Pediatric gut resistome near Quito, Ecuador
119 gut metagenome samples from children in periurban and rural communities near Quito, Ecuador, studying the gut resistome; no further details on design or health conditions are given. machine-written summary
119 samples · 119 runs · EC · Infant / toddler · 2022 · 1.71 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 238 sample values (collection date, country) |
| ✓ Abstract / description | 119 sample values (location locality) |
| ○ Full text | read; no usable statement or table · PMC9850782 |
| ○ 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 110 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 | 0 | 0% | ||||
| country | 119 | 100% | 119 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% | ||||
| collection_date | 119 | 100% | 119 | |||
| detailed_location | 119 | 100% | ||||
| location_locality | 119 | 100% | 119 |
- Evaluation of changes in the faecal resistome associated with children's exposure to domestic animals and food animal production. 2022 PMID 36202201 PMC9850782 own_data
Archive description
Pediatric gut resistome in periurban and rural comunities near Quito, Ecuador
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of child and infant / toddler by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage verdict include”
- body site study.title · “Pediatric gut resistome”
- body site study.description · “Pediatric gut resistome in periurban”
- life stage study.title · “Pediatric gut resistome”
- life stage study.description · “Pediatric gut resistome in”
- life stage external_curation.infant_catalog · “infant triage verdict include (0-3 y scope)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA12788241 | collection_date | 2018 | R1 | 0.85 | biosample.attribute:collection date | 2018 |
| SAMEA12788241 | country | EC | R1 | 0.90 | biosample_attr | Ecuador |
| SAMEA12788241 | location_locality | Quito | R4 | 0.45 | ena.study_description | periurban and rural comunities near Quito, Ecuador |
Sequencing
119 runs over 119 samples · mean 1.71 Gbp per run (median 1.71 Gbp, total 203.66 Gbp; 119 runs with a base count) · layout PAIRED 119 · platform ILLUMINA 119 · models Illumina NovaSeq 6000 (119) · 92% of runs with a Sandpiper profile · first public 2022-02-08 – 2022-03-17
Authors (0)
No author record.
Help complete this project
3 of the 4 core fields are below 50% coverage: age_category, health_condition, subject_id. Share metadata
Downloads
PRJEB50568.csv.gz (3.7 KB) · parquet (74.2 KB) — all 119 samples, every field with route and confidence · PRJEB50568_determinations.csv.gz (2.2 KB) — 357 evidence rows