Faecal virome in cystic fibrosis vs healthy adults
Case-control study of 62 faecal samples (31 healthy controls, mostly adults) comparing gut virome composition between cystic fibrosis patients and a healthy cohort using VLP-enriched metagenomic sequencing. machine-written summary
62 samples · 62 runs · Adult · 2018 · 0.80 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 181 sample values (health condition, health condition detail, sex) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC8201803 |
| ○ 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 20 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 | 62 | 100% | ||||
| country | 0 | 0% | ||||
| health_condition | 60 | 97% | 60 | |||
| subject_id | 0 | 0% | ||||
| sex | 61 | 98% | 61 | |||
| health_condition_detail | 60 | 97% | 60 |
- A catalog of tens of thousands of viruses from human metagenomes reveals hidden associations with chronic diseases. 2021 PMID 34083435 PMC8201803 own_data
Archive description
The study uses metagenomic sequencing of VLP-enriched fractions of faeces to detect alterations of gut virome in cystic fibrosis patients.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by sonnet_x2 with confidence 0.60. Assay shotgun_dna.
- host run.scientific_name · “Homo sapiens”
- body site study.title · “faecal virome composition in cystic fibrosis”
- life stage sample.attr.age · “<30 (n=55/62)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN10290170 | health_condition | healthy_control | R1 | 0.80 | biosample_attr | control |
| SAMN10290181 | health_condition | other_disease | R1 | 0.85 | biosample.attribute:disease | disease: DOID:1485 |
| SAMN10290170 | health_condition_detail | control | R1 | 0.90 | sample.attr.disease | control |
| SAMN10290170 | sex | male | R1 | 0.90 | sample.attr.sex | male |
Sequencing
62 runs over 62 samples · mean 0.88 Gbp per run (median 0.80 Gbp, total 54.43 Gbp; 62 runs with a base count) · layout PAIRED 62 · platform ILLUMINA 62 · models Illumina HiSeq 2500 (62) · 35% of runs with a Sandpiper profile · first public 2018-10-25
Help complete this project
2 of the 4 core fields are below 50% coverage: country, subject_id. Share metadata
Downloads
PRJNA498332.csv.gz (2.3 KB) · parquet (70.9 KB) — all 62 samples, every field with route and confidence · PRJNA498332_determinations.csv.gz (1.2 KB) — 181 evidence rows