Gut flora in IBS patients under different treatments
16 human gut metagenome samples (14 from IBS patients, 2 healthy controls), studying the effect of different treatment methods on gut flora in an intervention design. machine-written summary
16 samples · 16 runs · Adult · 2022 · 11.66 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 106 sample values (age, health condition, health condition detail, intervention, sex, subject id, timepoint) |
| – Abstract / description | no abstract or project description |
| – Full text | no open-access full text linked |
| – Supplementary tables | no supplementary tables available (or none open access) |
| – 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 |
intervention — arms not resolved
Other administered intervention (see intervention_detail) design non_randomized_controlled · population ibs · Different treatment methods for IBS, effect on flora
“different treatment methods on the flora” — bioproject.description (study level; per-sample arms are in the intervention column below)
longitudinal — not resolvedFMT donor → recipient
2 of 4 people sampled more than once (14 samples; median 7, up to 7 per person). Schedule stated by the source: “Before treatment, then 2 weeks after each of three sequential treatments (capsule, FMT capsule, Bifidobacterium subtilis) with washout points before each” (time origin: treatment_start).
2 IBS cases sampled through capsule, FMT-capsule and Bifidobacterium phases; donor stool DonorA (Case1) and DonorB (Case2).
donorrecipient · circles are people (pale = no sequenced sample), arrows run donor → recipient and parent → child, curved lines join twins, partners and siblings, squares are shared settings or families without recorded roles. Shown: 2 linked groups from explicit relations. 4 people in the project overall.
Genera, mean relative abundance over 14 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 | 16 | 100% | ||||
| country | 0 | 0% | ||||
| health_condition | 16 | 100% | 16 | |||
| subject_id | 16 | 100% | 16 | |||
| age_at_collection_days | 16 | 100% | 16 | |||
| health_condition_detail | 16 | 100% | 16 | |||
| sex | 16 | 100% | 16 | |||
| timepoint_label | 16 | 100% | 16 | |||
| intervention | 10 | 62% | 10 |
Archive description
Effect of different treatment methods on the flora of IBS patients
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by sonnet_x2 with confidence 0.57. Assay shotgun_dna.
- host run.scientific_name · “Homo sapiens”
- body site study.description · “effect of different treatment methods on the flora”
- life stage sample.attr.age · “20 (n=16/16)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN29488147 | age_at_collection_days | 11305.8 | R1 | 0.85 | sample.attr.age | 31 |
| SAMN29488147 | health_condition | ibs | R1 | 0.80 | biosample_attr | severe diarrhea irritable bowel syndrome |
| SAMN29488147 | health_condition_detail | disease | R1 | 0.90 | sample.attr.health_state | disease |
| SAMN29488147 | intervention | no_intervention | R1 | 0.70 | sample.name_rule:isolate | Before treatment of the Case 1 |
| SAMN29488147 | sex | male | R1 | 0.90 | sample.attr.sex | male |
| SAMN29488147 | subject_id | Case1 | R1 | 0.70 | sample.name_rule:alias | A1 |
| SAMN29488147 | timepoint_label | Before treatment of the Case 1 | R1 | 0.85 | biosample.attribute:isolate | Before treatment of the Case 1 |
Sequencing
16 runs over 16 samples · mean 13.87 Gbp per run (median 11.66 Gbp, total 221.94 Gbp; 16 runs with a base count) · layout SINGLE 16 · platform ILLUMINA 16 · models Illumina HiSeq 1500 (16) · 88% of runs with a Sandpiper profile · first public 2022-07-13
Authors (0)
No author record.
Downloads
PRJNA855302.csv.gz (1.4 KB) · parquet (70.4 KB) — all 16 samples, every field with route and confidence · PRJNA855302_determinations.csv.gz (1.7 KB) — 106 evidence rows