Gut metagenome in UC patients on 5-ASA therapy, Beijing
75 gut metagenome samples from adult and elderly ulcerative colitis patients in Beijing, China, in an intervention study of 5-aminosalicylic acid (5-ASA) drug therapy, collected before and after treatment. machine-written summary
75 samples · 75 runs · CN · Adult · 2025 · 6.97 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 420 sample values (age, collection date, country, location locality, subject id, timepoint) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 225 sample values (health condition, health condition detail, location site) · PMC12159923 |
| ○ 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
Non-antibiotic pharmaceutical given as the study intervention (metformin design single_arm_before_after · population ulcerative_colitis · 5-aminosalicylic acid (5-ASA) standardized treatment for UC
“Active UC patients on standardized 5-ASA treatment were prospectively enrolled.” — abstract:40510115 (study level; per-sample arms are in the intervention column below)
longitudinal
18 of 57 people sampled more than once (36 samples; median 2, up to 2 per person) · follow-up median 11 mo (max 13 mo) · median interval between samples 11 mo (time from collection dates). Schedule stated by the source: “Fecal samples collected at baseline (before 5-ASA treatment) and at follow-up after treatment, with follow-up colonoscopy at 6-12 months”; stated follow-up 12 mo.
Each row is one person (18 shown); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 73 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 | 75 | 100% | ||||
| country | 75 | 100% | 75 | |||
| health_condition | 75 | 100% | 75 | |||
| subject_id | 75 | 100% | 75 | |||
| age_at_collection_days | 75 | 100% | 75 | |||
| collection_date | 75 | 100% | 75 | |||
| detailed_location | 75 | 100% | ||||
| health_condition_detail | 75 | 100% | 75 | |||
| location_locality | 75 | 100% | 75 | |||
| location_site | 75 | 100% | 75 | |||
| timepoint_label | 45 | 60% | 45 |
- Gut microbiome signatures predict 5-ASA efficacy in ulcerative colitis. 2025 PMID 40510115 PMC12159923 own_data
Archive description
Gut Microbiome Signatures Predict 5-ASA Efficacy in Ulcerative Colitis
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult and elderly by sonnet_x2 with confidence 0.65. Assay shotgun_dna.
- host run.scientific_name · “Homo sapiens”
- body site study.title · “Gut metagenome”
- life stage sample.attr.age · “34 (n=61/75)”
- life stage sample.attr.age · “68 (n=14/75)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN47537624 | age_at_collection_days | 12053.2 | R1 | 0.70 | sample.attr.age | 33 |
| SAMN47537624 | collection_date | 2020-08-17 | R1 | 0.90 | biosample.attribute:collection_date | 2020-08-17 |
| SAMN47537624 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China: Beijing |
| SAMN47537624 | health_condition | ulcerative_colitis | R3 | 0.70 | paper.fulltext.methods | diagnosed with active UC at the time of involvement |
| SAMN47537624 | health_condition_detail | diagnosed with active UC (Mayo Endoscopic Score≥2) | R3 | 0.70 | paper.fulltext.methods | diagnosed with active UC at the time of involvement |
| SAMN47537624 | location_locality | Beijing | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Beijing |
| SAMN47537624 | location_site | Beijing Friendship Hospital | R3 | 0.70 | paper.fulltext.methods | prospective IBD registry at Beijing Friendship Hospital |
| SAMN47537624 | subject_id | effe_1 | R1 | 0.70 | sample.name_rule:alias | alias: effe_1 |
| SAMN47537654 | timepoint_label | a | R1 | 0.70 | sample.name_rule:alias | alias: E1a |
Sequencing
75 runs over 75 samples · mean 6.17 Gbp per run (median 6.97 Gbp, total 462.49 Gbp; 75 runs with a base count) · layout PAIRED 75 · platform ILLUMINA 75 · models Illumina NovaSeq 6000 (75) · 97% of runs with a Sandpiper profile · first public 2025-03-30
Authors (10)
Dang Y first · Xu X · Ma J · Zhou M · Xu C · Huang X · Xu F · Wang Z · Shi H · Zhang S last
Downloads
PRJNA1240691.csv.gz (3.6 KB) · parquet (74.9 KB) — all 75 samples, every field with route and confidence · PRJNA1240691_determinations.csv.gz (6.2 KB) — 645 evidence rows