Gut microbiota in FMT for ulcerative colitis (intervention)
160 biopsy DNA samples from adults with ulcerative colitis in a randomised controlled trial of faecal microbiota transplantation (FOCUS Study), examining bacterial and fungal (Candida) determinants of treatment response. machine-written summary
160 samples · 160 runs · Adult · 2018 · 28.6 Mbp / sample · cohort Fungal Trans-kingdom Dynamics Linked to Responsive
One study deposited as 3 BioProjects (746 catalog samples together): PRJEB26472 · PRJEB26473 · PRJEB26474 · show together
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 320 sample values (subject id, timepoint) |
| ✓ Abstract / description | 320 sample values (health condition, health condition detail) |
| ○ Full text | read; no usable statement or table · PMC8647676 |
| – 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
Faecal microbiota transplantation design randomized_controlled_trial · population ulcerative_colitis · FMT vs placebo in active ulcerative colitis (FOCUS trial)
“randomised, controlled FOCUS Study of FMT” — bioproject.description (study level; per-sample arms are in the intervention column below)
longitudinal — not resolved
66 of 70 people sampled more than once (156 samples; median 2, up to 4 per person). Schedule stated by the source: “Screening; Week8EndofTx; EndofOpenLabel; Extra biopsy 3-6 months post-trial (per sample alias labels)” (time origin: intervention start).
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 160 | 100% | ||||
| country | 0 | 0% | ||||
| health_condition | 160 | 100% | 160 | |||
| subject_id | 160 | 100% | 160 | |||
| health_condition_detail | 160 | 100% | 160 | |||
| timepoint_label | 160 | 100% | 160 |
- Fungal Trans-kingdom Dynamics Linked to Responsiveness to Fecal Microbiota Transplantation (FMT) Therapy in Ulcerative Colitis. 2020 PMID 32298656 PMC8647676 unsure
Archive description
Faecal Microbiota Transplantation (FMT) effectively induces remission in ulcerative colitis (UC). In the randomised, controlled FOCUS Study of FMT in active UC we aimed to identify bacterial taxonomic and functional determinants of therapeutic outcome.
How this project entered the registry
Classified as human gut / stool / blood / tissue / internal fluids shotgun DNA metagenome of adult by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- body site study.title · “with response to faecal microbiota transplantation in”
- body site study.description · “Faecal Microbiota Transplantation (FMT)”
- body site study.title · “biopsy DNA Specific bacteria”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA4704854 | health_condition | ulcerative_colitis | R4 | 0.40 | study.description | ulcerative colitis (UC) |
| SAMEA4704854 | health_condition_detail | active ulcerative colitis | R4 | 0.40 | study.description | ulcerative colitis (UC) |
| SAMEA4704854 | subject_id | 1001 | R1 | 0.70 | sample.name_rule:alias | C1-1001-Screening-DNA_S1 |
| SAMEA4704854 | timepoint_label | Screening | R1 | 0.70 | sample.name_rule:alias | C1-1001-Screening-DNA_S1 |
Sequencing
160 runs over 160 samples · mean 30.7 Mbp per run (median 28.6 Mbp, total 4.91 Gbp; 160 runs with a base count) · layout PAIRED 160 · platform ILLUMINA 160 · models Illumina MiSeq (160) · 0% of runs with a Sandpiper profile · first public 2018-12-18
Authors (12)
Leonardi I first · Paramsothy S · Doron I · Semon A · Kaakoush NO · Clemente JC · Faith JJ · Borody TJ · Mitchell HM · Colombel JF · Kamm MA · Iliev ID last
Downloads
PRJEB26474.csv.gz (4.5 KB) · parquet (75.0 KB) — all 160 samples, every field with route and confidence · PRJEB26474_determinations.csv.gz (6.2 KB) — 640 evidence rows