766433 | collection_date | 2019-08-21 | R1 | 0.90 | biosample.attribute:collection_date | 2019-08-21 |
| SAMN28766433 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China: Kunming |
| SAMN28766433 | health_condition | other_disease | R3 | 0.70 | paper.fulltext.abstract | patients with functional dyspepsia (FD) |
| SAMN28766433 | health_condition_detail | functional dyspepsia (FD) patients | R3 | 0.70 | paper.fulltext.abstract | patients with functional dyspepsia (FD) |
| SAMN28766433 | latitude | 25.0300 | R1 | 0.90 | biosample.attribute:lat_lon | 25.03 N 102.70 E |
| SAMN28766433 | location_locality | Kunming | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Kunming |
| SAMN28766433 | longitude | 102.7000 | R1 | 0.90 | biosample.attribute:lat_lon | 25.03 N 102.70 E |
Sequencing
135 runs over 135 samples · mean 19.3 Mbp per run (median 19.8 Mbp, total 2.60 Gbp; 135 runs with a base count) · layout PAIRED 135 · platform ILLUMINA 135 · models Illumina HiSeq 2000 (135) · 0% of runs with a Sandpiper profile · first public 2023-09-02
Authors (10)
Wang W first · Liu Z · Zhang Y · Guo Z · Liu J · Li S · Huang J · Geng J · Zhang F · Guo Q last
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, subject_id. Share metadata
Downloads
PRJNA843681.csv.gz (3.9 KB) · parquet (75.7 KB) — all 135 samples, every field with route and confidence · PRJNA843681_determinations.csv.gz (6.9 KB) — 1,080 evidence rows