Batch fermentation of gut samples from Crohn's disease patients
30 samples from Crohn's disease patients in Tucson, USA, studied using batch fermentation; no intervention or additional design details specified. machine-written summary
30 samples · 30 runs · US · Age unknown · 2024 · 8.77 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 225 sample values (collection date, country, health condition, health condition detail, latitude, location locality, longitude, subject id) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 30 sample values (location site) · PMC13625237 |
| ✓ Supplementary tables | 75 sample values (age, health condition, sex) |
| – 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 |
longitudinal — not resolved
10 of 10 people sampled more than once (30 samples; median 3, up to 3 per person).
Genera, mean relative abundance over 24 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 | 27 | 90% | ||||
| country | 30 | 100% | 30 | |||
| health_condition | 30 | 100% | 15 | 15 | ||
| subject_id | 30 | 100% | 30 | |||
| age_at_collection_days | 30 | 100% | 30 | |||
| collection_date | 30 | 100% | 30 | |||
| detailed_location | 30 | 100% | ||||
| health_condition_detail | 30 | 100% | 30 | |||
| latitude | 30 | 100% | 30 | |||
| location_locality | 30 | 100% | 30 | |||
| location_site | 30 | 100% | 30 | |||
| longitude | 30 | 100% | 30 | |||
| sex | 30 | 100% | 30 |
- Fecal microbiota fermenting simple organic carbon substrates in vitro as microbial factories capable of distinguishing Crohn's disease from healthy states. 2026 PMID 42811337 PMC13625237 own_data
Archive description
Batch fermentation of samples coming fro chron's disease patients
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.57. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.description · “Batch fermentation of samples coming fro chron's disease patients”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN43617871 | age_at_collection_days | 6939.75 | R2 | 0.80 | paper.supp.12934_2026_3052_MOESM3_ESM.xlsx[mapping_file!patient age] | 19 |
| SAMN43617871 | collection_date | 2018-02-02 | R1 | 0.90 | biosample.attribute:collection_date | 2018-02-02 |
| SAMN43617871 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA: Tucson |
| SAMN43617876 | health_condition | crohns_disease | R1 | 0.85 | biosample.attribute:host_phenotype | CD1 |
| SAMN43617871 | health_condition | healthy_control | R2 | 0.80 | paper.supp.12934_2026_3052_MOESM3_ESM.xlsx[mapping_file!diagnosis] | healthy |
| SAMN43617871 | health_condition_detail | H1 | R1 | 0.90 | sample.attr.host_phenotype | H1 |
| SAMN43617871 | latitude | 32.2540 | R1 | 0.90 | biosample.attribute:lat_lon | 32.2540 N 110.9742 W |
| SAMN43617871 | location_locality | Tucson | R1 | 0.85 | biosample.attribute:geo_loc_name | USA: Tucson |
| SAMN43617871 | location_site | Centre for Comprehensive Treatment of Inflammatory Bowel Diseases, Clinical Regional Hospital No. 2 | R3 | 0.70 | paper.fulltext.methods | Centre for Comprehensive Treatment of Inflammatory Bowel Diseases, Department of Gastroenterology |
| SAMN43617871 | longitude | -110.9742 | R1 | 0.90 | biosample.attribute:lat_lon | 32.2540 N 110.9742 W |
| SAMN43617871 | sex | male | R2 | 0.80 | paper.supp.12934_2026_3052_MOESM3_ESM.xlsx[mapping_file!patient sex] | M |
| SAMN43617871 | subject_id | H1 | R1 | 0.85 | sample.attr.host_subject_id | H1 |
Sequencing
30 runs over 30 samples · mean 8.56 Gbp per run (median 8.77 Gbp, total 256.69 Gbp; 30 runs with a base count) · layout PAIRED 30 · platform ILLUMINA 30 · models Illumina NovaSeq 6000 (30) · 80% of runs with a Sandpiper profile · first public 2024-09-15 – 2024-09-18
Authors (0)
No author record.
Downloads
PRJNA1160072.csv.gz (1.9 KB) · parquet (72.4 KB) — all 30 samples, every field with route and confidence · PRJNA1160072_determinations.csv.gz (3.2 KB) — 330 evidence rows