FMT for ulcerative colitis: bacterial and fungal response markers
426 faecal 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
426 samples · 426 runs · Adult · 2018 · 43.6 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 | 552 sample values (subject id, timepoint) |
| ✓ Abstract / description | 852 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 for active ulcerative colitis (FOCUS study)
“randomised, controlled FOCUS Study of FMT in active UC” — bioproject.description (study level; per-sample arms are in the intervention column below)
longitudinal — not resolved
Schedule stated by the source: “Samples taken at multiple visits per the trial design, labeled 'screening', 'week 4', and 'FinalFollowUp' in aliases, but exact schedule/timepoints beyond these labels not given.” (time origin: intervention_start).
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 426 | 100% | ||||
| country | 0 | 0% | ||||
| health_condition | 426 | 100% | 426 | |||
| subject_id | 414 | 97% | 414 | |||
| health_condition_detail | 426 | 100% | 426 | |||
| timepoint_label | 138 | 32% | 138 |
- 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 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 · “Faecal cDNA Specific bacteria”
- body site study.description · “Faecal Microbiota Transplantation (FMT)”
- 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 |
|---|---|---|---|---|---|---|
| SAMEA4701747 | health_condition | ulcerative_colitis | R4 | 0.50 | study.description | ulcerative colitis (UC) |
| SAMEA4701747 | health_condition_detail | ulcerative colitis patients in randomised controlled FMT trial | R4 | 0.50 | study.description | ulcerative colitis (UC) |
| SAMEA4701747 | subject_id | 1-1001 | R1 | 0.70 | sample.name_rule:alias | 1-1001-Screening |
| SAMEA4701747 | timepoint_label | screening | R1 | 0.70 | sample.name_rule:alias | 1-1001-Screening |
Sequencing
426 runs over 426 samples · mean 45.9 Mbp per run (median 43.6 Mbp, total 19.54 Gbp; 426 runs with a base count) · layout PAIRED 426 · platform ILLUMINA 426 · models Illumina MiSeq (426) · 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
PRJEB26472.csv.gz (11.1 KB) · parquet (86.8 KB) — all 426 samples, every field with route and confidence · PRJEB26472_determinations.csv.gz (11.3 KB) — 1,404 evidence rows