Gut microbiome and cognition in obesity, Spain, case-control
115 faecal samples from Spain, from a case-control study comparing subjects with and without obesity using cognitive tests alongside shotgun metagenomic analysis of gut microbiota. machine-written summary
115 samples · 115 runs · ES · Age unknown · 2023 · 3.05 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 690 sample values (collection date, country, latitude, location region, longitude, subject id) |
| ✓ Abstract / description | 115 sample values (health condition detail) |
| – 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
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 | 115 | 100% | 115 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 115 | 100% | 115 | |||
| collection_date | 115 | 100% | 115 | |||
| detailed_location | 115 | 100% | ||||
| health_condition_detail | 115 | 100% | 115 | |||
| latitude | 115 | 100% | 115 | |||
| location_region | 115 | 100% | 115 | |||
| longitude | 115 | 100% | 115 |
Archive description
Subjects with and without obesity were studied through a panel of different cognitive tests and gut microbiome composition and functionality. A total of >100 subjects were recruited for cognitive tests and microbiota analysis. Faecal samples were collected from those subjects. For all samples, the metagenomic taxonomic and gene shot-gun analysis of the microbiota was carried out by a metagenomic approach, using a shotgun sequencing with the Illumina NextSeq with 150 bp x2 chemistry.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.72. Assay shotgun_dna.
- host run.scientific_name · “human gut metagenome”
- body site study.description · “Faecal samples were collected from those subjects”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA112197402 | collection_date | 2021 | R1 | 0.90 | biosample.attribute:collection_date | 2021 |
| SAMEA112197402 | country | ES | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | Spain |
| SAMEA112197402 | health_condition_detail | mixed_case_control: Mixed cohort: obesity cases and non-obese controls | R4 | 0.50 | study.description | Subjects with and without obesity were studied |
| SAMEA112197402 | latitude | 41.9831 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 41.98311 2.82493 |
| SAMEA112197402 | location_region | Catalonia | R1 | 0.60 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 41.98311 2.82493 |
| SAMEA112197402 | longitude | 2.8249 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 41.98311 2.82493 |
| SAMEA112197402 | subject_id | CGM191 | R1 | 0.80 | biosample.attribute:DESCRIPTION | DNA metagenome from subject CGM191 |
Sequencing
115 runs over 115 samples · mean 3.23 Gbp per run (median 3.05 Gbp, total 371.80 Gbp; 115 runs with a base count) · layout PAIRED 115 · platform ILLUMINA 115 · models NextSeq 2000 (115) · 91% of runs with a Sandpiper profile · first public 2023-12-20
Authors (0)
No author record.
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, health_condition. Share metadata
Downloads
PRJEB58106.csv.gz (3.9 KB) · parquet (74.9 KB) — all 115 samples, every field with route and confidence · PRJEB58106_determinations.csv.gz (6.3 KB) — 805 evidence rows