Gut metagenomics in rectal cancer patients, China, case-control
32 baseline fecal samples from colorectal cancer patients in China undergoing neoadjuvant chemoradiotherapy with immunotherapy, comparing those with versus without treatment-related adverse events in a case-control design. machine-written summary
32 samples · 32 runs · CN · Age unknown · 2025 · 6.21 Gbp / sample
One study deposited as 2 BioProjects (76 catalog samples together): PRJNA1049662 · PRJNA1054290 · show together
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 64 sample values (collection date, country) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 96 sample values (health condition, health condition detail, subject id) · PMC11622589 |
| ○ 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 32 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 | 32 | 100% | 32 | |||
| health_condition | 32 | 100% | 32 | |||
| subject_id | 32 | 100% | 32 | |||
| collection_date | 32 | 100% | 32 | |||
| health_condition_detail | 32 | 100% | 32 |
- Unraveling the role of gut microbiome in predicting adverse events in neoadjuvant therapy for rectal cancer. 2024 PMID 39623529 PMC11622589 own_data
Archive description
In order to distinguish adverse event patient from non-adverse event patient.
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 study.title · “baseline colorectal cancer patient”
- body site sample.attr.isolation_source · “stool (n=32/32)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN38704994 | collection_date | 2022-05-01 | R1 | 0.90 | biosample.attribute:collection_date | 2022-05-01 |
| SAMN38704994 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China |
| SAMN38704994 | health_condition | colorectal_cancer | R3 | 0.70 | paper.fulltext.methods | locally advanced rectal patients aged ≥18 years |
| SAMN38704994 | health_condition_detail | pMMR/MSS locally advanced rectal cancer patients | R3 | 0.70 | paper.fulltext.methods | locally advanced rectal patients aged ≥18 years |
| SAMN38704994 | subject_id | SAMN38704994 | R3 | 0.70 | design.one_sample_per_subject:fulltext | we collected samples of 32 patients with locally advanced rectal cancer (LARC) for metagenomic sequencing |
Sequencing
32 runs over 32 samples · mean 6.23 Gbp per run (median 6.21 Gbp, total 199.24 Gbp; 32 runs with a base count) · layout PAIRED 32 · platform ILLUMINA 32 · models Illumina NovaSeq 6000 (32) · 100% of runs with a Sandpiper profile · first public 2025-04-27
Authors (11)
Ma J first · Sun S · Cheng X · Meng C · Zhao H · Fu W · Gao Y · Ma L · Yang Z · Yao H · Su J last
Downloads
PRJNA1049662.csv.gz (1.7 KB) · parquet (70.6 KB) — all 32 samples, every field with route and confidence · PRJNA1049662_determinations.csv.gz (1.6 KB) — 160 evidence rows