Gut microbiome and cholesterol metabolism, Framingham cohort
449 adult gut microbiome samples from the Framingham Heart Study, examining how uncultured gut bacteria metabolize cholesterol and influence host cholesterol levels; cross-sectional design. machine-written summary
449 samples · 449 runs · US · Adult · 2022 · 1.08 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 1,347 sample values (health condition detail, sex, subject id) |
| ✓ Abstract / description | 52 sample values (country) |
| – Full text | no open-access full text linked |
| – Supplementary tables | no supplementary tables available (or none open access) |
| ✓ External resources | 397 sample values (country) · from GMrepo v3 |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
longitudinal — not resolved
2 of 447 people sampled more than once (4 samples; median 2, up to 2 per person).
Genera, mean relative abundance over 324 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 | 449 | 100% | ||||
| country | 449 | 100% | 397 | 52 | ||
| health_condition | 0 | 0% | ||||
| subject_id | 449 | 100% | 449 | |||
| health_condition_detail | 449 | 100% | 449 | |||
| sex | 449 | 100% | 449 |
Archive description
The human gut harbors trillions of microbes that play dynamic roles in health. While the microbiome contributes to many cardiometabolic traits by modulating host inflammation and metabolism, there is an incomplete understanding regarding the extent and mechanisms by which individual microbes impact risk and development of cardiovascular disease (CVD). The Framingham Heart Study (FHS) is a multi-generational observational study following participants over decades to identify risk factors for CVD by correlating genetic and phenotypic factors with clinical outcomes. As a large-scale population-based cohort with extensive clinical phenotyping, FHS provides a rich landscape to explore the relationships between the gut microbiome and cardiometabolic traits Available Data sets Currently we... (for more see dbGaP study page.)
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by sonnet_x2 with confidence 0.62. Assay shotgun_dna.
- host run.scientific_name · “Homo sapiens”
- body site study.title · “Human Gut Bacteria Influences Host Cholesterol”
- life stage study.description · “Framingham Heart Study (FHS) is a multi-generational”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN28001932 | country | US | R2 | 0.75 | external.gmrepo source | country: United States of America |
| SAMN40408184 | country | US | R4 | 0.40 | study.description | Framingham Heart Study |
| SAMN28001932 | health_condition_detail | is tumor: no | R1 | 0.85 | sample.attr.is_tumor | No |
| SAMN28001932 | sex | male | R1 | 0.90 | sample.attr.sex | male |
| SAMN28001932 | subject_id | 25931 | R1 | 0.85 | sample.attr.gap_subject_id | 25931 |
Sequencing
449 runs over 449 samples · mean 1.14 Gbp per run (median 1.08 Gbp, total 513.78 Gbp; 449 runs with a base count) · layout PAIRED 449 · platform ILLUMINA 449 · models Illumina HiSeq 2500 (449) · 72% of runs with a Sandpiper profile · first public 2022-06-23 – 2025-01-13
Authors (0)
No author record.
Downloads
PRJNA755357.csv.gz (13.2 KB) · parquet (88.7 KB) — all 449 samples, every field with route and confidence · PRJNA755357_determinations.csv.gz (13.4 KB) — 1,796 evidence rows