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PRJNA431482 SRP131624

Gut metagenome case-control study in Behçet's disease, China

human gut metagenome Metagenome-Behcet's disease

76 gut metagenome samples from adults (and some elderly) across multiple Chinese provinces, comparing 24 with Behçet's disease (autoimmune/inflammatory) to 52 healthy controls in a case-control design. machine-written summary

76 samples · 76 runs · CN · Adult · 2018 · 5.97 Gbp / sample · cohort A metagenomic study of the gut microbiome in Behce

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Sources
✓Sequence archive 447○Abstract / description○Full text✓Supplementary tables 14✓External resources 378–User contribution–Human verified

Checked this project's papers and archive records yourself? Mark it human-verified.

what each source gave
✓ Sequence archive447 sample values (age, collection date, country, latitude, location locality, location region, longitude)
○ Abstract / descriptionread; no usable statement
○ Full textread; no usable statement or table · PMC12338280, PMC6091101
✓ Supplementary tables14 sample values (bmi, sex)
✓ External resources378 sample values (age, antibiotic exposure, bmi, health condition, health condition detail, sex) · from BugSigDB, curatedMetagenomicData 3 (cMD 3), GMrepo v3
– User contributionnothing uploaded yet
– Human verifiednot yet checked by a person · I checked this project — verify it
Samples at a glance
1 sampling locations · 1 country
Age
adult71
elderly5
Condition
healthy_control52
autoimmune_inflammatory24
Sex
male55
female17
Country
CN76
Body site
primary76
Collected 2014–2016
2014: 18 samples2015: 56 samples2016: 2 samples20142016
Sequencing depth per sample · this project all projects
all projects, 0–0.03 Gbp: 25,080 samples (4 %)all projects, 0.03–0.1 Gbp: 17,066 samples (3 %)all projects, 0.1–0.3 Gbp: 29,179 samples (5 %)all projects, 0.3–1 Gbp: 47,044 samples (8 %)all projects, 1–3 Gbp: 124,983 samples (22 %)all projects, 3–10 Gbp: 253,728 samples (44 %)this project, 3–10 Gbp: 72 samplesall projects, 10–30 Gbp: 72,533 samples (13 %)this project, 10–30 Gbp: 4 samplesall projects, 30–100 Gbp: 3,024 samples (1 %)all projects, 100–300 Gbp: 106 samples (0 %)all projects, ≥ 300 Gbp: 9 samples (0 %)project median 5.97 Gbp per sample0130Gbp
Community composition
Phocaeicola 19.9%Prevotella 19.0%Bacteroides 13.3%Alistipes 8.8%Faecalibacterium 5.4%Sutterella 1.6%Escherichia 1.4%Oscillibacter 1.4%Roseburia 1.3%Parasutterella 1.2%Parabacteroides 1.2%Hominicoprocola 1.0%not assigned to a genus 4.9%other genera 19.7%

Genera, mean relative abundance over 71 profiled gut samples of this project (Sandpiper SingleM profiles, GTDB R232; low-depth and non-metagenome profiles left out).

Field coverage
fieldsamplescoverageR1R2R3R4
age_category76 100%
country76 100%76
health_condition76 100%76
subject_id0 0%
antibiotic_exposure76 100%76
collection_date76 100%76
detailed_location76 100%
health_condition_detail76 100%76
latitude76 100%76
location_region76 100%76
longitude76 100%76
age_at_collection_days72 95%5220
bmi72 95%72
sex72 95%72
location_locality15 20%15
Papers (2)
  • Investigating the mediating effect of plasma metabolites on the gut microbiome in influencing Behçet disease: A multi-omics validated Mendelian randomization study. 2025 PMID 40797468 PMC12338280 own_data
  • A metagenomic study of the gut microbiome in Behcet's disease. 2018 PMID 30077182 PMC6091101 unsure
Details
Archive description

To investigated the gut microbiome in patients with Behcet's disease

How this project entered the registry

Classified as human gut / stool shotgun DNA metagenome of adult by deterministic_prior with confidence 0.90. Assay shotgun_dna.

  • host external_curation.infant_catalog · “infant triage reason_code age_adult_only”
  • body site study.title · “human gut metagenome Metagenome-Behcet's disease”
  • body site study.description · “To investigated the gut microbiome in patients”
  • life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
Evidence examples (one per field × route)
samplefieldvaluerouteconf.sourcequote
SAMN11064138age_at_collection_days9857.0R10.85sample.attr.host_age27
SAMN08392133age_at_collection_days15705.75R20.75external.cmd sourceage: 43; age_unit: Year; age_group: Adult
SAMN08392133antibiotic_exposurenoR20.75external.cmd sourceantibiotics_current_use: No
SAMN08392153antibiotic_exposurenoR20.60external.bugsigdb sourceAntibiotics exclusion: 1 month
SAMN08392133bmi22.4R20.75external.cmd sourcebmi: 22.4
SAMN11064183bmi25.00R20.80paper.supp.40168_2018_520_MOESM1_ESM.xlsx[Table S1!BMI (kg/m2)]Sample ID=N-49; BMI (kg/m2)=25
SAMN08392133collection_date2014-09-26R10.90biosample.attribute:collection_date2014-09-26
SAMN08392133countryCNR10.90sample.attr.geo_loc_nameChina:Shandong
SAMN08392133health_conditionautoimmune_inflammatoryR20.75external.cmd sourcedisease: Behcet Syndrome
SAMN08392153health_conditionautoimmune_inflammatoryR20.75external.gmrepo sourcephenotype: Behcet Syndrome
SAMN08392133health_condition_detailBehcet SyndromeR20.75external.cmd sourcedisease: Behcet Syndrome
SAMN08392153health_condition_detailBehcet SyndromeR20.75external.gmrepo sourcephenotype: Behcet Syndrome
SAMN08392133latitude29.3500R10.90biosample.attribute:lat_lon29.35 N 106.33 E
SAMN08392135location_localityChongqingR10.85biosample.attribute:geo_loc_nameChina:Chongqing
SAMN08392133location_regionShandongR10.85biosample.attribute:geo_loc_nameChina:Shandong
SAMN08392135location_regionChongqing ShiR10.60biosample.attribute:lat_lon29.35 N 106.33 E
SAMN08392133longitude106.3300R10.90biosample.attribute:lat_lon29.35 N 106.33 E
SAMN08392133sexmaleR20.75external.cmd sourcesex: Male
SAMN11064183sexmaleR20.80paper.supp.40168_2018_520_MOESM1_ESM.xlsx[Table S1!Gender]Sample ID=N-49; Gender=M
Sequencing

76 runs over 76 samples · mean 6.42 Gbp per run (median 5.97 Gbp, total 488.15 Gbp; 76 runs with a base count) · layout PAIRED 76 · platform ILLUMINA 76 · models Illumina HiSeq 4000 (76) · 93% of runs with a Sandpiper profile · first public 2018-01-30 – 2019-03-07

Authors (52)

Ye Z first · Zhang N · Wu C · Zhang X · Wang Q · Huang X · Du L · Cao Q · Tang J · Zhou C · Hou S · He Y · Xu Q · Xiong X · Kijlstra A · Qin N · Yang P last · Ormaasen I first · Rudi K · Diep DB · Snipen L last · Argentini C first · Lugli GA · Tarracchini C · Fontana F · Mancabelli L · Viappiani A · Anzalone R · Angelini L · Alessandri G · Longhi G · Bianchi MG · Taurino G · Bussolati O · Milani C · van Sinderen D · Turroni F · Ventura M last · De Biase R · Bocchio F · De Conto F · Nouvenne A · Ticinesi A · Meschi T · Cecchi R · Guo T first · Chang L · Huang PW · Yao JP · Zhang YC · Ren CY · Bao CQ last

Downloads

PRJNA431482.csv.gz (3.9 KB) · parquet (75.5 KB) — all 76 samples, every field with route and confidence · PRJNA431482_determinations.csv.gz (10.7 KB) — 839 evidence rows

Samples (76 · every field this project has values for · hover a cell for its source)
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