Gut & ocular surface microbiome in geographic atrophy
20 samples from Switzerland, comparing gut and ocular surface microbiome composition in individuals with geographic atrophy versus healthy individuals, in a case-control design; no significant correlation was found between the two niches. machine-written summary
20 samples · 20 runs · CH · Age unknown · 2025 · 11.41 Gbp / sample · cohort Uncovering the relationship between the human ocul
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 60 sample values (collection date, country, sex) |
| ✓ Abstract / description | 20 sample values (health condition detail) |
| ○ Full text | read; no usable statement or table |
| – 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 |
Genera, mean relative abundance over 19 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 | 20 | 100% | 20 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% | ||||
| collection_date | 20 | 100% | 20 | |||
| health_condition_detail | 20 | 100% | 20 | |||
| sex | 20 | 100% | 20 |
- Linking the microbiome to the complement system in geographic atrophy. 2026 PMID 41629364 PMC12963446 unsure
- Uncovering the relationship between the human ocular surface microbiome and gut microbiome. 2026 PMID 41781852 PMC13069832 unsure
Archive description
In this study we invested the assiciations between the gut microbiome in healthy individuals and patients with a geographic atrophy.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.65. Assay shotgun_dna.
- host run.scientific_name · “Homo sapiens”
- body site study.title · “The Gut Microbiome in Geographic Atrophy”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA115489543 | collection_date | 2023-03-29 | R1 | 0.90 | biosample.attribute:collection_date | 2023-03-29 |
| SAMEA115489543 | country | CH | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | Switzerland |
| SAMEA115489543 | health_condition_detail | mixed_case_control: GA patients vs healthy controls | R4 | 0.50 | paper.abstract | GA patients compared to healthy controls |
| SAMEA115489543 | sex | female | R1 | 0.90 | sample.attr.sex | f |
Sequencing
20 runs over 20 samples · mean 12.77 Gbp per run (median 11.41 Gbp, total 255.42 Gbp; 20 runs with a base count) · layout PAIRED 20 · platform ILLUMINA 20 · models Illumina NovaSeq 6000 (20) · 95% of runs with a Sandpiper profile · first public 2025-08-06
Authors (11)
Spörri L first · Studer JM · Kreuzer M · Rotzetter J · Schärer D · Largiadèr CR · Jaggi D · Zinkernagel MS · Zysset-Burri DC last · Eldridge N first · Haldimann G
Downloads
PRJEB74776.csv.gz (1.4 KB) · parquet (69.7 KB) — all 20 samples, every field with route and confidence · PRJEB74776_determinations.csv.gz (988 B) — 80 evidence rows