Gut metagenomes in CRC vs healthy controls, Inner Mongolia, China
Case-control metagenomic study of 46 fecal samples (26 colorectal cancer patients, 20 healthy controls) from Inner Mongolia, China, comparing gut microbiota, metabolites, and metabolic pathways between groups. machine-written summary
46 samples · 46 runs · CN · Age unknown · 2024 · 5.72 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 322 sample values (collection date, country, health condition, health condition detail, latitude, location region, longitude) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 138 sample values (antibiotic exposure, location site, subject id) · PMC12682799 |
| ○ 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 43 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 | 46 | 100% | 46 | |||
| health_condition | 46 | 100% | 46 | |||
| subject_id | 46 | 100% | 46 | |||
| antibiotic_exposure | 46 | 100% | 46 | |||
| collection_date | 46 | 100% | 46 | |||
| detailed_location | 46 | 100% | ||||
| health_condition_detail | 46 | 100% | 46 | |||
| latitude | 46 | 100% | 46 | |||
| location_region | 46 | 100% | 46 | |||
| location_site | 46 | 100% | 46 | |||
| longitude | 46 | 100% | 46 |
- Bacteroides ovatus-derived N-methylserotonin inhibit colorectal cancer via the HTR1D-mediated cAMP-PKA-NF-κB signaling axis. 2025 PMID 41368641 PMC12682799 own_data
- Metagenome analysis reveals multi-kingdom gut microbiota as diagnostic markers for colorectal cancer. 2026 PMID 42519695 PMC13383993 unsure
Archive description
We conducted metagenomic and untargeted metabolomic sequencing analyses of fecal samples collected from patients with CRC (n=26) and healthy controls (n=20) and observed an elevated abundance of potentially pathogenic bacteria such as Escherichia, Fusobacterium, Klebsiella, Lachnoclostridium, Lachnoclostridium, Shigella and Enterococcus alongside reduced abundance of probiotic bacteria including Lactococcus, Lachnospira and Eubacterium in patients with CRC. Metabolites and metabolic pathways related to glycolysis, methane generation, beneficial amino acid degradation, and linoleic acid degradation were significantly elevated in CRC patients compared with healthy controls. Notably, differential analysis identified N-methylserotonin as one of the most significantly differentially expressed metabolites between the two group, and no previous studies have reported the relevance of this metabolite to tumors. Furthermore, N-methylserotonin levels exhibited a significant positive correlation with the abundance of probiotic bacteria such as Lachnospira, as well as with the degree of tumor differentiation, suggesting its potential as a non-invasive biomarker for CRC diagnosis.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by opus_adjudicated with confidence 0.85. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.description · “fecal samples collected from patients with CRC”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN42746516 | antibiotic_exposure | no | R3 | 0.70 | paper.fulltext.methods | antibiotic/probiotic/prebiotic use within one month prior to specimen collection |
| SAMN42746516 | collection_date | 2021-07 | R1 | 0.90 | biosample.attribute:collection_date | 2021-07 |
| SAMN42746516 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China:Inner Mongolia |
| SAMN42746516 | health_condition | colorectal_cancer | R1 | 0.70 | sample.name_rule:alias | C |
| SAMN42746516 | health_condition_detail | C | R1 | 0.70 | sample.name_rule:alias | C |
| SAMN42746516 | latitude | 41.0000 | R1 | 0.90 | biosample.attribute:lat_lon | 41 N 107 E |
| SAMN42746516 | location_region | Inner Mongolia | R1 | 0.85 | biosample.attribute:geo_loc_name | China:Inner Mongolia |
| SAMN42746516 | location_site | People's Hospital of Bayannur | R3 | 0.70 | paper.fulltext.methods | between July 2021 and December 2022 at the People’s Hospital of Bayannur |
| SAMN42746516 | longitude | 107.0000 | R1 | 0.90 | biosample.attribute:lat_lon | 41 N 107 E |
| SAMN42746516 | subject_id | SAMN42746516 | R3 | 0.70 | design.one_sample_per_subject:fulltext | Fecal samples from CRC patients (n=26) and healthy controls (n=20) were collected for metagenomic sequencing |
Sequencing
46 runs over 46 samples · mean 5.75 Gbp per run (median 5.72 Gbp, total 264.60 Gbp; 46 runs with a base count) · layout PAIRED 46 · platform ILLUMINA 46 · models Illumina NovaSeq 6000 (46) · 93% of runs with a Sandpiper profile · first public 2024-07-31
Authors (16)
He J first · Jia J · Qu W · Zhang S · Fan K · Lin R · Zhao W · Niu Y · Huang Y · Jia L last · Wang X first · Wang J · Chen W · Sun J · Li J · Hu H last
Downloads
PRJNA1138893.csv.gz (2.2 KB) · parquet (72.2 KB) — all 46 samples, every field with route and confidence · PRJNA1138893_determinations.csv.gz (3.8 KB) — 460 evidence rows