Gut microbiota in CKD: case-control study, China
99 gut metagenome samples from adults in China, comparing chronic kidney disease (stages 2–5) patients and non-CKD controls in a case-control design. machine-written summary
99 samples · 99 runs · CN · Adult · 2025 · 1.50 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 396 sample values (collection date, country, latitude, longitude) |
| ✓ Abstract / description | 99 sample values (health condition detail) |
| – 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 99 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 | 99 | 100% | ||||
| country | 99 | 100% | 99 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% | ||||
| collection_date | 99 | 100% | 99 | |||
| health_condition_detail | 99 | 100% | 99 | |||
| latitude | 99 | 100% | 99 | |||
| longitude | 99 | 100% | 99 |
Archive description
Chronic kidney disease (CKD) is a globally prevalent condition that poses a significant health burden, necessitating early diagnosis and intervention to improve patient outcomes. The gut microbiota has been implicated in CKD, yet there is still a lack of well-defined microbial and functional biomarkers associated with disease progression. In this study, we performed a population-scale metagenome-wide analysis of the gut microbiome of 745 CKD patients across stages 2 to 5, and 336 non-CKD normal controls.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult 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 · “Gut microbiota in CKD”
- body site study.description · “patient outcomes. The gut microbiota has been”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA120423101 | collection_date | 2024 | R1 | 0.90 | biosample.attribute:collection_date | 2024 |
| SAMEA120423101 | country | CN | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | China |
| SAMEA120423101 | health_condition_detail | mixed_case_control: 745 CKD patients (stages 2-5) vs 336 non-CKD normal controls | R4 | 0.50 | study.description | CKD patients across stages 2 to 5, and 336 non-CKD normal controls |
| SAMEA120423101 | latitude | 30.0000 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 30 114 |
| SAMEA120423101 | longitude | 114.0000 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 30 114 |
Sequencing
99 runs over 99 samples · mean 1.50 Gbp per run (median 1.50 Gbp, total 148.69 Gbp; 99 runs with a base count) · layout SINGLE 99 · platform ILLUMINA 99 · models Illumina NovaSeq 6000 (99) · 100% of runs with a Sandpiper profile · first public 2025-10-28 – 2025-10-30
Authors (0)
No author record.
Help complete this project
2 of the 4 core fields are below 50% coverage: health_condition, subject_id. Share metadata
Downloads
PRJEB82904.csv.gz (2.4 KB) · parquet (72.5 KB) — all 99 samples, every field with route and confidence · PRJEB82904_determinations.csv.gz (3.1 KB) — 495 evidence rows