Human gut microbiome in South Korea, cross-sectional
Whole metagenomic sequencing of 61 human gut microbiome samples from South Korea, using a cross-sectional design. No health condition, intervention, or age data were specified. machine-written summary
61 samples · 61 runs · KR · Infant / toddler · 2020 · 6.57 Gbp / sample · cohort Kim 2022 South Korea
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 122 sample values (collection date, country) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 61 sample values (location site) · PMC10902438, PMC9726757 |
| ○ 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 56 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 | 61 | 100% | 61 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% | ||||
| collection_date | 61 | 100% | 61 | |||
| detailed_location | 61 | 100% | ||||
| location_site | 61 | 100% | 61 |
- Different maturation of gut microbiome in Korean children. PMID 36504822 PMC9726757 curated
- Genomic and ecological approaches to identify the Bifidobacterium breve prototype of the healthy human gut microbiota. PMID 38426063 PMC10902438 curated
Archive description
whole metagenomic sequencing for human gut microbiome.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of 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 · “Human gut microbiome”
- body site study.description · “sequencing for human gut microbiome.”
- 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 |
|---|---|---|---|---|---|---|
| SAMEA6104850 | collection_date | 2017-10-19 | R1 | 0.85 | biosample.attribute:collection_date | collection_date: 2017-10-19 |
| SAMEA6104850 | country | KR | R1 | 0.90 | biosample_attr | South Korea |
| SAMEA6104850 | location_site | Hanyang University Hospital | R3 | 0.70 | paper.fulltext.methods | visited the Hanyang University Hospital in South Korea |
Sequencing
61 runs over 61 samples · mean 7.27 Gbp per run (median 6.57 Gbp, total 443.25 Gbp; 61 runs with a base count) · layout PAIRED 61 · platform ILLUMINA 61 · models Illumina HiSeq 4000 (61) · 92% of runs with a Sandpiper profile · first public 2020-09-15
Authors (25)
Kim J first · Kim E · Kim B · Lee HJ · Park JS · Hwang S · Rho M · Pai H last · Argentini C first · Lugli GA · Tarracchini C · Fontana F · Mancabelli L · Viappiani A · Anzalone R · Angelini L · Alessandri G · Longhi G · Bianchi MG · Taurino G · Bussolati O · Milani C · van Sinderen D · Turroni F · Ventura M last
Help complete this project
3 of the 4 core fields are below 50% coverage: age_category, health_condition, subject_id. Share metadata
Downloads
PRJEB33013.csv.gz (2.5 KB) · parquet (71.4 KB) — all 61 samples, every field with route and confidence · PRJEB33013_determinations.csv.gz (1.5 KB) — 183 evidence rows