US Gut Metagenome in Moderate-to-Severe Asthma, Case-Control
95 stool samples from adults in the USA (59 healthy controls, 36 with moderate-to-severe asthma) were shotgun metagenomically sequenced in a case-control study of gut microbiome function and antibiotic resistance genes in asthma. machine-written summary
95 samples · 95 runs · US · Adult · 2023 · 2.96 Gbp / sample · cohort The gut metagenome harbors metabolic and antibioti
One study deposited as 2 BioProjects (173 catalog samples together): PRJEB56741 · PRJEB59709 · show together
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 475 sample values (collection date, country, health condition, health condition detail, subject id) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 190 sample values (location locality, location region) · PMC10981462 |
| ○ 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 |
Genera, mean relative abundance over 84 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 | 95 | 100% | ||||
| country | 95 | 100% | 95 | |||
| health_condition | 95 | 100% | 95 | |||
| subject_id | 95 | 100% | 95 | |||
| collection_date | 95 | 100% | 95 | |||
| detailed_location | 95 | 100% | ||||
| health_condition_detail | 95 | 100% | 95 | |||
| location_locality | 95 | 100% | 95 | |||
| location_region | 95 | 100% | 95 |
- The gut metagenome harbors metabolic and antibiotic resistance signatures of moderate-to-severe asthma. 2024 PMID 38560624 PMC10981462 own_data
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 · “The gut metagenome harbors metabolic”
- body site external_curation.infant_catalog · “body_site_call gut”
- 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 |
|---|---|---|---|---|---|---|
| SAMEA112484769 | collection_date | 2015 | R1 | 0.90 | biosample.attribute:collection_date | 2015 |
| SAMEA112484769 | country | US | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | USA |
| SAMEA112484769 | health_condition | allergy_or_atopy | R1 | 0.90 | biosample_attr | Asthmatic |
| SAMEA112484769 | health_condition_detail | Asthmatic | R1 | 0.90 | sample.attr.host_disease_status | Asthmatic |
| SAMEA112484769 | location_locality | St. Louis | R3 | 0.70 | paper.fulltext.methods | consisted of 104 subjects from the St Louis, MO United States area |
| SAMEA112484769 | location_region | Missouri | R3 | 0.60 | paper.fulltext.results | recruited from the St. Louis, Missouri area |
| SAMEA112484769 | subject_id | MARS0002 | R1 | 0.85 | sample.attr.host_subject_id | MARS0002 |
Sequencing
95 runs over 95 samples · mean 3.43 Gbp per run (median 2.96 Gbp, total 325.46 Gbp; 95 runs with a base count) · layout PAIRED 95 · platform ILLUMINA 95 · models Illumina NovaSeq 6000 (95) · 88% of runs with a Sandpiper profile · first public 2023-02-11 – 2023-02-13
Authors (5)
Wilson NG first · Hernandez-Leyva A · Schwartz DJ · Bacharier LB · Kau AL last
Downloads
PRJEB59709.csv.gz (3.4 KB) · parquet (73.9 KB) — all 95 samples, every field with route and confidence · PRJEB59709_determinations.csv.gz (4.1 KB) — 665 evidence rows