Fecal shotgun metagenome from Shanghai, China
51 fecal shotgun metagenomic samples collected in Shanghai, China; no health condition, intervention, or study design details are specified in the available records. machine-written summary
51 samples · 51 runs · CN · Age unknown · 2024 · 5.40 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 153 sample values (collection date, country, location locality) |
| – Abstract / description | no abstract or project description |
| – 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 48 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 | 51 | 100% | 51 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% | ||||
| collection_date | 51 | 100% | 51 | |||
| detailed_location | 51 | 100% | ||||
| location_locality | 51 | 100% | 51 |
Archive description
fecal shotgun metagenomic sequencing
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.65. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.description · “fecal shotgun metagenomic sequencing”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN38457743 | collection_date | 2023 | R1 | 0.90 | biosample.attribute:collection_date | 2023 |
| SAMN38457743 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China: Shanghai |
| SAMN38457743 | location_locality | Shanghai | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Shanghai |
Sequencing
51 runs over 51 samples · mean 5.52 Gbp per run (median 5.40 Gbp, total 281.27 Gbp; 51 runs with a base count) · layout PAIRED 51 · platform ILLUMINA 51 · models Illumina NovaSeq 6000 (51) · 94% of runs with a Sandpiper profile · first public 2024-03-24
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
PRJNA1045967.csv.gz (2.0 KB) · parquet (70.4 KB) — all 51 samples, every field with route and confidence · PRJNA1045967_determinations.csv.gz (1.3 KB) — 153 evidence rows