Fecal metagenomes in Parkinson's disease and levodopa response
154 fecal samples from Parkinson's disease patients, studied for association between fecal bile acids and levodopa response; cross-sectional design, location not reported. machine-written summary
154 samples · 154 runs · CN · Age unknown · 2024 · 8.17 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 462 sample values (collection date, health condition, health condition detail) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 462 sample values (country, location locality, location site) · PMC11278915, PMC13021664, PMC13460800 |
| ○ 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 |
Genera, mean relative abundance over 146 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 | 154 | 100% | 154 | |||
| health_condition | 154 | 100% | 154 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 154 | 100% | 154 | |||
| detailed_location | 154 | 100% | ||||
| health_condition_detail | 154 | 100% | 154 | |||
| location_locality | 154 | 100% | 154 | |||
| location_site | 154 | 100% | 154 |
- Association between Fecal Bile Acids and Levodopa Response in Patients with Parkinson's Disease. 2024 PMID 39065200 PMC11278915 own_data
- Gut microbial community of patients with Parkinson's disease analyzed using metagenome-assembled genomes. 2026 PMID 41017724 PMC13460800 own_data
- Examination of shared gut microbiome signatures in aging and Parkinson's disease. 2026 PMID 41907847 PMC13021664 unsure
Archive description
metagenomic sequencing data of the fecal microbiota from the Parkinosn's disease patients with different ldopa response rate
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by opus_adjudicated with confidence 0.50. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- host study.description · “Parkinosn's disease patients”
- body site study.title · “fecal microbial composition”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN41999162 | collection_date | 2021-03 | R1 | 0.90 | biosample.attribute:collection_date | 2021-03 |
| SAMN41999162 | country | CN | R3 | 0.70 | paper.fulltext.methods | Ruijin Hospital, Shanghai Jiao Tong University School of Medicine |
| SAMN41999162 | health_condition | neurological_psychiatric | R1 | 0.70 | sample.name_rule:alias | PD_01 |
| SAMN41999162 | health_condition_detail | PD | R1 | 0.70 | sample.name_rule:alias | PD_01 |
| SAMN41999162 | location_locality | Shanghai | R3 | 0.70 | paper.fulltext.methods | Ruijin Hospital, Shanghai Jiao Tong University School of Medicine |
| SAMN41999162 | location_site | Department of Neurology, Ruijin Hospital, Shanghai Jiao Tong University School of Medicine | R3 | 0.70 | paper.fulltext.methods | recruited from the movement disorder clinic at the Department of Neurology, Ruijin |
Sequencing
154 runs over 154 samples · mean 8.22 Gbp per run (median 8.17 Gbp, total 1,265.59 Gbp; 154 runs with a base count) · layout PAIRED 154 · platform ILLUMINA 154 · models Illumina NovaSeq 6000 (154) · 95% of runs with a Sandpiper profile · first public 2024-06-25 – 2025-03-30
Authors (16)
He X first · Lai Y · Mo C · Zhang Y · Ai P · Xu S · Qian Y · Xiao Q · Yang X last · Tng TJW first · Vanan S · Tan EK · Zeng L · Goh WWB · Wong SH · Lim KL last
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, subject_id. Share metadata
Downloads
PRJNA1127293.csv.gz (4.7 KB) · parquet (76.0 KB) — all 154 samples, every field with route and confidence · PRJNA1127293_determinations.csv.gz (6.1 KB) — 924 evidence rows