Gut-brain axis in Alzheimer's genetic risk, UK, longitudinal
96 stool samples from UK participants at differential genetic risk for Alzheimer's disease, collected at three time points and processed by whole metagenome shotgun sequencing in a longitudinal design. machine-written summary
96 samples · 96 runs · GB · Age unknown · 2023 · 8.63 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 480 sample values (collection date, country, latitude, location region, longitude) |
| ○ 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 86 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 | 96 | 100% | 96 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% | ||||
| collection_date | 96 | 100% | 96 | |||
| detailed_location | 96 | 100% | ||||
| latitude | 96 | 100% | 96 | |||
| location_region | 96 | 100% | 96 | |||
| longitude | 96 | 100% | 96 |
Archive description
Gut-Brain axis in people at differential genetic risk for developing Alzheimer's disease. Three time-points stool samples collected and processed with Whole Metagenome Shotgun (WMS) protocol, sequenced with Illumina NovaSeq.
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 study.title · “people at differential genetic risk”
- body site study.description · “Three time-points stool samples collected”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA8943063 | collection_date | 2018 | R1 | 0.90 | biosample.attribute:collection_date | 2018 |
| SAMEA8943063 | country | GB | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | United Kingdom |
| SAMEA8943063 | latitude | 52.6208 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 52.620767 1.218701 |
| SAMEA8943063 | location_region | England | R1 | 0.60 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 52.620767 1.218701 |
| SAMEA8943063 | longitude | 1.2187 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 52.620767 1.218701 |
Sequencing
96 runs over 96 samples · mean 9.26 Gbp per run (median 8.63 Gbp, total 888.85 Gbp; 96 runs with a base count) · layout PAIRED 96 · platform ILLUMINA 96 · models Illumina HiSeq 4000 (96) · 90% of runs with a Sandpiper profile · first public 2023-06-22
Authors (0)
No author record.
Help complete this project
3 of the 4 core fields are below 50% coverage: age_category, health_condition, subject_id. Share metadata
Downloads
PRJEB45904.csv.gz (3.1 KB) · parquet (73.0 KB) — all 96 samples, every field with route and confidence · PRJEB45904_determinations.csv.gz (3.0 KB) — 480 evidence rows