Symptomatic atherosclerosis gut metagenome, case-control
27 adult samples from a case-control study of symptomatic atherosclerosis gut metagenomes; no location or intervention details given. machine-written summary
27 samples · 27 runs · Adult · 2013 · 2.48 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ○ Sequence archive | records read; no usable sample values |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC10059959, PMC12143968, PMC12341049, PMC4184256, PMC6200775 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| ✓ External resources | 54 sample values (health condition, health condition detail) · from GMrepo v3 |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 25 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 | 27 | 100% | ||||
| country | 0 | 0% | ||||
| health_condition | 27 | 100% | 27 | |||
| subject_id | 0 | 0% | ||||
| health_condition_detail | 27 | 100% | 27 |
- Methodological considerations for the identification of choline and carnitine-degrading bacteria in the gut. 2018 PMID 29684641 PMC6200775 own_data
- Gut microbiota-derived trimethylamine-N-oxide inhibits SIRT1 to regulate SM22α-mediated smooth muscle cell inflammation and promote atherosclerosis progression. 2025 PMID 40486531 PMC12143968 own_data
- The Amordad database engine for metagenomics. 2014 PMID 24974201 PMC4184256 unsure
- 2 Hydroxybutyric Acid-Producing Bacteria in Gut Microbiome and Fusobacterium nucleatum Regulates 2 Hydroxybutyric Acid Level In Vivo. 2023 PMID 36984891 PMC10059959 unsure
- Multi-omics integration reveals functional signatures of gut microbiome in atherosclerosis. 2025 PMID 40785047 PMC12341049 unsure
Archive description
Symptomatic atherosclerosis gut metagenome.
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 · “Symptomatic atherosclerosis gut metagenome”
- body site study.description · “Symptomatic atherosclerosis gut metagenome.”
- 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 |
|---|---|---|---|---|---|---|
| SAMN01760906 | health_condition | cardiometabolic_other | R2 | 0.75 | external.gmrepo source | phenotype: Atherosclerosis |
| SAMN01760906 | health_condition_detail | Atherosclerosis | R2 | 0.75 | external.gmrepo source | phenotype: Atherosclerosis |
Sequencing
27 runs over 27 samples · mean 2.52 Gbp per run (median 2.48 Gbp, total 68.15 Gbp; 27 runs with a base count) · layout PAIRED 27 · platform ILLUMINA 27 · models Illumina HiSeq 2000 (27) · 93% of runs with a Sandpiper profile · first public 2013-01-07
Authors (31)
Behnam E first · Smith AD last · Jameson E first · Quareshy M · Chen Y last · Qin F first · Li J · Mao T · Feng S · Lai M last · Yin Y first · Wei M · Jiang X · Liu M · Shi X · Zhang X · Wang L · Liu G · Zheng M · Ma F last · Shi H first · Wu M · Wu X · Liu Z · Jiang S · Li G · Yang Y · Fu Y · Wang Q · Zhang G · Cheng L last
Downloads
PRJNA177201.csv.gz (1.5 KB) · parquet (69.3 KB) — all 27 samples, every field with route and confidence · PRJNA177201_determinations.csv.gz (852 B) — 54 evidence rows