Microbiome, cognitive impairment, cancer survivors, Tampa FL
Case-control study of 148 stool samples from older adults (≥60 years, including cancer survivors and controls) in Tampa, Florida, examining gut microbiome signatures linked to cognitive impairment and cancer survivorship. machine-written summary
148 samples · 148 runs · US · Age unknown · 2025 · 1.53 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 1,184 sample values (collection date, country, health condition, health condition detail, latitude, location locality, location region, longitude) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 148 sample values (antibiotic exposure) · PMC13575041 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| – 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 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 | 148 | 100% | ||||
| country | 148 | 100% | 148 | |||
| health_condition | 148 | 100% | 148 | |||
| subject_id | 0 | 0% | ||||
| antibiotic_exposure | 148 | 100% | 148 | |||
| collection_date | 148 | 100% | 148 | |||
| detailed_location | 148 | 100% | ||||
| health_condition_detail | 148 | 100% | 148 | |||
| latitude | 148 | 100% | 148 | |||
| location_locality | 148 | 100% | 148 | |||
| location_region | 148 | 100% | 148 | |||
| longitude | 148 | 100% | 148 |
- Gut microbiome signatures predict cognitive impairment in older cancer survivors. 2026 PMID 41175312 PMC13575041 own_data
Archive description
Cancer patients are living longer thanks to developments in oncology research. Nevertheless, debilitating side effects from cancer treatments such as chemotherapy include increased risk of chronic diseases and multi-organ dysfunction, which mimic accelerated aging. Dysbiosis, or abnormalities in the composition of the gut microbiome, increases inflammation and leads to accelerated aging-related cognitive impairment and a lower quality of life, all of which are made worse by cancer treatments. To learn more about the microbiome profile, shotgun sequencing was applied to stool samples from cancer survivors who were cognitively impaired.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by opus_adjudicated with confidence 0.80. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- host study.description · “cancer survivors who were cognitively impaired”
- body site study.description · “stool samples from cancer survivors”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN42963622 | antibiotic_exposure | no | R3 | 0.70 | paper.fulltext.methods | use of antibiotics within the last 30 days |
| SAMN42963622 | collection_date | 2022-03-01 | R1 | 0.90 | biosample.attribute:collection_date | 2022-03-01 |
| SAMN42963622 | country | US | R1 | 0.85 | biosample.attribute:geographical_location | USA: Florida, Tampa |
| SAMN42963622 | health_condition | healthy_control | R1 | 0.70 | sample.name_rule:alias | NC-HC_1 |
| SAMN42963622 | health_condition_detail | NC-HC | R1 | 0.70 | sample.name_rule:alias | NC-HC_1 |
| SAMN42963622 | latitude | 27.9517 | R1 | 0.90 | biosample.attribute:latitude_and_longitude | 27.9517 N 82.4588 W |
| SAMN42963622 | location_locality | Tampa | R1 | 0.85 | biosample.attribute:geographical_location | USA: Florida, Tampa |
| SAMN42963622 | location_region | Florida | R1 | 0.85 | biosample.attribute:geographical_location | USA: Florida, Tampa |
| SAMN42963622 | longitude | -82.4588 | R1 | 0.90 | biosample.attribute:latitude_and_longitude | 27.9517 N 82.4588 W |
Sequencing
148 runs over 148 samples · mean 1.59 Gbp per run (median 1.53 Gbp, total 235.19 Gbp; 148 runs with a base count) · layout PAIRED 148 · platform ILLUMINA 148 · models NextSeq 1000 (148) · 66% of runs with a Sandpiper profile · first public 2025-02-02
Authors (20)
Miller BC first · Haggler JA · Chaudhari DS · Shukla R · Kumar V · Mishra SP · Masternak MM · Holland P · Labyak C · Golden A · Dangiolo M · Arikawa AY · Kociolek J · Fraser A · Williams C · Agronin M · Aymat M · Pledger W · Yadav H · Jain S last
Downloads
PRJNA1142892.csv.gz (4.6 KB) · parquet (76.6 KB) — all 148 samples, every field with route and confidence · PRJNA1142892_determinations.csv.gz (10.2 KB) — 1,332 evidence rows