Microbiome in pulmonary arterial hypertension, Minneapolis
118 gut microbiome samples from Minneapolis, MN, USA, comparing pulmonary arterial hypertension patients to controls in a case-control design. machine-written summary
119 samples · 119 runs · US · Age unknown · 2022 · 2.04 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 948 sample values (collection date, country, health condition, health condition detail, latitude, location locality, location region, longitude) |
| ○ Abstract / description | read; no usable statement |
| – Full text | no open-access full text linked · PMC10037487 |
| – 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
families — not resolved
71 PAH patients, 15 family control subjects, 33 healthy controls; family links to specific patients not encoded per sample.
Genera, mean relative abundance over 105 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 | 119 | 100% | 119 | |||
| health_condition | 119 | 100% | 119 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 119 | 100% | 119 | |||
| health_condition_detail | 119 | 100% | 119 | |||
| detailed_location | 118 | 99% | ||||
| latitude | 118 | 99% | 118 | |||
| location_locality | 118 | 99% | 118 | |||
| location_region | 118 | 99% | 118 | |||
| longitude | 118 | 99% | 118 |
- Pulmonary Arterial Hypertension Patients Have a Proinflammatory Gut Microbiome and Altered Circulating Microbial Metabolites. 2023 PMID 36343281 PMC10037487 own_data
Archive description
Gut microbiome samples from pulmonary arterial hypertension compared to controls
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.75. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site run.scientific_name · “gut metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN30480281 | collection_date | 2019-04-23 | R1 | 0.90 | biosample.attribute:collection_date | 2019-04-23 |
| SAMN30480281 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA: Minneapolis, MN |
| SAMN30480281 | health_condition | healthy_control | R1 | 0.85 | biosample.attribute:DESCRIPTION | Healthy Control |
| SAMN30480281 | health_condition_detail | Healthy Control | R1 | 0.85 | biosample.attribute:DESCRIPTION | Healthy Control |
| SAMN30480281 | latitude | 44.9847 | R1 | 0.90 | biosample.attribute:lat_lon | 44.9847 N 93.1819 W |
| SAMN30480281 | location_locality | Minneapolis | R1 | 0.85 | biosample.attribute:geo_loc_name | USA: Minneapolis, MN |
| SAMN30480281 | location_region | Minnesota | R1 | 0.75 | biosample.attribute:geo_loc_name | USA: Minneapolis, MN |
| SAMN30480281 | longitude | -93.1819 | R1 | 0.90 | biosample.attribute:lat_lon | 44.9847 N 93.1819 W |
Sequencing
119 runs over 119 samples · mean 2.19 Gbp per run (median 2.04 Gbp, total 261.00 Gbp; 119 runs with a base count) · layout PAIRED 119 · platform ILLUMINA 119 · models Illumina NovaSeq 6000 (119) · 89% of runs with a Sandpiper profile · first public 2022-08-29
Authors (0)
No author record.
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, subject_id. Share metadata
Downloads
PRJNA873083.csv.gz (4.0 KB) · parquet (75.3 KB) — all 119 samples, every field with route and confidence · PRJNA873083_determinations.csv.gz (7.0 KB) — 948 evidence rows