Colorectal precancer and CRC gut microbiome, Shanghai
126 fecal samples from a Shanghai, China case-control study examining gut microbiota signatures in colorectal precancer and colorectal cancer, aiming to detect colorectal lesions. machine-written summary
126 samples · 126 runs · CN · Age unknown · 2021 · 6.30 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 882 sample values (collection date, country, health condition, health condition detail, latitude, location region, longitude) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC8294192, PMC8908310 |
| – 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
Genera, mean relative abundance over 118 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 | 126 | 100% | 126 | |||
| health_condition | 126 | 100% | 126 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 126 | 100% | 126 | |||
| detailed_location | 126 | 100% | ||||
| health_condition_detail | 126 | 100% | 126 | |||
| latitude | 126 | 100% | 126 | |||
| location_region | 126 | 100% | 126 | |||
| longitude | 126 | 100% | 126 |
- Alterations, Interactions, and Diagnostic Potential of Gut Bacteria and Viruses in Colorectal Cancer. 2021 PMID 34307189 PMC8294192 unsure
- Alterations of Gut Mycobiota Profiles in Adenoma and Colorectal Cancer. 2022 PMID 35281451 PMC8908310 unsure
- Multimodal metagenomic analysis reveals microbial single nucleotide variants as superior biomarkers for early detection of colorectal cancer. 2023 PMID 37635357 PMC10464540 unsure
- Fusobacterium lineage profiling facilitates the clarification of the associations between non-nucleatum Fusobacterium and colorectal cancer. 2025 PMID 41068096 PMC12511565 unsure
- Instance-based transfer learning enables cross-cohort early detection of colorectal cancer. 2026 PMID 42106361 PMC13381771 unsure
1 more
- Gut fungal signatures in colorectal cancer and their potential for supporting diagnosis: a multi-cohort metagenomic analysis. 2026 PMID 42271362 PMC13281578
Archive description
a study of the signatures of gut microbiota in two independent Chinese cohorts of colorectal precancer and CRC and test their utility in detecting colorectal lesions.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.62. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.title · “human gut metagenome Metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN18115833 | collection_date | 2014 | R1 | 0.90 | biosample.attribute:collection_date | 2014 |
| SAMN18115833 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China:Shanghai |
| SAMN18115833 | health_condition | colorectal_cancer | R1 | 0.85 | biosample.attribute:description | colorectal cancer |
| SAMN18115833 | health_condition_detail | colorectal cancer | R1 | 0.85 | biosample.attribute:description | colorectal cancer |
| SAMN18115833 | latitude | 31.0000 | R1 | 0.90 | biosample.attribute:lat_lon | 31 N 121 E |
| SAMN18115833 | location_region | Shanghai | R1 | 0.85 | biosample.attribute:geo_loc_name | China:Shanghai |
| SAMN18115833 | longitude | 121.0000 | R1 | 0.90 | biosample.attribute:lat_lon | 31 N 121 E |
Sequencing
126 runs over 126 samples · mean 6.96 Gbp per run (median 6.30 Gbp, total 877.18 Gbp; 126 runs with a base count) · layout PAIRED 126 · platform ILLUMINA 126 · models Illumina HiSeq 2500 (126) · 94% of runs with a Sandpiper profile · first public 2021-03-03 – 2021-03-04
Authors (55)
Gao R first · Zhu Y · Kong C · Xia K · Li H · Zhang X · Liu Y · Zhong H · Yang R · Chen C · Qin N · Qin H last · Wu M · Sun J · Huang L · Wu X · Yin L · Wu Y first · Ji G · Han D · Zhang Y · Zhu X · Li M · Gao Y · Xie R · Xu M · Lu L · Deng Z · Wei Q · Bi D last · Sun Y first · Wu S · Wu Z · Zhu W · Gao H · Xing J · Zhao J · Fan X · Su X last · Zhang Z first · Lu T · Dong B · Liu J · Li S · Liu H · Li X · Guan T · Guo H · Yan Q · Lei Z · Yu X · Wang L · Kang J · Li L · Zhao D last
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, subject_id. Share metadata
Downloads
PRJNA706060.csv.gz (3.9 KB) · parquet (74.6 KB) — all 126 samples, every field with route and confidence · PRJNA706060_determinations.csv.gz (5.5 KB) — 882 evidence rows