Gut Virome in Obesity and Type 2 Diabetes, Hong Kong
Shotgun metagenomic sequencing of VLP-enriched fecal virome samples from 229 subjects (128 obese, including those with type 2 diabetes, and 101 healthy controls) in Hong Kong, China. machine-written summary
229 samples · 229 runs · HK · Age unknown · 2022 · 6.67 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 687 sample values (country, health condition, health condition detail) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 229 sample values (subject id) · PMC11195487 |
| ○ 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 | 0 | 0% | ||||
| country | 229 | 100% | 229 | |||
| health_condition | 229 | 100% | 229 | |||
| subject_id | 229 | 100% | 229 | |||
| health_condition_detail | 229 | 100% | 229 |
- Gut mycobiome alterations in obesity in geographically different regions. 2024 PMID 38899956 PMC11195487 cites_accession
- Alterations in the Gut Virome in Obesity and Type 2 Diabetes Mellitus. 2021 PMID 34175280 own_data
Archive description
human gut metagenomics VLP reads
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by curator_audit with confidence 0.50. Assay shotgun_dna.
- host study_title · “human gut metagenomics VLP reads”
- host runs.isolation_source · “human feces (229)”
- body site study_title · “human gut metagenomics VLP reads”
- body site runs.isolation_source · “human feces (229)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN26879719 | country | HK | R1 | 0.90 | sample.attr.geo_loc_name | Hong Kong |
| SAMN26879719 | health_condition | healthy_control | R1 | 0.70 | sample.name_rule:TITLE | S1Lean |
| SAMN26879719 | health_condition_detail | lean control | R1 | 0.70 | sample.name_rule:TITLE | S1Lean |
| SAMN26879719 | subject_id | SAMN26879719 | R3 | 0.70 | design.one_sample_per_subject:fulltext | In total, 217 subjects from KM ( n = 99) and HK ( n = 118) were recruited for this study. |
Sequencing
229 runs over 229 samples · mean 6.88 Gbp per run (median 6.67 Gbp, total 1,574.83 Gbp; 229 runs with a base count) · layout PAIRED 229 · platform ILLUMINA 229 · models Illumina NovaSeq 6000 (229) · 66% of runs with a Sandpiper profile · first public 2022-04-01
Authors (0)
No author record.
Downloads
PRJNA648797.csv.gz (6.6 KB) · parquet (78.8 KB) — all 229 samples, every field with route and confidence · PRJNA648797_determinations.csv.gz (7.5 KB) — 916 evidence rows