Gut metagenomes in colorectal cancer vs advanced adenoma
Case-control metagenomic study of 52 fecal samples (26 colorectal cancer, 26 colorectal adenoma patients), location not reported, comparing gut microbiome and microbial SNP features to identify biomarkers distinguishing the two conditions. machine-written summary
52 samples · 52 runs · CN · Age unknown · 2021 · 10.81 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 156 sample values (collection date, health condition, health condition detail) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 208 sample values (antibiotic exposure, country, location site, subject id) · PMC9769752 |
| ○ 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 |
Genera, mean relative abundance over 49 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 | 0 | 0% | ||||
| country | 52 | 100% | 52 | |||
| health_condition | 52 | 100% | 52 | |||
| subject_id | 52 | 100% | 52 | |||
| antibiotic_exposure | 52 | 100% | 52 | |||
| collection_date | 52 | 100% | 52 | |||
| detailed_location | 52 | 100% | ||||
| health_condition_detail | 52 | 100% | 52 | |||
| location_site | 52 | 100% | 52 |
- Different Characteristics in Gut Microbiome between Advanced Adenoma Patients and Colorectal Cancer Patients by Metagenomic Analysis. 2022 PMID 36453905 PMC9769752 own_data
- Different Characteristics in Gut Microbiome between Advanced Adenoma Patients and Colorectal Cancer Patients by Metagenomic Analysis 2022 own_data
Archive description
Intestinal polyp patients and colorectal cancer patients metagenomic analysis
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.82. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site run.scientific_name · “gut metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN22025956 | antibiotic_exposure | no | R3 | 0.70 | paper.fulltext.methods | medicine history of oral microbial agents |
| SAMN22025956 | collection_date | 2020-04-10 | R1 | 0.90 | biosample.attribute:collection_date | 2020-04-10 |
| SAMN22025956 | country | CN | R3 | 0.70 | paper.fulltext.methods | Huzhou Central Hospital |
| SAMN22025956 | health_condition | colorectal_cancer | R1 | 0.90 | biosample_attr | colorectal cancer |
| SAMN22025956 | health_condition_detail | colorectal cancer | R1 | 0.90 | sample.attr.host_disease | colorectal cancer |
| SAMN22025956 | location_site | Huzhou Central Hospital | R3 | 0.70 | paper.fulltext.methods | Patients with CRC and AA at Huzhou Central Hospital |
| SAMN22025956 | subject_id | SAMN22025956 | R3 | 0.70 | design.one_sample_per_subject:fulltext | only 26 CRC cases and 26 AA controls were recruited |
Sequencing
52 runs over 52 samples · mean 11.93 Gbp per run (median 10.81 Gbp, total 620.58 Gbp; 52 runs with a base count) · layout PAIRED 52 · platform ILLUMINA 52 · models HiSeq X Ten (52) · 94% of runs with a Sandpiper profile · first public 2021-10-05
Authors (9)
Han S first · Zhuang J · Pan Y · Wu W · Ding K last · Shuwen H first · Jing Z · Yuefen P · Wei W
Downloads
PRJNA768298.csv.gz (2.4 KB) · parquet (72.1 KB) — all 52 samples, every field with route and confidence · PRJNA768298_determinations.csv.gz (2.9 KB) — 364 evidence rows