Gut metagenomes, CPT11-induced mucositis, USA
71 gut metagenome samples from cancer patients (mostly other cancers, some colorectal cancer) in the USA, studying irinotecan (CPT11)-induced intestinal mucositis and gut microbiota; case-control design. machine-written summary
71 samples · 71 runs · US · Age unknown · 2019 · 7.14 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 284 sample values (collection date, country, subject id, timepoint) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC10557844, PMC12245021, PMC12336193, PMC13173278, PMC7059390 |
| ✓ Supplementary tables | 23 sample values (intervention) |
| ✓ External resources | 284 sample values (age, health condition, health condition detail, sex) · from GMrepo v3 |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
longitudinal — not resolved
23 of 26 people sampled more than once (68 samples; median 3, up to 4 per person). Schedule stated by the source: “Four time points per patient: B1 baseline, B2 baseline ≥24h after B1, T1 end of cycle 1 ±5 days, T2 end of cycle 2 ±5 days” (time origin: intervention_start).
Genera, mean relative abundance over 67 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 | 71 | 100% | ||||
| country | 71 | 100% | 71 | |||
| health_condition | 71 | 100% | 71 | |||
| subject_id | 71 | 100% | 71 | |||
| age_at_collection_days | 71 | 100% | 71 | |||
| collection_date | 71 | 100% | 71 | |||
| health_condition_detail | 71 | 100% | 71 | |||
| sex | 71 | 100% | 71 | |||
| timepoint_label | 71 | 100% | 71 | |||
| intervention | 23 | 32% | 23 |
- Predictable modulation of cancer treatment outcomes by the gut microbiota. 2020 PMID 32138779 PMC7059390 own_data
- β-Glucuronidase-Expressing Lactobacillus reuteri Triggers Irinotecan Enterotoxicity Through Depleting the Regenerative Epithelial Stem/Progenitor Pool. 2025 PMID 40285661 PMC12245021 own_data
- Identification of microbial markers associated with lung cancer based on multi-cohort 16 s rRNA analyses: A systematic review and meta-analysis. 2023 PMID 37676050 PMC10557844 unsure
- Exploring fecal microbiota signatures associated with immune response and antibiotic impact in NSCLC: insights from metagenomic and machine learning approaches. 2025 PMID 40792105 PMC12336193 unsure
- Ecological and Functional Stratification of the Stool Microbiome Predicts Response to Immune Checkpoint Inhibitors across Cancer Types. 2026 PMID 42146906 PMC13173278 unsure
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.70. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.title · “Gut metagenomic raw sequence reads”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN10688591 | age_at_collection_days | 19358.25 | R2 | 0.75 | external.gmrepo source | host_age: 53.0 |
| SAMN10688591 | collection_date | 2013 | R1 | 0.90 | biosample.attribute:collection_date | 2013 |
| SAMN10688591 | country | US | R1 | 0.90 | sample.attr.geo_loc_name | USA |
| SAMN10688591 | health_condition | other_cancer | R2 | 0.75 | external.gmrepo source | phenotype: Adenocarcinoma of Lung |
| SAMN10688591 | health_condition_detail | Adenocarcinoma of Lung | R2 | 0.75 | external.gmrepo source | phenotype: Adenocarcinoma of Lung |
| SAMN10688601 | intervention | drug_therapy | R2 | 0.75 | paper.supp.40168_2020_811_MOESM1_ESM.docx[table1!Treatment] | Treatment: Erlotinib |
| SAMN10688591 | sex | female | R2 | 0.75 | external.gmrepo source | sex: Female |
| SAMN10688591 | subject_id | 1 | R1 | 0.70 | sample.name_rule:sample_alias | 1A1 |
| SAMN10688591 | timepoint_label | A1 | R1 | 0.70 | sample.name_rule:sample_alias | 1A1 |
Sequencing
71 runs over 71 samples · mean 8.03 Gbp per run (median 7.14 Gbp, total 570.38 Gbp; 71 runs with a base count) · layout PAIRED 71 · platform ILLUMINA 71 · models Illumina HiSeq 1500 (71) · 94% of runs with a Sandpiper profile · first public 2019-01-12
Authors (37)
Heshiki Y first · Vazquez-Uribe R · Li J · Ni Y · Quainoo S · Imamovic L · Sørensen M · Chow BKC · Weiss GJ · Xu A · Sommer MOA · Panagiotou G last · Han W first · Wang N · Han M · Liu X · Sun T · Xu J last · Yue B first · Gao R · Zhao L · Liu D · Lv C · Wang Z · Ai F · Zhang B · Yu Z · Geng X · Wang H · Wang K · Chen K · Liu C · Dou W last · Zhou Y · Wang Y · Orletskaia VA first · Olekhnovich EI last
Downloads
PRJNA494824.csv.gz (3.0 KB) · parquet (73.4 KB) — all 71 samples, every field with route and confidence · PRJNA494824_determinations.csv.gz (5.6 KB) — 591 evidence rows