PacBio HiFi metagenome of a healthy adult's gut, France
Cross-sectional study of 1 fecal sample from a healthy adult donor in France, sequenced with PacBio HiFi technology, yielding 89 metagenome-assembled genomes including 9 complete circular genomes. machine-written summary
1 samples · 1 runs · FR · Age unknown · 2022 · 13.01 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 7 sample values (collection date, country, latitude, location locality, location region, longitude, sex) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 4 sample values (age, health condition, health condition detail, subject id) · PMC9202402 |
| ○ 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 |
| – 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 | 1 | 100% | ||||
| country | 1 | 100% | 1 | |||
| health_condition | 1 | 100% | 1 | |||
| subject_id | 1 | 100% | 1 | |||
| age_at_collection_days | 1 | 100% | 1 | |||
| collection_date | 1 | 100% | 1 | |||
| detailed_location | 1 | 100% | ||||
| health_condition_detail | 1 | 100% | 1 | |||
| latitude | 1 | 100% | 1 | |||
| location_locality | 1 | 100% | 1 | |||
| location_region | 1 | 100% | 1 | |||
| longitude | 1 | 100% | 1 | |||
| sex | 1 | 100% | 1 |
- Recovery of Metagenome-Assembled Genomes from a Human Fecal Sample with Pacific Biosciences High-Fidelity Sequencing. 2022 PMID 35532226 PMC9202402 own_data
Archive description
Characterization of the fecal metagenome from a healthy human donor with the PacBio HiFi sequencing technology.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.85. Assay shotgun_dna.
- host study.description · “healthy human donor”
- body site study.title · “human fecal metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA12616356 | age_at_collection_days | 10958 | R3 | 0.70 | paper.fulltext.methods | 30-year-old healthy French volunteer |
| SAMEA12616356 | collection_date | 2019 | R1 | 0.90 | biosample.attribute:collection_date | 2019 |
| SAMEA12616356 | country | FR | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | France |
| SAMEA12616356 | health_condition | healthy_control | R3 | 0.70 | paper.fulltext.methods | self-collected by a 30-year-old healthy |
| SAMEA12616356 | health_condition_detail | healthy human donor | R3 | 0.70 | paper.fulltext.methods | self-collected by a 30-year-old healthy |
| SAMEA12616356 | latitude | 48.8583 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 48.8583 2.2923 |
| SAMEA12616356 | location_locality | Jouy-en-Josas | R1 | 0.85 | biosample.attribute:geographic_location_region_and_locality | Jouy-en-Josas |
| SAMEA12616356 | location_region | Ile-de-France | R1 | 0.60 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 48.8583 2.2923 |
| SAMEA12616356 | longitude | 2.2923 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 48.8583 2.2923 |
| SAMEA12616356 | sex | male | R1 | 0.90 | sample.attr.host_sex | male |
| SAMEA12616356 | subject_id | SAMEA12616356 | R3 | 0.70 | design.one_sample_per_subject:fulltext | A fecal sample was self-collected by a 30-year-old healthy French volunteer for whom written consent was obtained. |
Sequencing
1 runs over 1 samples · mean 13.01 Gbp per run (median 13.01 Gbp, total 13.01 Gbp; 1 runs with a base count) · layout SINGLE 1 · platform PACBIO_SMRT 1 · models Sequel (1) · 0% of runs with a Sandpiper profile · first public 2022-01-31
Authors (3)
Plaza Oñate F first · Roume H · Almeida M last
Downloads
PRJEB50473.csv.gz (941 B) · parquet (70.6 KB) — all 1 samples, every field with route and confidence · PRJEB50473_determinations.csv.gz (908 B) — 11 evidence rows