Gut metagenomics in Crohn's disease, Changsha, China
18 gut metagenome samples (9 Crohn's disease, 9 healthy controls) from Xiangya Hospital, Changsha, China, studying the contribution of keystone gut microbiota species to Crohn's disease. machine-written summary
18 samples · 18 runs · CN · Age unknown · 2023 · 10.86 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 94 sample values (collection date, country, health condition, health condition detail, location locality, location site) |
| ○ Abstract / description | read; no usable statement |
| – Full text | no open-access full text linked |
| – Supplementary tables | no supplementary tables available (or none open access) |
| ✓ External resources | 14 sample values (health condition, health condition detail) · from GMrepo v3 |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 17 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 | 18 | 100% | 18 | |||
| health_condition | 18 | 100% | 11 | 7 | ||
| subject_id | 0 | 0% | ||||
| collection_date | 18 | 100% | 18 | |||
| detailed_location | 18 | 100% | ||||
| health_condition_detail | 18 | 100% | 11 | 7 | ||
| location_locality | 18 | 100% | 18 | |||
| location_site | 18 | 100% | 18 |
- Comparative metagenomics reveals the differential gut microbiota involved in bile acid metabolism in patients with crohn's disease. 2025 PMID 41474524 own_data
Archive description
Metagenomic sequencing was used to sequence the gut microbiota of Crohn's disease patients, and the sequencing data were analyzed to study the potential contribution of keystone species of gut microbiota to Crohn's disease.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by opus_adjudicated with confidence 0.55. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.title · “gut microbiota in patients with Crohn's disease”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN37703188 | collection_date | 2021-08/2022-06 | R1 | 0.90 | biosample.attribute:collection_date | 2021-08/2022-06 |
| SAMN37703188 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China: Xiangya hospital, Changsha |
| SAMN37703188 | health_condition | crohns_disease | R1 | 0.70 | sample.name_rule:title | CD1 |
| SAMN37703191 | health_condition | crohns_disease | R2 | 0.75 | external.gmrepo source | phenotype: Crohn Disease |
| SAMN37703188 | health_condition_detail | CD1 | R1 | 0.70 | sample.name_rule:title | CD1 |
| SAMN37703191 | health_condition_detail | Crohn Disease | R2 | 0.75 | external.gmrepo source | phenotype: Crohn Disease |
| SAMN37703188 | location_locality | Changsha | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Xiangya hospital, Changsha |
| SAMN37703188 | location_site | Xiangya hospital | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Xiangya hospital, Changsha |
Sequencing
18 runs over 18 samples · mean 11.48 Gbp per run (median 10.86 Gbp, total 206.73 Gbp; 18 runs with a base count) · layout PAIRED 18 · platform ILLUMINA 18 · models Illumina NovaSeq 6000 (18) · 94% of runs with a Sandpiper profile · first public 2023-10-29
Authors (0)
No author record.
Downloads
PRJNA1024678.csv.gz (1.4 KB) · parquet (70.1 KB) — all 18 samples, every field with route and confidence · PRJNA1024678_determinations.csv.gz (1.5 KB) — 108 evidence rows