Gut phage DNA methylation landscape in healthy adults, China
7 gut microbiome samples from healthy adults in Shatin, China, analyzed by PacBio sequencing to characterize DNA methylation patterns across gut phage genomes. machine-written summary
7 samples · 7 runs · CN, HK · Adult · 2023 · 4.04 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 21 sample values (collection date, country, location locality) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 14 sample values (health condition, health condition detail) · PMC10711547 |
| ○ 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 | 7 | 100% | ||||
| country | 7 | 100% | 7 | |||
| health_condition | 7 | 100% | 7 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 7 | 100% | 7 | |||
| detailed_location | 7 | 100% | ||||
| health_condition_detail | 7 | 100% | 7 | |||
| location_locality | 7 | 100% | 7 |
- PacBio sequencing of human fecal samples uncovers the DNA methylation landscape of 22 673 gut phages. 2023 PMID 37904586 PMC10711547 own_data
Archive description
gut microbes sequencing
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage reason_code age_adult_only”
- body site study.title · “gut microbes sequencing”
- body site study.description · “gut microbes sequencing”
- life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN31868613 | collection_date | 2021-11 | R1 | 0.90 | biosample.attribute:collection_date | 2021-11 |
| SAMN31868613 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China: Shatin1 |
| SAMN31868613 | health_condition | healthy_control | R3 | 0.70 | paper.fulltext.methods | seven healthy individuals (age: 52.7 ± 11.5) |
| SAMN31868613 | health_condition_detail | healthy individuals | R3 | 0.70 | paper.fulltext.methods | seven healthy individuals (age: 52.7 ± 11.5) |
| SAMN31868613 | location_locality | Shatin | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Shatin1 |
Sequencing
7 runs over 7 samples · mean 4.13 Gbp per run (median 4.04 Gbp, total 28.88 Gbp; 7 runs with a base count) · layout SINGLE 7 · platform PACBIO_SMRT 7 · models Sequel II (7) · 0% of runs with a Sandpiper profile · first public 2023-10-11
Authors (10)
Ding Y first · Zhao L · Wang G · Shi Y · Guo G · Liu C · Chen Z · Coker OO · She J · Yu J last
Downloads
PRJNA905328.csv.gz (1.0 KB) · parquet (69.4 KB) — all 7 samples, every field with route and confidence · PRJNA905328_determinations.csv.gz (847 B) — 35 evidence rows