Bladder cancer urine, tissue, and stool microbiota in South Korea
174 samples (matched bladder tissue, catheterized urine, and stool) from bladder cancer patients in South Korea, analyzed by shotgun metagenomics in a cross-sectional design comparing microbiota composition across sample types. machine-written summary
174 samples · 174 runs · KR · Age unknown · 2026 · 10.49 Gbp / sample
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what each source gave
| ✓ Sequence archive | 1,218 sample values (age, collection date, country, health condition, health condition detail, sex, subject id) |
| – Abstract / description | no abstract or project description |
| – 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 |
| – Human verified | not yet checked by a person · I checked this project — verify it |
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 174 | 100% | ||||
| country | 174 | 100% | 174 | |||
| health_condition | 174 | 100% | 174 | |||
| subject_id | 174 | 100% | 174 | |||
| age_at_collection_days | 174 | 100% | 174 | |||
| collection_date | 174 | 100% | 174 | |||
| health_condition_detail | 174 | 100% | 174 | |||
| sex | 174 | 100% | 174 |
Archive description
Urine has been investigated as a non-invasive biomarker for bladder cancer (BCa) due to its direct contact with the bladder mucosa. This study aimed to determine whether the catheterized urine microbiome reflects bladder tissue microbial composition and functional potential, and to develop a predictive model to estimate tissue microbiota from urine profiles. Matched bladder tissue (n=79), catheterized urine (n=79), and stool (n=17) samples were collected from BCa patients under sterile conditions. DNA was extracted, followed by shotgun metagenomic sequencing on an Illumina NovaSeq 6000 using 150 bp paired-end reads. Bioinformatic analyses were performed to characterize microbial composition and metabolic pathways. Tissue and urine microbiomes showed similar richness and evenness, with high compositional concordance (76.5% species overlap), while stool was compositionally distinct. Functional pathway profiles showed higher correlations and lower variability for tissue-urine than for other pairings. The tissue-urine concordance was consistent across patient subgroups stratified by sex and invasion status. A Ridge regression model predicted tissue microbiome composition from urine profiles with high accuracy at the phylum (R2=0.907) and class (R2=0.834) levels. These findings support catheterized urine as a reliable surrogate for bladder tissue microbiome profiling in BCa.
How this project entered the registry
Classified as human blood / tissue / internal fluids / vaginal / urogenital / 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 · “collected from BCa patients”
- body site study.description · “Matched bladder tissue (n=79), catheterized urine (n=79)”
- body site study.description · “stool (n=17) samples”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA122059344 | age_at_collection_days | 24837.0 | R1 | 0.70 | sample.name_rule:TITLE | Bladder tumor tissue metagenome from male BCa patient aged 68, NMIBC |
| SAMEA122059344 | collection_date | 2020/2022 | R1 | 0.90 | biosample.attribute:collection_date | 2020/2022 |
| SAMEA122059344 | country | KR | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | South Korea |
| SAMEA122059344 | health_condition | other_disease | R1 | 0.50 | biosample_attr | diseased |
| SAMEA122059344 | health_condition_detail | diseased | R1 | 0.90 | sample.attr.host_health_state | diseased |
| SAMEA122059344 | sex | male | R1 | 0.90 | sample.attr.host_sex | male |
| SAMEA122059344 | subject_id | BCa_84 | R1 | 0.70 | sample.name_rule:alias | BCa_84_Tissue |
Sequencing
174 runs over 174 samples · mean 10.47 Gbp per run (median 10.49 Gbp, total 1,822.03 Gbp; 174 runs with a base count) · layout PAIRED 174 · platform ILLUMINA 174 · models Illumina NovaSeq 6000 (174) · 0% of runs with a Sandpiper profile · first public 2026-05-06
Authors (0)
No author record.
Downloads
PRJEB110936.csv.gz (5.3 KB) · parquet (76.5 KB) — all 174 samples, every field with route and confidence · PRJEB110936_determinations.csv.gz (9.7 KB) — 1,218 evidence rows