Intestinal mucosa microbiome in IBD patients, Kunming, China
100 intestinal mucosa samples from a case-control study in Kunming, China, comparing ulcerative colitis and Crohn's disease patients with controls to examine links between mucosal bacteria and host autophagy/ER stress/bile acid signaling. machine-written summary
100 samples · 100 runs · CN · Age unknown · 2023 · 27.6 Mbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 500 sample values (collection date, country, latitude, location locality, longitude) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 200 sample values (antibiotic exposure, location site) · PMC9178242 |
| ○ 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 · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 0 | 0% | ||||
| country | 100 | 100% | 100 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% | ||||
| antibiotic_exposure | 100 | 100% | 100 | |||
| collection_date | 100 | 100% | 100 | |||
| detailed_location | 100 | 100% | ||||
| latitude | 100 | 100% | 100 | |||
| location_locality | 100 | 100% | 100 | |||
| location_site | 100 | 100% | 100 | |||
| longitude | 100 | 100% | 100 |
- Mucosa-Colonizing Microbiota Correlate With Host Autophagy Signaling in Patients With Inflammatory Bowel Disease. 2022 PMID 35694307 PMC9178242 own_data
Archive description
the interaction between bacteria and human gene
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.57. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- body site study.title · “Intestinal mucosa microbiome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN25038443 | antibiotic_exposure | no | R3 | 0.60 | paper.fulltext.results | antibiotic use within the last 3 months |
| SAMN25038443 | collection_date | 2018-08-01 | R1 | 0.90 | biosample.attribute:collection_date | 2018-08-01 |
| SAMN25038443 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China: Kunming |
| SAMN25038443 | latitude | 25.0300 | R1 | 0.90 | biosample.attribute:lat_lon | 25.03 N 102.70 E |
| SAMN25038443 | location_locality | Kunming | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Kunming |
| SAMN25038443 | location_site | First People's Hospital of Yunnan Province | R3 | 0.70 | paper.fulltext.methods | recruited from the First People's Hospital of Yunnan Province |
| SAMN25038443 | longitude | 102.7000 | R1 | 0.90 | biosample.attribute:lat_lon | 25.03 N 102.70 E |
Sequencing
100 runs over 100 samples · mean 27.3 Mbp per run (median 27.6 Mbp, total 2.73 Gbp; 100 runs with a base count) · layout PAIRED 100 · platform ILLUMINA 100 · models Illumina HiSeq 2000 (100) · 0% of runs with a Sandpiper profile · first public 2023-02-02
Help complete this project
3 of the 4 core fields are below 50% coverage: age_category, health_condition, subject_id. Share metadata
Downloads
PRJNA797846.csv.gz (3.1 KB) · parquet (74.0 KB) — all 100 samples, every field with route and confidence · PRJNA797846_determinations.csv.gz (4.5 KB) — 700 evidence rows