Gut metagenomes in IBD case-control cohort, Singapore
Shotgun metagenomic data from 82 gut microbiome samples collected in Singapore, comparing Crohn's disease, ulcerative colitis, and healthy controls in a case-control design. machine-written summary
82 samples · 82 runs · SG · Age unknown · 2025 · 6.57 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 656 sample values (collection date, country, health condition, health condition detail, latitude, location locality, longitude, subject id) |
| – Abstract / description | no abstract or project description |
| – Full text | no open-access full text linked |
| – 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 |
Genera, mean relative abundance over 81 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 | 82 | 100% | 82 | |||
| health_condition | 82 | 100% | 82 | |||
| subject_id | 82 | 100% | 82 | |||
| collection_date | 82 | 100% | 82 | |||
| detailed_location | 82 | 100% | ||||
| health_condition_detail | 82 | 100% | 82 | |||
| latitude | 82 | 100% | 82 | |||
| location_locality | 82 | 100% | 82 | |||
| longitude | 82 | 100% | 82 |
Archive description
This study aimed to characterize the taxonomic and functional differences in the gut microbiome of Crohn's disease, ulcerative colitis, and healthy controls using shotgun metagenomic sequencing.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.82. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- host run.scientific_name · “human gut metagenome”
- body site study.description · “gut microbiome of Crohn's disease”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN44303949 | collection_date | 2023 | R1 | 0.90 | biosample.attribute:collection_date | 2023 |
| SAMN44303949 | country | SG | R1 | 0.90 | sample.attr.geo_loc_name | Singapore |
| SAMN44303949 | health_condition | crohns_disease | R1 | 0.85 | biosample.attribute:description | Crohn's disease |
| SAMN44303949 | health_condition_detail | Crohn's disease | R1 | 0.85 | biosample.attribute:description | Crohn's disease |
| SAMN44303949 | latitude | 1.3521 | R1 | 0.90 | biosample.attribute:lat_lon | 1.3521 N 103.8198 E |
| SAMN44303949 | location_locality | Singapore | R1 | 0.85 | biosample.attribute:geo_loc_name | Singapore |
| SAMN44303949 | longitude | 103.8198 | R1 | 0.90 | biosample.attribute:lat_lon | 1.3521 N 103.8198 E |
| SAMN44303949 | subject_id | subject 1 | R1 | 0.85 | biosample.attribute:source_material_id | subject 1 |
Sequencing
82 runs over 82 samples · mean 6.57 Gbp per run (median 6.57 Gbp, total 538.95 Gbp; 82 runs with a base count) · layout PAIRED 67, SINGLE 15 · platform ILLUMINA 82 · models Illumina NovaSeq 6000 (82) · 99% of runs with a Sandpiper profile · first public 2025-11-23
Authors (0)
No author record.
Downloads
PRJNA1173388.csv.gz (3.1 KB) · parquet (73.8 KB) — all 82 samples, every field with route and confidence · PRJNA1173388_determinations.csv.gz (4.8 KB) — 656 evidence rows