Gut microbiota in rectal cancer patients undergoing FOLFOX
62 fecal samples from low-set rectal cancer patients before and after FOLFOX chemotherapy, comparing treatment responders and nonresponders in an intervention study of gut microbiota. machine-written summary
62 samples · 62 runs · CN · Adult · 2019 · 8.68 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 248 sample values (age, health condition, health condition detail, sex) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 124 sample values (country, location site) · PMC7045296 |
| ✓ Supplementary tables | 62 sample values (subject id) |
| – 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 |
longitudinal — not resolved
25 of 37 people sampled more than once (50 samples; median 2, up to 2 per person). Schedule stated by the source: “stool collected before FOLFOX treatment and again after treatment was completed” (time origin: intervention_start).
Genera, mean relative abundance over 58 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 | 62 | 100% | ||||
| country | 62 | 100% | 62 | |||
| health_condition | 62 | 100% | 62 | |||
| subject_id | 62 | 100% | 62 | |||
| age_at_collection_days | 62 | 100% | 62 | |||
| detailed_location | 62 | 100% | ||||
| health_condition_detail | 62 | 100% | 62 | |||
| location_site | 62 | 100% | 62 | |||
| sex | 62 | 100% | 62 |
- Composition of fecal microbiota in low-set rectal cancer patients treated with FOLFOX. 2020 PMID 32153743 PMC7045296 own_data
- <i>Anaerostipes hadrus</i>, a butyrate-producing bacterium capable of metabolizing 5-fluorouracil. 2024 PMID 38470044 PMC11036815 unsure
Archive description
62 fecal samples of low-set rectal cancer patients with FOLFOX treatment. Based on the clinical treatment result, the samples were clustered to R and NR. Analysis the gut microbiota, to illustrate the inter relationship between microbes and clinical results.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult and elderly by sonnet_x2 with confidence 0.68. Assay shotgun_dna.
- host study.description · “62 fecal samples of low-set rectal cancer patients”
- body site study.description · “62 fecal samples of low-set rectal cancer patients”
- life stage study.description · “rectal cancer patients with FOLFOX treatment”
- life stage sample.attr.age · “62 (n=24/62)”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN09748094 | age_at_collection_days | 24471.8 | R1 | 0.70 | sample.attr.age | 67 |
| SAMN09748094 | country | CN | R3 | 0.70 | paper.fulltext.methods | China-Japan Friendship Hospital, 37 low-set rectal cancer patients |
| SAMN09748094 | health_condition | colorectal_cancer | R1 | 0.85 | biosample.attribute:isolate | Low-rectal cancer with FOLFOX |
| SAMN09748094 | health_condition_detail | Low-rectal cancer with FOLFOX | R1 | 0.85 | biosample.attribute:isolate | Low-rectal cancer with FOLFOX |
| SAMN09748094 | location_site | China-Japan Friendship Hospital | R3 | 0.70 | paper.fulltext.methods | recruited, from the China-Japan Friendship Hospital, 37 low-set rectal cancer patients |
| SAMN09748094 | sex | male | R1 | 0.90 | sample.attr.sex | male |
| SAMN09748094 | subject_id | 2 | R2 | 0.85 | paper.supp.Table_S7_Enterotype_information.xlsx[group][Patient number] | 2 |
Sequencing
62 runs over 62 samples · mean 9.58 Gbp per run (median 8.68 Gbp, total 593.83 Gbp; 62 runs with a base count) · layout SINGLE 62 · platform ILLUMINA 62 · models HiSeq X Ten (62) · 94% of runs with a Sandpiper profile · first public 2019-09-02
Authors (23)
Li J first · Lyu N · Ma Y · Liu F · Feng Y · Yao L · Hou Z · Song X · Zhao H · Li X · Wang Y · Xiao C · Zhu B last · Liu D first · Xie LS · Lian S · Li K · Yang Y · Wang WZ · Hu S · Liu SJ · Liu C · He Z last
Downloads
PRJNA484031.csv.gz (2.6 KB) · parquet (72.2 KB) — all 62 samples, every field with route and confidence · PRJNA484031_determinations.csv.gz (4.0 KB) — 434 evidence rows