Gut microbiome in adults with active UC, Xiamen, China
83 fecal WGS samples from adults with active ulcerative colitis in Xiamen, China, who received capsulized fecal microbiota transplantation, in a cross-sectional design. machine-written summary
83 samples · 83 runs · CN · Adult · 2024 · 6.01 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 648 sample values (country, health condition, health condition detail, intervention, intervention detail, location locality, subject id, timepoint) |
| ✓ Abstract / description | 8 sample values (health condition detail) |
| ○ Full text | read; no usable statement or table · PMC10269780, PMC9849685 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| – 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 resolved
20 people have samples in more than one arm.
Faecal microbiota transplantation design single_arm_before_after · population ulcerative_colitis · Capsulized fecal microbiota transplantation in active ulcerative colitis patients
“received capsulized fecal microbiota transplantation” — study.title (study level; per-sample arms are in the intervention column below)
longitudinalFMT donor → recipient — not resolved
21 of 29 people sampled more than once (75 samples; median 4, up to 4 per person) · follow-up median 3 mo (max 3 mo) · median interval between samples 21 d (time from timepoint labels). Schedule stated by the source: “Stool collected at W0 (baseline, before FMT), W1, W4, and W12 after capsulized FMT treatment” (time origin: intervention_start); stated follow-up 3 mo.
Each row is one person (21 shown); dots are samples at days since that person's first sample.
8 sampled healthy donors; UC patients received capsulized FMT, each patient receiving flora from >=2 randomly assigned donors.
Genera, mean relative abundance over 80 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 | 83 | 100% | ||||
| country | 83 | 100% | 83 | |||
| health_condition | 75 | 90% | 75 | |||
| subject_id | 83 | 100% | 83 | |||
| detailed_location | 83 | 100% | ||||
| health_condition_detail | 83 | 100% | 75 | 8 | ||
| intervention | 83 | 100% | 83 | |||
| intervention_detail | 83 | 100% | 83 | |||
| location_locality | 83 | 100% | 83 | |||
| timepoint_label | 83 | 100% | 83 |
- Specific fungi associated with response to capsulized fecal microbiota transplantation in patients with active ulcerative colitis. 2022 PMID 36683707 PMC9849685 own_data
- Capsulized Fecal Microbiota Transplantation Induces Remission in Patients with Ulcerative Colitis by Gut Microbial Colonization and Metabolite Regulation. 2023 PMID 37093057 PMC10269780 own_data
Archive description
The goal of this study is to describe the profile of gut microbiome in adults with and without UC and to investigate the association between microbial composition and UC in China using fecal WGS.
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 · “Profiling the gut microbiome of patients”
- body site study.description · “the profile of gut microbiome in adults”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- life stage study.description · “gut microbiome in adults with and without”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN39488496 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China:Xiamen |
| SAMN39488504 | health_condition | ulcerative_colitis | R1 | 0.85 | biosample.attribute:treatment | treatment: FMT |
| SAMN39488504 | health_condition_detail | FMT | R1 | 0.85 | biosample.attribute:treatment | treatment: FMT |
| SAMN39488496 | health_condition_detail | mixed_case_control: ulcerative colitis patients vs healthy controls | R4 | 0.40 | study.description | adults with and without UC |
| SAMN39488496 | intervention | no_intervention | R1 | 0.90 | biosample.attribute:Group_RP | Group_RP: Donor1 |
| SAMN39488504 | intervention | no_intervention | R1 | 0.90 | biosample.attribute:Treatment_stage | Treatment_stage: Baseline |
| SAMN39488505 | intervention | fmt | R1 | 0.90 | biosample.attribute:Treatment_fmt | Treatment_fmt: FMT |
| SAMN39488496 | intervention_detail | FMT donor 1 sample | R1 | 0.90 | biosample.attribute:Group_RP | Group_RP: Donor1 |
| SAMN39488504 | intervention_detail | baseline before FMT; assigned arm: FMT treatment | R1 | 0.90 | biosample.attribute:Treatment_stage | Treatment_stage: Baseline |
| SAMN39488505 | intervention_detail | FMT treatment | R1 | 0.90 | biosample.attribute:Treatment_fmt | Treatment_fmt: FMT |
| SAMN39488496 | location_locality | Xiamen | R1 | 0.85 | biosample.attribute:geo_loc_name | China:Xiamen |
| SAMN39488496 | subject_id | Donor1 | R1 | 0.85 | sample.attr.individual | Donor1 |
| SAMN39488496 | timepoint_label | Donor | R1 | 0.85 | sample.attr.time | Donor |
Sequencing
83 runs over 83 samples · mean 6.34 Gbp per run (median 6.01 Gbp, total 526.32 Gbp; 83 runs with a base count) · layout PAIRED 83 · platform ILLUMINA 83 · models Illumina MiniSeq (83) · 96% of runs with a Sandpiper profile · first public 2024-02-25
Authors (0)
No author record.
Downloads
PRJNA1066476.csv.gz (3.1 KB) · parquet (73.6 KB) — all 83 samples, every field with route and confidence · PRJNA1066476_determinations.csv.gz (4.8 KB) — 656 evidence rows