Infant vs elderly gut virome, Cork, Ireland
Cross-sectional study of 48 fecal samples (24 infant, 24 elderly) from Cork, Ireland, comparing gut virome composition between infants and elderly to assess age-related and birth-mode effects on viral predation. machine-written summary
48 samples · 48 runs · IE · Infant / toddler · 2018 · 0.66 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 191 sample values (age, country, delivery mode, sex, timepoint) |
| ○ Abstract / description | read; no usable statement |
| – 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 | 48 | 100% | ||||
| country | 48 | 100% | 48 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% | ||||
| age_at_collection_days | 48 | 100% | 48 | |||
| sex | 47 | 98% | 47 | |||
| delivery_mode | 24 | 50% | 24 | |||
| timepoint_label | 24 | 50% | 24 |
Archive description
It has been established that gut bacterial diversity rapidly increases after birth yet declines during old age however, little is known about the role of viral predation at these critical stages of life. This study will perform Virome comparison of infants and elderly to determine if an age delineated virome exists and to determine if birth mode has an effect on the virome.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of infant / toddler and elderly by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage verdict include”
- body site study.title · “feces metagenome Raw sequence”
- body site study.description · “been established that gut bacterial diversity rapidly”
- life stage external_curation.infant_catalog · “infant triage verdict include (0-3 y scope)”
- life stage study.description · “Virome comparison of infants and elderly to”
- life stage study.description · “of infants and elderly to determine if”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN05771807 | age_at_collection_days | 365 | R1 | 0.90 | biosample_attr | 12 months |
| SAMN05771831 | age_at_collection_days | 31046 | R1 | 0.70 | sample.attr.age | 85 |
| SAMN05771807 | country | IE | R1 | 0.90 | biosample_attr | Ireland: Cork |
| SAMN05771807 | delivery_mode | c_section | R1 | 0.85 | biosample_attr | Caeseraen |
| SAMN05771807 | sex | female | R1 | 0.90 | biosample_attr | female |
| SAMN05771831 | timepoint_label | T3 | R1 | 0.70 | run.library_name | EM181_T3 |
Sequencing
48 runs over 48 samples · mean 0.61 Gbp per run (median 0.66 Gbp, total 29.49 Gbp; 48 runs with a base count) · layout PAIRED 48 · platform ILLUMINA 48 · models Illumina MiSeq (48) · 2% of runs with a Sandpiper profile · first public 2018-03-03
Authors (0)
No author record.
Downloads
PRJNA343008.csv.gz (2.2 KB) · parquet (70.9 KB) — all 48 samples, every field with route and confidence · PRJNA343008_determinations.csv.gz (1.8 KB) — 191 evidence rows