Korean gut metagenomes, cross-sectional, Seoul
Whole metagenomic shotgun sequencing of 106 gut samples from Seoul, South Korea, in a cross-sectional design, used for de-novo assembly of metagenome-assembled genomes of new prokaryotic species. machine-written summary
106 samples · 106 runs · KR · Age unknown · 2021 · 28.24 Gbp / sample · cohort A conserved pilin from uncultured gut bacterial cl
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 608 sample values (collection date, country, latitude, location locality, location region, longitude) |
| ✓ Abstract / description | 106 sample values (subject id) |
| ○ Full text | read; no usable statement or table · PMC11288164, PMC11680825, PMC13172421, PMC8394144, PMC9184491 |
| ○ 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 98 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 | 106 | 100% | 106 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 106 | 100% | 106 | |||
| collection_date | 106 | 100% | 106 | |||
| detailed_location | 106 | 100% | ||||
| latitude | 106 | 100% | 106 | |||
| location_region | 106 | 100% | 106 | |||
| longitude | 106 | 100% | 106 | |||
| location_locality | 78 | 74% | 78 |
- Genomic and Metagenomic Insights into the Distribution of Nicotine-degrading Enzymes in Human Microbiota. 2024 PMID 39086996 PMC11288164 own_data
- MiGPC: a comprehensive catalog of enzybiotics from environmental metagenomes. 2026 PMID 41888223 PMC13172421 own_data
- Human reference gut microbiome catalog including newly assembled genomes from under-represented Asian metagenomes. 2021 PMID 34446072 PMC8394144 unsure
- Profiling Fusobacterium infection at high taxonomic resolution reveals lineage-specific correlations in colorectal cancer. 2022 PMID 35680952 PMC9184491 unsure
- A conserved pilin from uncultured gut bacterial clade TANB77 enhances cancer immunotherapy. 2024 PMID 39730328 PMC11680825 unsure
Archive description
We performed a deep (average > 30Gbp) whole metagenomic shotgun sequencing on 106 Korean samples. Metagenomic de-novo assembly was performed on the samples.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.75. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site run.scientific_name · “human gut metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN16796149 | collection_date | 2019 | R1 | 0.90 | biosample.attribute:collection_date | 2019 |
| SAMN16796149 | country | KR | R1 | 0.90 | sample.attr.geo_loc_name | South Korea: Seoul |
| SAMN16796149 | latitude | 37.5600 | R1 | 0.90 | biosample.attribute:lat_lon | 37.56 N 126.94 E |
| SAMN16796149 | location_locality | Seoul | R1 | 0.85 | biosample.attribute:geo_loc_name | South Korea: Seoul |
| SAMN16796149 | location_region | Seoul | R1 | 0.60 | biosample.attribute:lat_lon | 37.56 N 126.94 E |
| SAMN16796162 | location_region | Seoul | R1 | 0.85 | biosample.attribute:geo_loc_name | Korea: Seoul |
| SAMN16796149 | longitude | 126.9400 | R1 | 0.90 | biosample.attribute:lat_lon | 37.56 N 126.94 E |
| SAMN16796149 | subject_id | SAMN16796149 | R4 | 0.60 | design.one_sample_per_subject:description | We performed a deep (average > 30Gbp) whole metagenomic shotgun sequencing on 106 Korean samples. |
Sequencing
106 runs over 106 samples · mean 31.17 Gbp per run (median 28.24 Gbp, total 3,304.18 Gbp; 106 runs with a base count) · layout PAIRED 106 · platform ILLUMINA 106 · models Illumina HiSeq 4000 (106) · 92% of runs with a Sandpiper profile · first public 2021-05-20
Authors (69)
Kim CY first · Lee M · Yang S · Kim K · Yong D · Kim HR · Lee I last · Bi D first · Zhu Y · Gao Y · Li H · Zhu X · Wei R · Xie R · Cai C · Wei Q · Qin 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 · Guan Y first · Zhu Z · Peng Q · Li M · Li X · Yang JW · Lu YH · Wang M · Xie BB last · Park DJ · Ahn BC · Baek S · Hong MH · Nguyen LT · Hwang SH · Kim N · Podlesny D · Orakov A · Schudoma C · Robbani SM · Shim HS · Yoon HI · Lee CY · Park SY · Han M · Bork P · Kim BC · Ha SJ · Afshar Jahanshahi D first · Ariaeenejad A · Hasannejad A · Zabihi MR · Ghaffari MR · Ariaeenejad S · Kavousi K last
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, health_condition. Share metadata
Downloads
PRJNA678426.csv.gz (3.7 KB) · parquet (74.6 KB) — all 106 samples, every field with route and confidence · PRJNA678426_determinations.csv.gz (5.1 KB) — 714 evidence rows