Gut metagenome/FINRISK 2002 (Salosensaari et al. Nature Comms 2021)

The main goal of the project is the study the associations between the gut metagenome and human health. The dataset contains data for n=7211 FINRISK 2002 participants who underwent fecal sampling. Demultiplexed shallow shotgun metagenomic sequences were quality filtered and adapter trimmed using Atropos (Didion et al., 2017), and human filtered using Bowtie2 (Langmead and Salzberg, 2012).

Type: Other
Archiver: European Genome-Phenome Archive (EGA)

1 Dataset 10 Publications

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD00001007035	The dataset contains data for n=7211 FINRISK 2002 participants who underwent fecal sampling. Demultiplexed shallow shotgun metagenomic sequences were quality filtered and adapter trimmed using Atropos (Didion et al., 2017), and human filtered using Bowtie2 (Langmead and Salzberg, 2012). The files are in FASTQ format.	Illumina HiSeq 4000	7231

Publications	Citations
Taxonomic signatures of cause-specific mortality risk in human gut microbiome. Salosensaari A, Laitinen V, Havulinna AS, Meric G, Cheng S, Perola M, Valsta L, Alfthan G, Inouye M, Watrous JD, Long T, Salido RA, Sanders K, Brennan C, Humphrey GC, Sanders JG, Jain M, Jousilahti P, Salomaa V, Knight R, Lahti L, Niiranen T. Nat Commun 12: 2021 2671	109
Combined effects of host genetics and diet on human gut microbiota and incident disease in a single population cohort. Qin Y, Havulinna AS, Liu Y, Jousilahti P, Ritchie SC, Tokolyi A, Sanders JG, Valsta L, Brożyńska M, Zhu Q, Tripathi A, Vázquez-Baeza Y, Loomba R, Cheng S, Jain M, Niiranen T, Lahti L, Knight R, Salomaa V, Inouye M, Méric G. Nat Genet 54: 2022 134-142	376
Early prediction of incident liver disease using conventional risk factors and gut-microbiome-augmented gradient boosting. Liu Y, Méric G, Havulinna AS, Teo SM, Åberg F, Ruuskanen M, Sanders J, Zhu Q, Tripathi A, Verspoor K, Cheng S, Jain M, Jousilahti P, Vázquez-Baeza Y, Loomba R, Lahti L, Niiranen T, Salomaa V, Knight R, Inouye M. Cell Metab 34: 2022 719-730.e4	52
Gut microbiome and atrial fibrillation-results from a large population-based study. Palmu J, Börschel CS, Ortega-Alonso A, Markó L, Inouye M, Jousilahti P, Salido RA, Sanders K, Brennan C, Humphrey GC, Sanders JG, Gutmann F, Linz D, Salomaa V, Havulinna AS, Forslund SK, Knight R, Lahti L, Niiranen T, Schnabel RB. EBioMedicine 91: 2023 104583	31
Greengenes2 unifies microbial data in a single reference tree. McDonald D, Jiang Y, Balaban M, Cantrell K, Zhu Q, Gonzalez A, Morton JT, Nicolaou G, Parks DH, Karst SM, Albertsen M, Hugenholtz P, DeSantis T, Song SJ, Bartko A, Havulinna AS, Jousilahti P, Cheng S, Inouye M, Niiranen T, Jain M, Salomaa V, Lahti L, Mirarab S, Knight R. Nat Biotechnol 42: 2024 715-718	283
Integration of polygenic and gut metagenomic risk prediction for common diseases. Liu Y, Ritchie SC, Teo SM, Ruuskanen MO, Kambur O, Zhu Q, Sanders J, Vázquez-Baeza Y, Verspoor K, Jousilahti P, Lahti L, Niiranen T, Salomaa V, Havulinna AS, Knight R, Méric G, Inouye M. Nat Aging 4: 2024 584-594	11
Associations between gut microbiota and incident fractures in the FINRISK cohort. Grahnemo L, Kambur O, Lahti L, Jousilahti P, Niiranen T, Knight R, Salomaa V, Havulinna AS, Ohlsson C. NPJ Biofilms Microbiomes 10: 2024 69	7
Variation and prognostic potential of the gut antibiotic resistome in the FINRISK 2002 cohort. Pärnänen K, Ruuskanen MO, Sommeria-Klein G, Laitinen V, Kantanen P, Méric G, Gazolla Volpiano C, Inouye M, Knight R, Salomaa V, Havulinna AS, Niiranen T, Lahti L. Nat Commun 16: 2025 5963	1
Gut Microbiome as a Risk Factor for Future CKD. Hellman T, Yeo LF, Palmu J, Havulinna A, Jousilahti P, Laitinen V, Pärnänen K, Salomaa V, Lahti L, Knight R, Niiranen T. Kidney Int Rep 10: 2025 1673-1682	0
Chronological age estimation from human microbiomes with transformer-based Robust Principal Component Analysis. Myers T, Song SJ, Chen Y, De Pessemier B, Khatib L, McDonald D, Huang S, Gallo R, Callewaert C, Havulinna AS, Lahti L, Roeselers G, Laiola M, Shetty SA, Kelley ST, Knight R, Bartko A. Commun Biol 8: 2025 1159	2