Gut metagenomes from TwinsUK cohort, UK, cross-sectional
Whole shotgun metagenomic sequencing of 2,070 faecal samples from the TwinsUK cohort in the United Kingdom, in a cross-sectional study examining diet, faecal metabolites, and gut microbiome composition. machine-written summary
2,071 samples · 2,072 runs · GB · Age unknown · 2026 · 8.50 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 8,281 sample values (collection date, country, latitude, longitude) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC12678775, PMC13490920 |
| ○ 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 |
twins — not resolved
TwinsUK twin cohort (1,679 individuals); twin-pair identifiers not public in archive.
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 0 | 0% | ||||
| country | 2,071 | 100% | 2,071 | |||
| health_condition | 0 | 0% | ||||
| subject_id | 0 | 0% | ||||
| collection_date | 2,070 | 100% | 2,070 | |||
| latitude | 2,070 | 100% | 2,070 | |||
| longitude | 2,070 | 100% | 2,070 |
- Predicting Gut Microbiome Diversity and Core Species From the Urine Metabolome. 2026 PMID 42625955 PMC13490920 own_data
- Faecal metabolites as a readout of habitual diet capture dietary interactions with the gut microbiome. 2025 PMID 41345102 PMC12678775 unsure
Archive description
Library preparation was performed manually using the Nextera XT protocol (Illumina, PN. 15031942). DNA concentrations were measured with the Quant-iT Picogreen assay (Life Technologies, PN. Q33120) on an AF2200 plate reader (Eppendorf) and adjusted to 0.2 ng/µL for each library. DNA was then fragmented and tagged through tagmentation, followed by PCR amplification on a Veriti 96-well thermocycler (Applied Biosystems). Libraries were purified using AMPure XP beads (Beckman Coulter, PN. A63880), and the size distribution of fragments was checked using a Labchip GX Touch HiSens. Sequencing was carried out by GenomeScan (https://genomescan.nl/) using an Illumina HiSeq 2500 with a read length of 2 × 125 bp. Prior to uploading, and due to privacy concerns, human reads were removed using a human reference. Low-complexity sequences and highly conserved features (e.g., ribosomal sequences), which are shared across species, were also removed to avoid false-positive matches. This file is available within our processing pipeline (https://github.com/alesssia/YAMP) and can be downloaded from Zenodo (https://zenodo.org/records/4629921#.YFnf50j7SL4). Meta data are available by application to the Twin Research Executive Access committee (TREC) at King’s College London. The TwinsUK BioResource is managed by TREC, which provides governance of access to TwinsUK data and samples. TwinsUK data users are bound by data sharing agreement set out in the data access application form, which includes responsibilities with respect to third party data sharing and maintaining participant privacy. Further responsibilities include a responsibility to acknowledge data sharing.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by opus_adjudicated with confidence 0.85. Assay shotgun_dna.
- host study.title · “1,679 individuals (2,075 samples) from the TwinsUK cohort”
- body site study.title · “Faecal metabolites”
- body site study.title · “dietary interactions with the gut microbiome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMEA121013112 | collection_date | 2016 | R1 | 0.90 | biosample.attribute:collection_date | 2016 |
| SAMEA121013112 | country | GB | R1 | 0.90 | sample.attr.geographic_location_country_and_or_sea | United Kingdom |
| SAMEA121013112 | latitude | 51.5000 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 51.5 -0.12 |
| SAMEA121013112 | longitude | -0.1200 | R1 | 0.90 | biosample.attribute:geographic_location_latitude+geographic_location_longitude | 51.5 -0.12 |
Sequencing
2,072 runs over 2,071 samples · mean 9.65 Gbp per run (median 8.50 Gbp, total 19,986.96 Gbp; 2,072 runs with a base count) · layout PAIRED 2,072 · platform ILLUMINA 2,072 · models Illumina HiSeq 2500 (2,072) · 0% of runs with a Sandpiper profile · first public 2026-03-17 – 2026-06-16
Authors (22)
Pope R first · Visconti A · Zhang X · Louca P · Baleanu AF · Lin Y · Asnicar F · Bermingham K · Wong KE · Michelotti GA · Wolf J · Segata N · Berry SE · Spector TD · Leeming ER · Gibson R · Menni C · Falchi M last · Zhu J · Wong K · Michelotti G · Valdes AM
Help complete this project
3 of the 4 core fields are below 50% coverage: age_category, health_condition, subject_id. Share metadata
Downloads
PRJEB98467.csv.gz (42.0 KB) · parquet (144.4 KB) — all 2,071 samples, every field with route and confidence · PRJEB98467_determinations.csv.gz (39.6 KB) — 8,281 evidence rows