Gut metagenome in CRC patients, Beijing, China
47 gut metagenome samples from adults with colorectal cancer in Beijing, China, sequenced using Illumina technology. machine-written summary
47 samples · 47 runs · CN · Adult · 2022 · 9.12 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 235 sample values (collection date, country, latitude, location locality, longitude) |
| ○ Abstract / description | read; no usable statement |
| – Full text | no open-access full text linked |
| – Supplementary tables | no supplementary tables available (or none open access) |
| ✓ External resources | 94 sample values (health condition, health condition detail) · from GMrepo v3 |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 41 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 | 47 | 100% | ||||
| country | 47 | 100% | 47 | |||
| health_condition | 47 | 100% | 47 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 47 | 100% | 47 | |||
| detailed_location | 47 | 100% | ||||
| health_condition_detail | 47 | 100% | 47 | |||
| latitude | 47 | 100% | 47 | |||
| location_locality | 47 | 100% | 47 | |||
| longitude | 47 | 100% | 47 |
Archive description
gut metagenome in CRC patients with illumina 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 metagenome in CRC”
- body site study.description · “gut metagenome in CRC”
- 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 |
|---|---|---|---|---|---|---|
| SAMN17319986 | collection_date | 2020 | R1 | 0.90 | biosample.attribute:collection_date | 2020 |
| SAMN17319986 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China: Beijing |
| SAMN17319986 | health_condition | colorectal_cancer | R2 | 0.75 | external.gmrepo source | phenotype: Colorectal Neoplasms |
| SAMN17319986 | health_condition_detail | Colorectal Neoplasms | R2 | 0.75 | external.gmrepo source | phenotype: Colorectal Neoplasms |
| SAMN17319986 | latitude | 39.5400 | R1 | 0.90 | biosample.attribute:lat_lon | 39.54 N 116.2 E |
| SAMN17319986 | location_locality | Beijing | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Beijing |
| SAMN17319986 | longitude | 116.2000 | R1 | 0.90 | biosample.attribute:lat_lon | 39.54 N 116.2 E |
Sequencing
47 runs over 47 samples · mean 9.60 Gbp per run (median 9.12 Gbp, total 451.25 Gbp; 47 runs with a base count) · layout PAIRED 47 · platform ILLUMINA 47 · models HiSeq X Ten (47) · 87% of runs with a Sandpiper profile · first public 2022-02-27
Authors (0)
No author record.
Downloads
PRJNA692325.csv.gz (2.0 KB) · parquet (71.1 KB) — all 47 samples, every field with route and confidence · PRJNA692325_determinations.csv.gz (2.7 KB) — 329 evidence rows