Gut metagenomes in colorectal cancer, China
44 shotgun metagenome samples from colorectal cancer patients in China, studying intestinal flora changes around drug therapy (adjuvant chemoradiotherapy/immunotherapy) in a longitudinal design. machine-written summary
44 samples · 44 runs · CN · Age unknown · 2025 · 6.40 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 | 172 sample values (collection date, country, subject id, timepoint) |
| ✓ Abstract / description | 88 sample values (health condition, health condition detail) |
| – 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 |
intervention — arms not resolved
Non-antibiotic pharmaceutical given as the study intervention (metformin design single_arm_before_after · population colorectal_cancer · Adjuvant chemoradiotherapy and immunotherapy in CRC patients, sampled before/after
“before and after adjuvant chemoradiotherapy and immunotherapy” — bioproject.description (study level; per-sample arms are in the intervention column below)
longitudinal — not resolved
17 of 25 people sampled more than once (34 samples; median 2, up to 2 per person). Schedule stated by the source: “Baseline (pre-treatment) and post-treatment collections per patient, with multiple post timepoints (e.g., post1.x, post2.x) indicated by sample naming.” (time origin: chemotherapy start).
Genera, mean relative abundance over 44 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 | 44 | 100% | 44 | |||
| health_condition | 44 | 100% | 44 | |||
| subject_id | 42 | 95% | 42 | |||
| collection_date | 44 | 100% | 44 | |||
| health_condition_detail | 44 | 100% | 44 | |||
| timepoint_label | 42 | 95% | 42 |
Archive description
In order to discriminate intestinal flora changes before and after adjuvant chemoradiotherapy and immunotherapy
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.65. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site run.scientific_name · “human gut metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN38913288 | collection_date | 2022-07-01 | R1 | 0.90 | biosample.attribute:collection_date | 2022-07-01 |
| SAMN38913288 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China |
| SAMN38913288 | health_condition | colorectal_cancer | R4 | 0.50 | study.title | baseline colorectal cancer patient |
| SAMN38913288 | health_condition_detail | Baseline colorectal cancer patients | R4 | 0.50 | study.title | baseline colorectal cancer patient |
| SAMN38913290 | subject_id | 1 | R1 | 0.70 | sample.name_rule:alias | post1.1 |
| SAMN38913290 | timepoint_label | post1 | R1 | 0.70 | sample.name_rule:alias | post1.1 |
Sequencing
44 runs over 44 samples · mean 6.38 Gbp per run (median 6.40 Gbp, total 280.73 Gbp; 44 runs with a base count) · layout PAIRED 44 · platform ILLUMINA 44 · models Illumina NovaSeq 6000 (44) · 100% of runs with a Sandpiper profile · first public 2025-04-18 – 2025-04-26
Authors (0)
No author record.
Downloads
PRJNA1054290.csv.gz (1.9 KB) · parquet (70.9 KB) — all 44 samples, every field with route and confidence · PRJNA1054290_determinations.csv.gz (2.2 KB) — 260 evidence rows