Gut microbiome in ankylosing spondylitis, Guangzhou, China
149 faecal samples from Guangzhou, China, comparing gut microbiota of ankylosing spondylitis patients (untreated, NSAID-treated, or Chinese herbal medicine-treated) with healthy controls, in a case-control study. machine-written summary
150 samples · 150 runs · CN · Adult · 2019 · 10.44 Gbp / sample · cohort Alterations in the gut virome in patients with ank
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 1,045 sample values (collection date, country, health condition, health condition detail, latitude, location locality, longitude) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 451 sample values (antibiotic exposure, location locality, location site, subject id) · PMC10098016, PMC7451032 |
| ○ 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 |
intervention — arms not resolved
Non-antibiotic pharmaceutical given as the study intervention (metformin design non_randomized_controlled · population autoimmune_inflammatory · AS patients treated with NSAIDs (celecoxib) or Chinese herbal medicine vs untreated/healthy
“patients treated with nonsteroidal anti-inflammatory drugs” — abstract:31778109 (study level; per-sample arms are in the intervention column below)
Genera, mean relative abundance over 141 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 | 150 | 100% | 150 | |||
| health_condition | 149 | 99% | 149 | |||
| subject_id | 150 | 100% | 150 | |||
| antibiotic_exposure | 150 | 100% | 150 | |||
| collection_date | 150 | 100% | 150 | |||
| detailed_location | 150 | 100% | ||||
| location_locality | 150 | 100% | 149 | 1 | ||
| location_site | 150 | 100% | 150 | |||
| health_condition_detail | 149 | 99% | 149 | |||
| latitude | 149 | 99% | 149 | |||
| longitude | 149 | 99% | 149 |
- Metagenome-wide association study of the alterations in the intestinal microbiome composition of ankylosing spondylitis patients and the effect of traditional and herbal treatment. 2020 PMID 31778109 PMC7451032 own_data
- Alterations in the gut virome in patients with ankylosing spondylitis. 2023 PMID 37063855 PMC10098016 unsure
Archive description
Ankylosing spondylitis is a disease that is still hard to cure. It is often found in teenagers and has a great impact on their image and life. The differences between gut microbes and healthy people in Ankylosing Spondylitis patients have been analyzed based on data and some individualized analyses.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adolescent and adult by sonnet_x2 with confidence 0.55. Assay shotgun_dna.
- host run.scientific_name · “human gut metagenome”
- body site run.scientific_name · “human gut metagenome”
- life stage study.description · “often found in teenagers”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA4974097 | antibiotic_exposure | no | R3 | 0.70 | paper.fulltext.methods | received antibiotic therapy in the preceding month |
| SAMEA4974097 | collection_date | 2016 | R1 | 0.90 | biosample.attribute:collection_date | 2016 |
| SAMEA4974097 | country | CN | R1 | 0.90 | sample.attr.geographic_location | China: Guangzhou |
| SAMEA4974097 | health_condition | autoimmune_inflammatory | R1 | 0.70 | sample.name_rule:sample_name | sample_name: AS7 |
| SAMEA4974097 | health_condition_detail | Ankylosing spondylitis patient | R1 | 0.70 | sample.name_rule:sample_name | sample_name: AS7 |
| SAMEA4974097 | latitude | 23.7000 | R1 | 0.90 | biosample.attribute:latitude_and_longitude | 23.7N 113.15E |
| SAMEA4974097 | location_locality | Guangzhou | R1 | 0.85 | biosample.attribute:geographic_location | China: Guangzhou |
| SAMEA4974229 | location_locality | Guangzhou | R3 | 0.70 | paper.fulltext.methods | Guangzhou University of Chinese Medicine, Guangzhou, PR China |
| SAMEA4974097 | location_site | The Second Affiliated Hospital, Guangzhou University of Chinese Medicine | R3 | 0.70 | paper.fulltext.methods | recruited from The Second Affiliated Hospital, Guangzhou University |
| SAMEA4974097 | longitude | 113.1500 | R1 | 0.90 | biosample.attribute:latitude_and_longitude | 23.7N 113.15E |
| SAMEA4974097 | subject_id | SAMEA4974097 | R3 | 0.70 | design.one_sample_per_subject:fulltext | Deep metagenome sequencing on the faecal DNA samples collected from 150 Chinese individuals |
Sequencing
150 runs over 150 samples · mean 10.47 Gbp per run (median 10.44 Gbp, total 1,571.15 Gbp; 150 runs with a base count) · layout PAIRED 150 · platform ILLUMINA 150 · models Illumina HiSeq 4000 (150) · 94% of runs with a Sandpiper profile · first public 2019-02-27
Authors (34)
Huang R first · Li F · Zhou Y · Zeng Z · He X · Fang L · Pan F · Chen Y · Lin J · Li J · Qiu D · Tian Y · Tan X · Song Y · Xu Y · Lai Y · Yi H · Gao Q · Fang X · Shi M · Zhou C · Huang J · He YT last · Li C first · Zhang Y · Yan Q · Guo R · Chen C · Li S · Meng J · Ma J · You W · Wu Z · Sun W last
Downloads
PRJEB28545.csv.gz (5.1 KB) · parquet (77.8 KB) — all 150 samples, every field with route and confidence · PRJEB28545_determinations.csv.gz (12.0 KB) — 1,496 evidence rows