Multi-site microbiome case-control study, Worcester, MA
100 samples from adults in Worcester, Massachusetts (USA); a case-control design. Archive description mentions preeclampsia, but curated health conditions instead list type 2 diabetes and autoimmune/inflammatory conditions — sources conflict, so condition details are uncertain. machine-written summary
100 samples · 100 runs · US · Adult · 2026 · 3.97 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 1,465 sample values (age, antibiotic exposure, bmi, collection date, country, health condition, health condition detail, latitude) |
| ○ Abstract / description | read; no usable statement |
| – 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 |
antibiotic exposure: two sequence archives disagree for 9 samples (e.g. no vs yes) — withheld.
The sources disagree on 9 samples. Where two incompatible values exist for one sample (or one person's samples disagree on sex), neither value is published: the field is left empty here, in the sample sheet and in the downloads. Both sides, with their sources, are in gut_metadata_contradictions.parquet of the data package (what counts as a contradiction).
Contradicted values (9)
| sample | field | value | other value | handling |
|---|---|---|---|---|
| SAMN53416873 | antibiotic exposure | no (sequence archive) | yes (sequence archive) | withheld: neither value published |
| SAMN53416880 | antibiotic exposure | no (sequence archive) | yes (sequence archive) | withheld: neither value published |
| SAMN53416885 | antibiotic exposure | no (sequence archive) | yes (sequence archive) | withheld: neither value published |
| SAMN53416907 | antibiotic exposure | no (sequence archive) | yes (sequence archive) | withheld: neither value published |
| SAMN53416916 | antibiotic exposure | no (sequence archive) | yes (sequence archive) | withheld: neither value published |
| SAMN53416928 | antibiotic exposure | no (sequence archive) | yes (sequence archive) | withheld: neither value published |
| SAMN53416937 | antibiotic exposure | no (sequence archive) | yes (sequence archive) | withheld: neither value published |
| SAMN53416940 | antibiotic exposure | no (sequence archive) | yes (sequence archive) | withheld: neither value published |
| SAMN53416945 | antibiotic exposure | no (sequence archive) | yes (sequence archive) | withheld: neither value published |
mother–infant — not resolved
Mothers and their infants sampled (multi-site maternal + infant stool), but no explicit dyad count given..
Genera, mean relative abundance over 98 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 | 100 | 100% | ||||
| country | 100 | 100% | 100 | |||
| health_condition | 100 | 100% | 100 | |||
| subject_id | 100 | 100% | 100 | |||
| age_at_collection_days | 100 | 100% | 100 | |||
| bmi | 100 | 100% | 100 | |||
| collection_date | 100 | 100% | 100 | |||
| detailed_location | 100 | 100% | ||||
| health_condition_detail | 100 | 100% | 100 | |||
| latitude | 100 | 100% | 100 | |||
| location_locality | 100 | 100% | 100 | |||
| location_region | 100 | 100% | 100 | |||
| longitude | 100 | 100% | 100 | |||
| sex | 100 | 100% | 100 | |||
| antibiotic_exposure | 91 | 91% | 91 | |||
| medication | 87 | 87% | 87 | |||
| medication_detail | 87 | 87% | 87 |
- Preeclampsia-Associated Microbiome Alterations Across Maternal Niches and Infant Gut 2025 own_data
Archive description
Women stool (WGS), oral and vaginal (16S), and infant stool (16S) samples in women with and without preeclapmsia.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by opus_adjudicated with confidence 0.55. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.description · “Women stool (WGS)”
- life stage study.description · “Women stool (WGS)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN53416871 | age_at_collection_days | 12418.5 | R1 | 0.70 | sample.attr.age | 34 |
| SAMN53416871 | antibiotic_exposure | no | R1 | 0.90 | biosample_attr | No |
| SAMN53416871 | bmi | 39.9 | R1 | 0.90 | sample.attr.bmi | 39.9 |
| SAMN53416871 | collection_date | 2023-02-02 | R1 | 0.90 | biosample.attribute:collection_date | 2023-02-02 |
| SAMN53416871 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA: Massachusetts, Worcester |
| SAMN53416871 | health_condition | cardiometabolic_other | R1 | 0.85 | biosample.attribute:study_group | PE |
| SAMN53416872 | health_condition | type2_diabetes | R1 | 0.60 | biosample_attr | Yes |
| SAMN53416871 | health_condition_detail | Negative | R1 | 0.90 | sample.attr.covid_status | Negative |
| SAMN53416871 | latitude | 42.2731 | R1 | 0.90 | biosample.attribute:lat_lon | 42.27307147 N 71.79124117 W |
| SAMN53416871 | location_locality | Worcester | R1 | 0.85 | biosample.attribute:geo_loc_name | USA: Massachusetts, Worcester |
| SAMN53416871 | location_region | Massachusetts | R1 | 0.85 | biosample.attribute:geo_loc_name | USA: Massachusetts, Worcester |
| SAMN53416871 | longitude | -71.7912 | R1 | 0.90 | biosample.attribute:lat_lon | 42.27307147 N 71.79124117 W |
| SAMN53416871 | medication | other_medication | R1 | 0.75 | biosample.attribute:medications | prenatal vitamins |
| SAMN53416871 | medication_detail | prenatal vitamins | R1 | 0.75 | biosample.attribute:medications | prenatal vitamins |
| SAMN53416871 | sex | female | R1 | 0.90 | sample.attr.sex_of_baby | Female |
| SAMN53416871 | subject_id | 405 | R1 | 0.85 | biosample.attribute:study_id | study_id=405; alias=M405Stool |
Sequencing
100 runs over 100 samples · mean 4.13 Gbp per run (median 3.97 Gbp, total 412.68 Gbp; 100 runs with a base count) · layout PAIRED 100 · platform ILLUMINA 100 · models NextSeq 2000 (100) · 98% of runs with a Sandpiper profile · first public 2026-01-03 – 2026-01-20
Authors (0)
No author record.
Downloads
PRJNA1306676.csv.gz (6.0 KB) · parquet (79.3 KB) — all 100 samples, every field with route and confidence · PRJNA1306676_determinations.csv.gz (15.6 KB) — 1,465 evidence rows