Gut metagenome in prostate cancer, UK and Switzerland
74 gut metagenome samples from hormone-sensitive vs castration-resistant prostate cancer patients in the United Kingdom and Switzerland, using a case-control design to assess gut microbiota composition and prostate cancer progression. machine-written summary
74 samples · 74 runs · GB, CH · Adult · 2021 · 2.96 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 592 sample values (age, collection date, country, latitude, location region, longitude, sex, subject id) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC12876203, PMC13551040 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| ✓ External resources | 148 sample values (health condition, health condition detail) · from curatedMetagenomicData 3 (cMD 3) |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 65 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 | 74 | 100% | ||||
| country | 74 | 100% | 74 | |||
| health_condition | 74 | 100% | 74 | |||
| subject_id | 74 | 100% | 74 | |||
| age_at_collection_days | 74 | 100% | 74 | |||
| collection_date | 74 | 100% | 74 | |||
| detailed_location | 74 | 100% | ||||
| health_condition_detail | 74 | 100% | 74 | |||
| latitude | 74 | 100% | 74 | |||
| location_region | 74 | 100% | 74 | |||
| longitude | 74 | 100% | 74 | |||
| sex | 74 | 100% | 74 |
- Identifying fundamental gaps in functional metagenomics: a step towards unlocking microbiome research potential. 2026 PMID 42712939 PMC13551040 own_data
- SSTDhunter: a curated gene database for investigating androgen producing potential in microbiota species. 2026 PMID 41660426 PMC12876203 unsure
Archive description
In order to evaluate the effects of gut microbiota composition on prostate cancer progression, we performed whole genome metagenome sequencing on gut microbiota of hormone sensitive prostate cancer vs castration resistant prostate cancer patients.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult and elderly by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- body site study.title · “genome metagenome of gut microbiota from prostate”
- body site study.description · “the effects of gut microbiota composition on”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- life stage sample.attr.host_age · “68 (n=56/74)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN20395375 | age_at_collection_days | 28854.8 | R1 | 0.70 | sample.attr.host_age | 79 |
| SAMN20395375 | collection_date | 2019-05-13 | R1 | 0.90 | biosample.attribute:collection_date | 2019-05-13 |
| SAMN20395375 | country | GB | R1 | 0.90 | sample.attr.geo_loc_name | United Kingdom |
| SAMN20395375 | health_condition | other_cancer | R2 | 0.75 | external.cmd source | disease: Prostate Carcinoma |
| SAMN20395375 | health_condition_detail | Prostate Carcinoma | R2 | 0.75 | external.cmd source | disease: Prostate Carcinoma |
| SAMN20395375 | latitude | 51.4900 | R1 | 0.90 | biosample.attribute:lat_lon | 51.49 N 0.175 W |
| SAMN20395375 | location_region | England | R1 | 0.60 | biosample.attribute:lat_lon | 51.49 N 0.175 W |
| SAMN20395375 | longitude | -0.1750 | R1 | 0.90 | biosample.attribute:lat_lon | 51.49 N 0.175 W |
| SAMN20395375 | sex | male | R1 | 0.90 | sample.attr.host_sex | male |
| SAMN20395375 | subject_id | #1 | R1 | 0.85 | sample.attr.host_subject_id | #1 |
Sequencing
74 runs over 74 samples · mean 3.12 Gbp per run (median 2.96 Gbp, total 230.81 Gbp; 74 runs with a base count) · layout SINGLE 74 · platform ILLUMINA 74 · models NextSeq 500 (74) · 88% of runs with a Sandpiper profile · first public 2021-10-09
Authors (14)
Wang S first · Yang Y · Lei L · Wan R · Su Z · Liu Y · Tang H · Hu G · Li C · Meng J · Yang K last · Tiwari SK first · Telatin A · Singh D last
Downloads
PRJNA749645.csv.gz (3.4 KB) · parquet (74.5 KB) — all 74 samples, every field with route and confidence · PRJNA749645_determinations.csv.gz (7.3 KB) — 740 evidence rows