Gut microbiome in high- vs low-sulfur diets, Minneapolis
Cross-sectional study of 39 gut bacterial community samples from people in Minneapolis, MN, characterizing differences associated with high- and low-sulfur diets. machine-written summary
39 samples · 39 runs · US · Age unknown · 2017 · 0.31 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 312 sample values (collection date, country, latitude, location locality, location region, longitude, subject id, timepoint) |
| – Abstract / description | no abstract or project description |
| – 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 |
intervention — arms not resolved
design non_randomized_controlled
longitudinal
4 of 4 people sampled more than once (39 samples; median 10, up to 11 per person) · follow-up median 38 d (max 49 d) · median interval between samples 4 d (time from collection dates). Schedule stated by the source: “repeated stool collections per subject across Jan-Mar 2017, irregular dates, no fixed interval stated”.
Each row is one person (4 shown); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 36 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 | 39 | 100% | 39 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 39 | 100% | 39 | |||
| collection_date | 39 | 100% | 39 | |||
| detailed_location | 39 | 100% | ||||
| latitude | 39 | 100% | 39 | |||
| location_locality | 39 | 100% | 39 | |||
| location_region | 39 | 100% | 39 | |||
| longitude | 39 | 100% | 39 | |||
| timepoint_label | 39 | 100% | 39 |
Archive description
Characterization of gut bacterial communities on people with high- and low-sulfur diets
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.60. 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 |
|---|---|---|---|---|---|---|
| SAMN06962127 | collection_date | 2017-02-02 | R1 | 0.90 | biosample.attribute:collection_date | 2017-02-02 |
| SAMN06962127 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA: Minneapolis, MN |
| SAMN06962127 | latitude | 44.9847 | R1 | 0.90 | biosample.attribute:lat_lon | 44.9847 N 93.1819 W |
| SAMN06962127 | location_locality | Minneapolis | R1 | 0.85 | biosample.attribute:geo_loc_name | USA: Minneapolis, MN |
| SAMN06962127 | location_region | Minnesota | R1 | 0.75 | biosample.attribute:geo_loc_name | USA: Minneapolis, MN |
| SAMN06962127 | longitude | -93.1819 | R1 | 0.90 | biosample.attribute:lat_lon | 44.9847 N 93.1819 W |
| SAMN06962127 | subject_id | Sulfur01 | R1 | 0.85 | sample.attr.subject | Sulfur01 |
| SAMN06962127 | timepoint_label | 02Feb2017 | R1 | 0.70 | sample.name_rule:alias | Sulfur01-02Feb2017 |
Sequencing
39 runs over 39 samples · mean 0.32 Gbp per run (median 0.31 Gbp, total 12.53 Gbp; 39 runs with a base count) · layout PAIRED 39 · platform ILLUMINA 39 · models Illumina MiSeq (39) · 92% of runs with a Sandpiper profile · first public 2017-11-03
Authors (0)
No author record.
Downloads
PRJNA386503.csv.gz (2.0 KB) · parquet (71.5 KB) — all 39 samples, every field with route and confidence · PRJNA386503_determinations.csv.gz (3.0 KB) — 312 evidence rows