Gut metagenome and colorectal cancer, Shanghai, China
Human gut metagenome study of 4 samples from Shanghai, China, evaluating the influence of gut microbiota on colorectal cancer (CRC). machine-written summary
4 samples · 4 runs · CN · Age unknown · 2017 · 17.2 Mbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 32 sample values (collection date, country, health condition, health condition detail, latitude, location region, longitude, subject id) |
| – 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 |
| – 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 | 4 | 100% | 4 | |||
| health_condition | 4 | 100% | 4 | |||
| subject_id | 4 | 100% | 4 | |||
| collection_date | 4 | 100% | 4 | |||
| detailed_location | 4 | 100% | ||||
| health_condition_detail | 4 | 100% | 4 | |||
| latitude | 4 | 100% | 4 | |||
| location_region | 4 | 100% | 4 | |||
| longitude | 4 | 100% | 4 |
Archive description
To evaluate the inflence of microbiota on CRC
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by opus_adjudicated with confidence 0.55. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site sample.attr.isolation_source · “feces (n=4/4)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN04858320 | collection_date | 2014-04-13 | R1 | 0.90 | biosample.attribute:collection_date | 2014-04-13 |
| SAMN04858320 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China:Shanghai |
| SAMN04858320 | health_condition | healthy_control | R1 | 0.70 | sample.name_rule:alias | CK1 |
| SAMN04858320 | health_condition_detail | CK | R1 | 0.70 | sample.name_rule:alias | CK1 |
| SAMN04858320 | latitude | 31.0200 | R1 | 0.90 | biosample.attribute:lat_lon | 31.02 N 121.45 E |
| SAMN04858320 | location_region | Shanghai | R1 | 0.85 | biosample.attribute:geo_loc_name | China:Shanghai |
| SAMN04858320 | longitude | 121.4500 | R1 | 0.90 | biosample.attribute:lat_lon | 31.02 N 121.45 E |
| SAMN04858320 | subject_id | CK1 | R1 | 0.70 | sample.name_rule:alias | CK1 |
Sequencing
4 runs over 4 samples · mean 17.1 Mbp per run (median 17.2 Mbp, total 68.5 Mbp; 4 runs with a base count) · layout PAIRED 4 · platform ILLUMINA 4 · models Illumina HiSeq 3000 (4) · 0% of runs with a Sandpiper profile · first public 2017-04-16
Authors (0)
No author record.
Downloads
PRJNA318564.csv.gz (1.0 KB) · parquet (69.9 KB) — all 4 samples, every field with route and confidence · PRJNA318564_determinations.csv.gz (896 B) — 32 evidence rows