Gut virome in rheumatoid arthritis, Beijing, China
43 fecal metagenome samples from adults and elderly individuals in Beijing, China, including 22 with autoimmune/inflammatory conditions, studying enteric virome alterations linked to rheumatoid arthritis. machine-written summary
60 samples · 60 runs · CN · Adult · 2025 · 11.23 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 429 sample values (age, bmi, collection date, country, health condition, health condition detail, latitude, longitude) |
| ✓ Abstract / description | 60 sample values (subject id) |
| – 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 |
siblings — not resolved
30 pairs of RA patients and their healthy siblings (60 samples total), per linked paper's paired sibling design..
Genera, mean relative abundance over 41 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 | 60 | 100% | ||||
| country | 60 | 100% | 60 | |||
| health_condition | 60 | 100% | 60 | |||
| subject_id | 60 | 100% | 60 | |||
| age_at_collection_days | 60 | 100% | 60 | |||
| bmi | 60 | 100% | 60 | |||
| health_condition_detail | 60 | 100% | 60 | |||
| collection_date | 43 | 72% | 43 | |||
| latitude | 43 | 72% | 43 | |||
| longitude | 43 | 72% | 43 |
- Rheumatoid arthritis patients harbour aberrant enteric bacteriophages with autoimmunity-provoking potential: a paired sibling study. 2024 PMID 39084885 own_data
Archive description
Altered enteric virome in rheumatoid arthritis
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by sonnet_x2 with confidence 0.55. Assay shotgun_dna.
- host run.scientific_name · “Homo sapiens”
- body site study.title · “Altered enteric virome in rheumatoid arthritis”
- life stage sample.attr.host_age · “54 (n=51/60)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN24290839 | age_at_collection_days | 22980.8 | R1 | 0.85 | sample.attr.host_age | 63 |
| SAMN24290852 | age_at_collection_days | 20088.8 | R1 | 0.85 | biosample.attribute:host_age | host_age: 55 |
| SAMN24290839 | bmi | 22.30 | R1 | 0.85 | biosample.attribute:host_body_mass_index | host_body_mass_index: 22.3 |
| SAMN24290840 | bmi | 19.6 | R1 | 0.90 | sample.attr.host_body_mass_index | 19.6 |
| SAMN24290840 | collection_date | 2018 | R1 | 0.90 | biosample.attribute:collection_date | 2018 |
| SAMN24290839 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China:Beijin |
| SAMN24290839 | health_condition | autoimmune_inflammatory | R1 | 0.70 | biosample.attribute:TITLE | TITLE: Rheumatoid arthritis |
| SAMN24290840 | health_condition | autoimmune_inflammatory | R1 | 0.85 | biosample.attribute:title | title: Rheumatoid arthritis |
| SAMN24290869 | health_condition | autoimmune_inflammatory | R1 | 0.90 | biosample_attr | rheumatoid arthritis |
| SAMN24290839 | health_condition_detail | rheumatoid arthritis | R1 | 0.70 | biosample.attribute:TITLE | TITLE: Rheumatoid arthritis |
| SAMN24290840 | health_condition_detail | health_state | R1 | 0.90 | sample.attr.health_state | health_state |
| SAMN24290840 | latitude | 40.0000 | R1 | 0.90 | biosample.attribute:lat_lon | 40 N 116 E |
| SAMN24290840 | longitude | 116.0000 | R1 | 0.90 | biosample.attribute:lat_lon | 40 N 116 E |
| SAMN24290839 | subject_id | SAMN24290839 | R4 | 0.60 | design.one_sample_per_subject:abstract | Faecal samples from 30 pairs of RA and healthy siblings that minimise genetic interferences were collected for metagenomic sequencing. |
Sequencing
60 runs over 60 samples · mean 11.56 Gbp per run (median 11.23 Gbp, total 693.76 Gbp; 60 runs with a base count) · layout PAIRED 60 · platform ILLUMINA 60 · models HiSeq X Ten (60) · 92% of runs with a Sandpiper profile · first public 2025-01-02 – 2025-01-29
Authors (0)
No author record.
Downloads
PRJNA686769.csv.gz (3.0 KB) · parquet (73.3 KB) — all 60 samples, every field with route and confidence · PRJNA686769_determinations.csv.gz (4.8 KB) — 489 evidence rows