Publications

Air pollution in relation to brain health indicators and global cognitive functioning in patients with cardiovascular disorders along the heart-brain axis

Timmermans, E.J., Bron, E.E., Bots, M.L., Leeuwis, A.E., Moonen, J.E.F., Wolters, F.J., Biessels, G.J., & Vaartjes, I., on behalf of the Heart-Brain Connection Consortium
Cerebral Circulation – Cognition and Behavior (2026)

Linking the gut microbiome to host DNA methylation by a discovery and replication epigenome-wide association study

Demirkan A, van Dongen J, Finnicum CT, Westra HJ, Jankipersadsing S, Willemsen G, Ijzerman RG, Boomsma DI, Ehli EA, Bonder MJ, Fu J, Franke L, Wijmenga C, de Geus EJC, Kurilshikov A, Zhernakova A.
BMC Genomics (2024)

Epigenome-wide association study on the plasma metabolome suggests self-regulation of the glycine and serine pathway through DNA methylation

Wu J, Palasantzas V, Andreu-Sánchez S, Plösch T, Leonard S, Li S, Bonder MJ, Westra HJ, van Meurs J, Ghanbari M, Franke L, Zhernakova A, Fu J, Hoogerland JA, Zhernakova DV.
Clinical Epigenetics (2024)

Linked shrinkage to improve estimation of interaction effects in regression models

Mark A. van de Wiel , Matteo Amestoy and Jeroen Hoogland
Epidemiologic Methods (2024)

Exposome-Wide Association Study of Body Mass Index Using a Novel Meta-Analytical Approach for Random Forest Models

Haykanush Ohanyan , Mark van de Wiel, Lützen Portengen, Alfred Wagtendonk, Nicolette R. den Braver, Trynke R. de Jong, Monique Verschuren, Katja van den Hurk, Karien Stronks, Eric Moll van Charante, Natasja M. van Schoor, Coen D.A. Stehouwer, Anke Wesselius, Annemarie Koster, Margreet ten Have, Brenda W.J.H. Penninx, Marieke F. van Wier, Irina Motoc, Albertine J. Oldehinkel, Gonneke Willemsen, Dorret I. Boomsma, Mariëlle A. Beenackers, Anke Huss, Martin van Boxtel, Gerard Hoek, Joline W.J. Beulens, Roel Vermeulen, and Jeroen Lakerveld
Environmental Health Perspectives (2024)

Genome-wide characterization of circulating metabolic biomarkers

Karjalainen MK, Karthikeyan S, Oliver-Williams C, Sliz E, Allara E, Fung WT, Surendran P, Zhang W, Jousilahti P, Kristiansson K, Salomaa V, Goodwin M, Hughes DA, Boehnke M, Fernandes Silva L, Yin X, Mahajan A, Neville MJ, van Zuydam NR, de Mutsert R, Li-Gao R, Mook-Kanamori DO, Demirkan A, Liu J, Noordam R, Trompet S, Chen Z, Kartsonaki C, Li L, Lin K, Hagenbeek FA, Hottenga JJ, Pool R, Ikram MA, van Meurs J, Haller T, Milaneschi Y, Kähönen M, Mishra PP, Joshi PK, Macdonald-Dunlop E, Mangino M, Zierer J, Acar IE, Hoyng CB, Lechanteur YTE, Franke L, Kurilshikov A, Zhernakova A, Beekman M, van den Akker EB, Kolcic I, Polasek O, Rudan I, Gieger C, Waldenberger M, Asselbergs FW; China Kadoorie Biobank Collaborative Group; Estonian Biobank Research Team; FinnGen; Hayward C, Fu J, den Hollander AI, Menni C, Spector TD, Wilson JF, Lehtimäki T, Raitakari OT, Penninx BWJH, Esko T, Walters RG, Jukema JW, Sattar N, Ghanbari M, Willems van Dijk K, Karpe F, McCarthy MI, Laakso M, Järvelin MR, Timpson NJ, Perola M, Kooner JS, Chambers JC, van Duijn C, Slagboom PE, Boomsma DI, Danesh J, Ala-Korpela M, Butterworth AS, Kettunen J.
Nature (2024)

Transmission and dynamics of mother-infant gut viruses during pregnancy and early life

Garmaeva S, Sinha T, Gulyaeva A, Kuzub N, Spreckels JE, Andreu-Sánchez S, Gacesa R, Vich Vila A, Brushett S, Kruk M; Lifelines NEXT cohort study; Dekens J, Sikkema J, Kuipers F, Shkoporov AN, Hill C, Scherjon S, Wijmenga C, Fu J, Kurilshikov A, Zhernakova A.
Nature Communications (2024)

PICALO: principal interaction component analysis for the identification of discrete technical, cell-type, and environmental factors that mediate eQTLs

Vochteloo M, Deelen P, Vink B; BIOS Consortium; Tsai EA, Runz H, Andreu-Sánchez S, Fu J, Zhernakova A, Westra HJ, Franke L.
Genome Biology (2024)

Gut dysbiosis associates with cytokine production capacity in viral-suppressed people living with HIV

Zhang Y, Andreu-Sánchez S, Vadaq N, Wang D, Matzaraki V, van der Heijden WA, Gacesa R, Weersma RK, Zhernakova A, Vandekerckhove L, de Mast Q, Joosten LAB, Netea MG, van der Ven AJAM, Fu J.
Front Cell Infect Microbiol (2023)

Challenges and future directions for studying effects of host genetics on the gut microbiome

Sanna S, Kurilshikov A, van der Graaf A, Fu J, Zhernakova A.
Nature Genetics (2022)

Yoghurt consumption is associated with changes in the composition of the human gut microbiome and metabolome

Le Roy CI, Kurilshikov A, Leeming ER, Visconti A, Bowyer RCE, Menni C, Falchi M, Koutnikova H, Veiga P, Zhernakova A, Derrien M, Spector TD.
BMC Microbiol (2022)

GWAS of stool frequency provides insights into gastrointestinal motility and irritable bowel syndrome

Bonfiglio F, Liu X, Smillie C, Pandit A, Kurilshikov A, Bacigalupe R, Zheng T, Nim H, Garcia-Etxebarria K, Bujanda L, Andreasson A, Agreus L, Walter S, Abecasis G, Eijsbouts C, Jostins L, Parkes M, Hughes DA, Timpson N, Raes J, Franke A, Kennedy NA, Regev A, Zhernakova A, Simren M, Camilleri M, D'Amato M.
Cell Genomics (2021)

A Benchmark of Genetic Variant Calling Pipelines Using Metagenomic Short-Read Sequencing

Andreu-Sánchez S, Chen L, Wang D, Augustijn HE, Zhernakova A, Fu J.
Frontiers in Genetics (2021)

Lack of Association Between Genetic Variants at ACE2 and TMPRSS2 Genes Involved in SARS-CoV-2 Infection and Human Quantitative Phenotypes

Lopera Maya EA, van der Graaf A, Lanting P, van der Geest M, Fu J, Swertz M, Franke L, Wijmenga C, Deelen P, Zhernakova A, Sanna S; Lifelines Cohort Study.
Frontiers in Genetics (2020)