Crohn's disease patients before/after WMT therapy
22 metagenome and metatranscriptome samples from eight Crohn's disease patients, evaluated before and three months after washed microbiota transplantation (WMT). machine-written summary
22 samples · 22 runs · CN · Age unknown · 2024 · 13.85 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 60 sample values (collection date, subject id, timepoint) |
| ✓ Abstract / description | 44 sample values (health condition, health condition detail) |
| ✓ Full text | 44 sample values (country, location site) · PMC11008410 |
| ○ 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 not resolved
Faecal microbiota transplantation design single_arm_before_after · population crohns_disease · Washed microbiota transplantation (WMT), single-arm, sampled before/3 months after
“Eleven CD patients underwent WMT” — abstract:38617453 (study level; per-sample arms are in the intervention column below)
longitudinalFMT donor → recipient — not resolved
8 of 14 people sampled more than once (16 samples; median 2, up to 2 per person) · follow-up median 3 mo (max 3 mo) · median interval between samples 3 mo (time from visit codes mapped to the stated schedule). Schedule stated by the source: “stool one week before WMT and three months after WMT” (time origin: transplant); stated follow-up 3 mo.
Each row is one person (8 shown); dots are samples at days since that person's first sample.
8 Crohn's WMT recipients (before/after) and 6 sequenced donors; links not stated.
Genera, mean relative abundance over 18 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 | 0 | 0% | ||||
| country | 22 | 100% | 22 | |||
| health_condition | 22 | 100% | 22 | |||
| subject_id | 22 | 100% | 22 | |||
| collection_date | 22 | 100% | 22 | |||
| detailed_location | 22 | 100% | ||||
| health_condition_detail | 22 | 100% | 22 | |||
| location_site | 22 | 100% | 22 | |||
| timepoint_label | 16 | 73% | 16 |
- Washed microbiota transplantation for Crohn's disease: A metagenomic, metatranscriptomic, and metabolomic-based study. 2024 PMID 38617453 PMC11008410 own_data
Archive description
Eight CD patients underwent WMT. Their clinical responses and their metagenome and metatranscriptome were evaluated three months after the procedure.
How this project entered the registry
Classified as human gut / stool mixed assays of age unknown by opus_adjudicated with confidence 0.45. Assay mixed.
- host run.host_tax_id · “9606”
- host study.description · “Eight CD patients underwent WMT”
- body site sample.attr.isolation_source · “feces (n=22/22)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN39613525 | collection_date | 2022-09 | R1 | 0.90 | biosample.attribute:collection_date | 2022-09 |
| SAMN39613525 | country | CN | R3 | 0.70 | paper.fulltext.methods | Second Affiliated Hospital of Nanjing Medical University |
| SAMN39613525 | health_condition | crohns_disease | R4 | 0.50 | study.title | Crohn's disease patients before and after WMT |
| SAMN39613525 | health_condition_detail | CD patients undergoing washed microbiota transplantation | R4 | 0.50 | study.title | Crohn's disease patients before and after WMT |
| SAMN39613525 | location_site | Second Affiliated Hospital of Nanjing Medical University | R3 | 0.70 | paper.fulltext.methods | Second Affiliated Hospital of Nanjing Medical University |
| SAMN39613525 | subject_id | donor_1 | R1 | 0.70 | sample.name_rule:title | donor 1 DNA |
| SAMN39613537 | timepoint_label | before WMT | R1 | 0.70 | sample.name_rule:title | CD patient 1 before WMT DNA |
Sequencing
22 runs over 22 samples · mean 14.23 Gbp per run (median 13.85 Gbp, total 313.06 Gbp; 22 runs with a base count) · layout PAIRED 22 · platform ILLUMINA 22 · models Illumina NovaSeq 6000 (22) · 82% of runs with a Sandpiper profile · first public 2024-06-30
Authors (9)
Chen SJ first · Zhang DY · Wu X · Zhang FM · Cui BT · Huang YH · Zhang ZL · Wang R · Bai FH last
Downloads
PRJNA1069244.csv.gz (1.6 KB) · parquet (71.2 KB) — all 22 samples, every field with route and confidence · PRJNA1069244_determinations.csv.gz (1.9 KB) — 148 evidence rows