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Franke, Prof. Lude

Lude Franke
Lude Franke

Lude Franke is Associate Professor at the Genetics Department of the University of Groningen/University Medical Centre Groningen and Head of Research and Education in the Dept. of Genetics, UMCG. He is a statistical geneticist, working on analyzing data on the genetics of complex and autoimmune diseases (e.g. celiac disease). He has been awarded an ERC Starting grant (2014), NWO VIDI grant (2014), NWO VENI grant (2009) and a Horizon Grant (2009) to work on identifying molecular effects due to disease-causing mutations.

In his spare time he is also a graphic designer. This chance combination of skills can sometimes make life as a genetics researcher a bit easier: if you can explain your research visually, more people can understand what you are doing. Lude Franke is one of the founding members of the Young Academy Groningen and has also been appointed member of De Jonge Akademie (National Young Academy).

In 2021 Franke was awarded a Vici grant. Many diseases have a genetic basis, but cancer is often caused by mutations that arise during life, whereas other diseases are caused by genetic differences that are inherited from parents. Frankes project uses gene networks to test whether a unifying principle exists that links these different types of mutations.

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Kellmann, A., Lanting, P., Franke, L. H., van Enckevort, E., & Swertz, M. A. (2023). Semiautomatic translation of medicine usage data (in Dutch, free-text) from Lifelines COVID-19 questionnaires to ATC codes. Database-The journal of biological databases and curation.


COVID-19 Host Genetics Initiative (2022). A first update on mapping the human genetic architecture of COVID-19. Nature, 608, E1–E10.
Lifelines Cohort Study, Zhernakova, D. V., Sinha, T., Andreu Sánchez, S., Prins, J., Kurilshikov, A., Balder, J-W., Sanna, S., Franke, L. H., Kuivenhoven, J. A., Zhernakova, A., & Fu, J. (2022). Age-dependent sex differences in cardiometabolic risk factors. Nature Cardiovascular Research, 1, 844–854.
SLALOM Consortium, PARALS Consortium, SLAGEN Consortium, SLAP Consortium, van Rheenen, W., van der Spek, R. A. A., Bakker, M. K., van Vugt, J. J. F. A., Hop, P. J., Zwamborn, R. A. J., de Klein, N., Westra, H-J., Bakker, O. B., Deelen, P., Shireby, G., Hannon, E., Moisse, M., Baird, D., Restuadi, R., ... Veldink, J. H. (2022). Author Correction: Common and rare variant association analyses in amyotrophic lateral sclerosis identify 15 risk loci with distinct genetic architectures and neuron-specific biology (vol 53, pg 1636, 2021). Nature genetics, 54(3), 361-361.
BIOS Consortium (2022). Functional genomics analysis identifies T and NK cell activation as a driver of epigenetic clock progression. Genome Biology, 23(1), 24.
Andreu-Sánchez, S., Aubert, G., Ripoll-Cladellas, A., Henkelman, S., Zhernakova, D. V., Sinha, T., Kurilshikov, A., Cenit, M. C., Jan Bonder, M., Franke, L., Wijmenga, C., Fu, J., van der Wijst, M. G. P., Melé, M., Lansdorp, P., & Zhernakova, A. (2022). Genetic, parental and lifestyle factors influence telomere length. Communications biology, 5(1), [565].
BIOS Consortium, Brain MEND Consortium, Hop, P. J., Zwamborn, R. A. J., Hannon, E., Shireby, G. L., Nabais, M. F., Walker, E. M., van Rheenen, W., van Vugt, J. J. F. A., Dekker, A. M., Westeneng, H. J., Tazelaar, G. H. P., van Eijk, K. R., Moisse, M., Baird, D., Al Khleifat, A., Iacoangeli, A., Ticozzi, N., ... Veldink, J. H. (2022). Genome-wide study of DNA methylation shows alterations in metabolic, inflammatory, and cholesterol pathways in ALS. Science Translational Medicine, 14(633), [eabj0264].
deCODE Genetics, Estonian Biobank, FinnGen, Generation Scotland, Genes & Health Research Team, LifeLines, Mass General Brigham Biobank, Michigan Genomics Initiative, National Biobank of Korea, Penn Medicine BioBank, Qatar Biobank, The QSkin Sun and Health Study, Taiwan Biobank, The HUNT Study, UCLA ATLAS Community Health Initiative, Uganda Genome Resource, UK Biobank, Biobank of the Americas, BioBank Japan Project, ... Sanna, S. (2022). Global Biobank Meta-analysis Initiative: Powering genetic discovery across human disease. Cell Genomics, 2(10), [100192].
Uniken Venema, W. T. C., Ramírez-Sánchez, A. D., Bigaeva, E., Withoff, S., Jonkers, I., McIntyre, R. E., Ghouraba, M., Raine, T., Weersma, R. K., Franke, L., Festen, E. A. M., & van der Wijst, M. G. P. (2022). Gut mucosa dissociation protocols influence cell type proportions and single-cell gene expression levels. Scientific Reports, 12, [9897].
Lifelines Corona Research initiative, Warmerdam, C. A. R., Wiersma, H. H., Lanting, P., Ani, A., Dijkema, M. X. L., Snieder, H., Vonk, J. M., Boezen, H. M., Deelen, P., & Franke, L. H. (2022). Increased genetic contribution to wellbeing during the COVID-19 pandemic. PLoS genetics, 18(5), [e1010135].
Bios Consortium , Porcu, E., Claringbould, A., Weihs, A., Lepik, K., Richardson, T. G., Voelker, U., Santoni, F. A., Teumer, A., Franke, L., Reymond, A., & Kutalik, Z. (2022). Limited evidence for blood eQTLs in human sexual dimorphism. Genome medicine, 14(1), [89].
Estonian Biobank Research Team, Lepamets, M., Auwerx, C., Nõukas, M., Claringbould, A., Porcu, E., Kals, M., Jürgenson, T., Morris, A. P., Võsa, U., Bochud, M., Stringhini, S., Wijmenga, C., Franke, L., Peterson, H., Vilo, J., Lepik, K., Mägi, R., & Kutalik, Z. (2022). Omics-informed CNV calls reduce false-positive rates and improve power for CNV-trait associations. Human Genetics and Genomics Advances, 3(4), [100133].
23andMe Research Team, Social Science Genetic Association Consortium, Okbay, A., Wu, Y., Wang, N., Jayashankar, H., Bennett, M., Nehzati, S. M., Sidorenko, J., Kweon, H., Goldman, G., Gjorgjieva, T., Jiang, Y., Hicks, B., Tian, C., Hinds, D. A., Ahlskog, R., Magnusson, P. K. E., Oskarsson, S., ... Young, A. I. (2022). Polygenic prediction of educational attainment within and between families from genome-wide association analyses in 3 million individuals. Nature genetics, 54(4), 437-449.
Single-Cell EQTLGen Consortium, Bios Consortium , Oelen, R., de Vries, D. H., Brugge, H., Gordon, M. G., Vochteloo, M., Ye, C. J., Westra, H-J., Franke, L., & van der Wijst, M. G. P. (2022). Single-cell RNA-sequencing of peripheral blood mononuclear cells reveals widespread, context-specific gene expression regulation upon pathogenic exposure. Nature Communications, 13(1), [3267].
BIOS Consortium, Vochteloo, M., Deelen, P., Vink, B., Tsai, E. A., Runz, H., Andreu-Sánchez, S., Fu, J., Zhernakova, A., Westra, H-J., & Franke, L. (2022). Unbiased identification of unknown cellular and environmental factors that mediate eQTLs using principal interaction component analysis. BioRxiv.
Lifelines Corona Research initiative, Dite, G. S., Murphy, N. M., Spaeth, E., & Allman, R. (2022). Validation of a clinical and genetic model for predicting severe COVID-19. Epidemiology And Infection, 150, [e91].
GenOMICC co-investigators, COVID-19 Human Genetics Initiative, 23andMe investigators, Kousathanas, A., Pairo-Castineira, E., Rawlik, K., Stuckey, A., Odhams, C. A., Walker, S., Russell, C. D., Malinauskas, T., Wu, Y., Millar, J., Shen, X., Elliott, K. S., Griffiths, F., Oosthuyzen, W., Morrice, K., Keating, S., ... Chan, G. (2022). Whole-genome sequencing reveals host factors underlying critical COVID-19. Nature, 607(7917), 97-103.


Lifelines Cohort Study, Warmerdam, R., Lanting, P., Deelen, P., & Franke, L. (2022). Idéfix: identifying accidental sample mix-ups in biobanks using polygenic scores. Bioinformatics (Oxford, England), 38(4), 1059–1066.
Lifelines Corona Research initiative, Zhang, J., Loman, L., Kamphuis, E., Schuttelaar, M. L. A., Boezen, H. M., Mierau, J., Franke, H. L., Dekens, J., Deelen, P., Lanting, P., Vonk, J. M., Nolte, I. M., Ori, A. P. S., Claringbould, A., Boulogne, F., Dijkema, M. X. L., Wiersma, H. H., Warmerdam, R., ... van Blokland, I. (2022). Impact of the COVID-19 pandemic on adults with moderate-to-severe atopic dermatitis in the Dutch general population. JAAD international, 6, 86-93.
van Blokland, I. V., Groot, H. E., Franke, L. H., van der Wijst, M. G. P., & van der Harst, P. (2022). Translational insights from single-cell technologies across the cardiovascular disease continuum. TRENDS IN CARDIOVASCULAR MEDICINE, 32(3), 127-135.
The International Headache Genetics Consortium (IHGC), Tanha, H. M., Martin, N. G., Whitfield, J. B., & Nyholt, D. R. (2021). Association and genetic overlap between clinical chemistry tests and migraine. Cephalalgia, 41(11-12), 1208-1221.
SLALOM Consortium, PARALS Consortium, SLAGEN Consortium, SLAP Consortium, van Rheenen, W., van der Spek, R. A. A., Bakker, M. K., van Vugt, J. J. F. A., Hop, P. J., Zwamborn, R. A. J., de Klein, N., Westra, H. J., Bakker, O. B., Deelen, P., Shireby, G., Hannon, E., Moisse, M., Baird, D., Restuadi, R., ... Veldink, J. H. (2021). Common and rare variant association analyses in amyotrophic lateral sclerosis identify 15 risk loci with distinct genetic architectures and neuron-specific biology. Nature genetics, 53(12), 1636-1648.
BIOS Consortium, Pellegrino-Coppola, D., Claringbould, A., Stutvoet, M., Boomsma, D. I., Ikram, M. A., Slagboom, P. E., Westra, H-J., & Franke, L. (2021). Correction for both common and rare cell types in blood is important to identify genes that correlate with age. BMC Genomics, 22(1), [184].
BIOS Consortium, van Dongen, J., Hagenbeek, F. A., Suderman, M., Roetman, P. J., Sugden, K., Chiocchetti, A. G., Ismail, K., Mulder, R. H., Hafferty, J. D., Adams, M. J., Walker, R. M., Morris, S. W., Lahti, J., Küpers, L. K., Escaramis, G., Alemany, S., Jan Bonder, M., Meijer, M., ... Franke, L. (2021). DNA methylation signatures of aggression and closely related constructs: A meta-analysis of epigenome-wide studies across the lifespan. Molecular Psychiatry, 26, 2148-2162.
Karabegovic, I., Portilla-Fernandez, E., Li, Y., Ma, J., Maas, S. C. E., Sun, D., Hu, E. A., Kuhnel, B., Zhang, Y., Ambatipudi, S., Fiorito, G., Huang, J., Castillo-Fernandez, J. E., Wiggins, K. L., de Klein, N., Grioni, S., Swenson, B. R., Polidoro, S., Treur, J. L., ... Ghanbari, M. (2021). Epigenome-wide association meta-analysis of DNA methylation with coffee and tea consumption. Nature Communications, 12(1), [2830].
Zhang, Z., van Dijk, F., de Klein, N., van Gijn, M. E., Franke, L. H., Sinke, R. J., Swertz, M. A., & van der Velde, K. J. (2021). Feasibility of predicting allele specific expression from DNA sequencing using machine learning. Scientific Reports, 11(1), [10606].
Lifelines Corona Research initiative, Vloo, A., Alessie, R. J. M., Mierau, J. O., & Mierau, J. O. (2021). Gender differences in the mental health impact of the COVID-19 lockdown: Longitudinal evidence from the Netherlands. SSM - Population Health, 15, [100878].
Biobank-based Integrative Omics St, eQTLgen Consortium, BioBank Japan Project, China Kadoorie Biobank Collaborati, kConFab Investigators, Lifelines Cohort Study, InterAct Consortium, 23 Me Res Team, Ruth, K. S., Day, F. R., Hussain, J., Martinez-Marchal, A., Aiken, C. E., Azad, A., Thompson, D. J., Knoblochova, L., Abe, H., Tarry-Adkins, J. L., Gonzalez, J. M., ... Andersen, C. Y. (2021). Genetic insights into biological mechanisms governing human ovarian ageing. Nature, 596(7872), 393-397.
Peters, V., Tigchelaar-Feenstra, E. F., Imhann, F., Dekens, J. A. M., Swertz, M. A., Franke, L. H., Wijmenga, C., Weersma, R. K., Alizadeh, B. Z., Dijkstra, G., & Campmans-Kuijpers, M. J. E. (2021). Habitual dietary intake of IBD patients differs from population controls: a case-control study. European Journal of Nutrition.
Warmerdam, R., Lanting, P., Deelen, P., & Franke, L. (2021). Idéfix: identifying accidental sample mix-ups in biobanks using polygenic scores. (bioRxiv). BioRxiv.
Matzaraki, V., Le, K. T. T., Jaeger, M., Aguirre-Gamboa, R., Johnson, M. D., Sanna, S., Rosati, D., Franke, L., Zhernakova, A., Fu, J., Withoff, S., Jonkers, I., Li, Y., Joosten, L. A. B., Netea, M. G., Wijmenga, C., & Kumar, V. (2021). Inflammatory Protein Profiles in Plasma of Candidaemia Patients and the Contribution of Host Genetics to Their Variability. Frontiers in Immunology, 12, [662171].
Chu, X., Jaeger, M., Beumer, J., Bakker, O. B., Aguirre-Gamboa, R., Oosting, M., Smeekens, S. P., Moorlag, S., Mourits, V. P., Koeken, V. A. C. M., de Bree, C., Jansen, T., Mathews, I. T., Dao, K., Najhawan, M., Watrous, J. D., Joosten, I., Sharma, S., Koenen, H. J. P. M., ... Li, Y. (2021). Integration of metabolomics, genomics, and immune phenotypes reveals the causal roles of metabolites in disease. Genome Biology, 22(1), [198].
MiBioGen Consortium Initiative, Kurilshikov, A., Medina-Gomez, C., Bacigalupe, R., Radjabzadeh, D., Wang, J., Demirkan, A., Le Roy, C. I., Raygoza Garay, J. A., Finnicum, C. T., Liu, X., Zhernakova, D. V., Bonder, M. J., Hansen, T. H., Frost, F., Ruehlemann, M. C., Turpin, W., Moon, J-Y., Kim, H-N., ... Zhernakova, A. (2021). Large-scale association analyses identify host factors influencing human gut microbiome composition. Nature Genetics, 53, 156-165.
BIOS Consortium, i2QTL Consortium, Võsa, U., Claringbould, A., Westra, H-J., Bonder, M. J., Deelen, P., Zeng, B., Kirsten, H., Saha, A., Kreuzhuber, R., Yazar, S., Brugge, H., Oelen, R., de Vries, D. H., van der Wijst, M. G. P., Kasela, S., Pervjakova, N., Alves, I., ... Franke, L. (2021). Large-scale cis- and trans-eQTL analyses identify thousands of genetic loci and polygenic scores that regulate blood gene expression. Nature Genetics, 53(9), 1300-1310.
Mc Intyre, K., Lanting, P., Deelen, P., Wiersma, H. H., Vonk, J. M., Ori, A. P. S., Jankipersadsing, S. A., Warmerdam, R., van Blokland, I., Boulogne, F., Dijkema, M. X. L., Herkert, J. C., Claringbould, A., Bakker, O., Lopera Maya, E. A., Bültmann, U., Zhernakova, A., Reijneveld, S. A., Zijlstra, E., ... Franke, L. (2021). Lifelines COVID-19 cohort: investigating COVID-19 infection and its health and societal impacts in a Dutch population-based cohort. BMJ Open, 11(3), [e044474].
COVID-19 Host Genetics Initiative, 23andMe COVID-19 Team, Norwegian SARS-CoV-2 Study Grp, Humanitas COVID-19 Task Force, Humanitas Gavazzeni COVID-19 Task, FHoGID, RegCOVID, P-PredictUs, SeroCOVID, CRiPSI, Genes & Hlth Res Team, & UCLA Hlth ATLAS Data Mart Working (2021). Mapping the human genetic architecture of COVID-19. Nature, 600, 472–477.
Estonian Biobank Research Team, Genetics of DNA Methylation Consortium, Schlosser, P., Tin, A., Matias-Garcia, P. R., Thio, C. H. L., Joehanes, R., Liu, H., Weihs, A., Yu, Z., Hoppmann, A., Grundner-Culemann, F., Min, J. L., Adeyemo, A. A., Agyemang, C., Ärnlöv, J., Aziz, N. A., Baccarelli, A., Bochud, M., ... Snieder, H. (2021). Meta-analyses identify DNA methylation associated with kidney function and damage. Nature Communications, 12, [7174].
Hemani, G., Powell, J. E., Wang, H., Shakhbazov, K., Westra, H-J., Esko, T., Henders, A. K., McRae, A. F., Martin, N. G., Metspalu, A., Franke, L., Montgomery, G. W., Goddard, M. E., Gibson, G., Yang, J., & Visscher, P. M. (2021). Phantom epistasis between unlinked loci. Nature, 596(7871), E1-E3.
Hemani, G., Shakhbazov, K., Westra, H-J., Esko, T., Henders, A. K., McRae, A. F., Yang, J., Gibson, G., Martin, N. G., Metspalu, A., Franke, L., Montgomery, G. W., Visscher, P. M., & Powell, J. E. (2021). Retraction Note: Detection and replication of epistasis influencing transcription in humans. Nature, 596(7871), 306.
Ballering, A. V., Oertelt-Prigione, S., Olde Hartman, T. C., Rosmalen, J. G. M., Boezen, M., Mierau, J. O., Franke, L. H., Dekens, J., Deelen, P., Lanting, P., Vonk, J. M., Nolte, I., Ori, A. P. S., Claringbould, A., Boulogne, F., Dijkema, M. X. L., Wiersma, H. H., Warmerdam, R., & Jankipersadsing, S. A. (2021). Sex and Gender-Related Differences in COVID-19 Diagnoses and SARS-CoV-2 Testing Practices During the First Wave of the Pandemic: The Dutch Lifelines COVID-19 Cohort Study. Journal of womens health, 30(12), 1686-1692.
BIOS Consortium, van der Graaf, A., Zorro, M. M., Claringbould, A., Vosa, U., Aguirre-Gamboa, R., Li, C., Mooiweer, J., Ricano-Ponce, I., Borek, Z., Koning, F., Kooy-Winkelaar, Y., Sollid, L. M., Qiao, S-W., Kumar, V., Li, Y., Franke, L., Withoff, S., Wijmenga, C., ... Jonkers, I. (2021). Systematic Prioritization of Candidate Genes in Disease Loci Identifies TRAFD1 as a Master Regulator of IFN gamma Signaling in Celiac Disease. Frontiers in Genetics, 11, 562434. [562434].
Lifelines COVID-19 cohort study, van Blokland, I. V., Lanting, P., Ori, A. P. S., Vonk, J. M., Warmerdam, R. C. A., Herkert, J. C., Boulogne, F., Claringbould, A., Lopera-Maya, E. A., Bartels, M., Hottenga, J-J., Ganna, A., & Karjalainen, J. (2021). Using symptom-based case predictions to identify host genetic factors that contribute to COVID-19 susceptibility. PLoS ONE, 16(8), [e0255402].


BIOS Consortium, Ouwens, K. G., Jansen, R., Nivard, M. G., van Dongen, J., Frieser, M. J., Hottenga, J-J., Arindrarto, W., Claringbould, A., van Iterson, M., Mei, H., & Franke, L. (2020). A characterization of cis- and trans-heritability of RNA-Seq-based gene expression. European Journal of Human Genetics, 28(2), 253-263.
BIOS Consortium, Lu, X., Fraszczyk, E., van der Meer, T. P., van Faassen, M., Bloks, V. W., Kema, I. P., van Beek, A. P., Li, S., Franke, L., Westra, H-J., Xu, X., Huo, X., Snieder, H., Wolffenbuttel, B. H. R., & van Vliet-Ostaptchouk, J. V. (2020). An epigenome-wide association study identifies multiple DNA methylation markers of exposure to endocrine disruptors. Environment international, 144, [106016].
BIOS Consortium, Aguirre-Gamboa, R., de Klein, N., di Tommaso, J., Claringbould, A., van der Wijst, M. G. P., de Vries, D., Brugge, H., Oelen, R., Vosa, U., Zorro, M. M., Chu, X., Bakker, O. B., Borek, Z., Ricano-Ponce, I., Deelen, P., Xu, C-J., Swertz, M., Jonkers, I., ... Li, Y. (2020). Deconvolution of bulk blood eQTL effects into immune cell subpopulations. Bmc Bioinformatics, 21(1), [243].
Claus, L. R., Boulogne, F., Lilien, M. R., Rookmaaker, M. B., van der Zwaag, A., Nguyen, T. Q., Verhaar, M. C., Knoers, N. V. A. M., Deelen, P., Franke, L., de Borst, M. H., & van Eerde, A. M. (2020). GeNepher: building a data- and biobank for (suspected) hereditary renal disease. European Journal of Human Genetics, 28(SUPPL 1), 821-822.
Folkersen, L., Gustafsson, S., Wang, Q., Hansen, D. H., Hedman, Å. K., Schork, A., Page, K., Zhernakova, D. V., Wu, Y., Peters, J., Eriksson, N., Bergen, S. E., Boutin, T. S., Bretherick, A. D., Enroth, S., Kalnapenkis, A., Gådin, J. R., Suur, B. E., Chen, Y., ... Mälarstig, A. (2020). Genomic and drug target evaluation of 90 cardiovascular proteins in 30,931 individuals. Nature Metabolism, 2(10), 1135-1148.
Huang, Y., Ollikainen, M., Muniandy, M., Zhang, T., van Dongen, J., Hao, G., van Der Most, P. J., Pan, Y., Pervjakova, N., Sun, Y., Hui, Q., Lahti, J., Fraszczyk, E., Lu, X., Sun, D., Richard, M. A., Willemsen, G., Heikkila, K., Leach, I. M., ... Snieder, H. (2020). Identification, Heritability, and Relation With Gene Expression of Novel DNA Methylation Loci for Blood Pressure. Hypertension, 76(1), 195-205.
de Vries, D. H., Matzaraki, V., Bakker, O. B., Brugge, H., Westra, H-J., Netea, M. G., Franke, L., Kumar, V., & van der Wijst, M. G. P. (2020). Integrating GWAS with bulk and single-cell RNA-sequencing reveals a role for LY86 in the anti-Candida host response. PLoS Pathogens, 16(4), [1008408].
Lifelines Cohort Study, Lopera Maya, E. A., van der Graaf, A., Lanting, P., van der Geest, M., Fu, J., Swertz, M., Franke, L., Wijmenga, C., Deelen, P., Zhernakova, A., & Sanna, S. (2020). Lack of Association Between Genetic Variants at ACE2 and TMPRSS2 Genes Involved in SARS-CoV-2 Infection and Human Quantitative Phenotypes. Frontiers in Genetics, 11, [613].
BIOS Consortium, van der Graaf, A., Claringbould, A., Rimbert, A., Westra, H-J., Li, Y., Wijmenga, C., Sanna, S., & Franke, L. (2020). Mendelian randomization while jointly modeling cis genetics identifies causal relationships between gene expression and lipids. Nature Communications, 11(1), [4930].
Lanting, P., Drenth, E., Boven, L., van Hoek, A., Hijlkema, A., Poot, E., van der Vries, G., Schoevers, R., Horwitz, E., Gans, R., Kosterink, J., Plantinga, M., van Langen, I., Ranchor, A., Wijmenga, C., Franke, L., Wilffert, B., & Sijmons, R. (2020). Practical Barriers and Facilitators Experienced by Patients, Pharmacists and Physicians to the Implementation of Pharmacogenomic Screening in Dutch Outpatient Hospital Care-An Explorative Pilot Study. Journal of personalized medicine, 10(4), 1-13. [293].
Bangma, A., Voskuil, M. D., Uniken Venema, W. T. C., Brugge, H., Hu, S., Lanting, P., Franke, L., Dijkstra, G., Festen, E. A. M., & Weersma, R. K. (2020). Predicted efficacy of a pharmacogenetic passport for inflammatory bowel disease. Alimentary Pharmacology & Therapeutics, 51(11), 1105-1115.
Van Der Wijst, M. G. P., De Vries, D. H., Groot, H. E., Trynka, G., Hon, C. C., Bonder, M. J., Stegle, O., Nawijn, M. C., Idaghdour, Y., Van Der Harst, P., Ye, C. J., Powell, J., Theis, F. J., Mahfouz, A., Heing, M., & Franke, L. (2020). The single-cell eQTLGen consortium. eLife, 9, [52155].


BIOS Consortium (2019). A linear mixed-model approach to study multivariate gene-environment interactions. Nature Genetics, 51(1), 180-186.
BIOS Consortium (2019). Allele specific expression identifies rare variants as cause for extreme allelic imbalance. European Journal of Human Genetics, 27, 601.
Clark, D. W., Okada, Y., Moore, K. H. S., Mason, D., Pirastu, N., Gandin, I., Mattsson, H., Barnes, C. L. K., Lin, K., Zhao, J. H., Deelen, P., Rohde, R., Schurmann, C., Guo, X., Giulianini, F., Zhang, W., Medina-Gomez, C., Karlsson, R., Bao, Y., ... Wilson, J. F. (2019). Associations of autozygosity with a broad range of human phenotypes. Nature Communications, 10(1), [4957].
Sanna, S., van Zuydam, N. R., Mahajan, A., Kurilshikov, A., Vich Vila, A., Võsa, U., Mujagic, Z., Masclee, A. A. M., Jonkers, D. M. A. E., Oosting, M., Joosten, L. A. B., Netea, M. G., Franke, L., Zhernakova, A., Fu, J., Wijmenga, C., & McCarthy, M. I. (2019). Causal relationships among the gut microbiome, short-chain fatty acids and metabolic diseases. Nature Genetics, 51(4), 600-605.
Zeng, B., Lloyd-Jones, L. R., Montgomery, G. W., Metspalu, A., Esko, T., Franke, L., Vosa, U., Claringbould, A., Brigham, K. L., Quyyumi, A. A., Idaghdour, Y., Yang, J., Visscher, P. M., Powell, J. E., & Gibson, G. (2019). Comprehensive Multiple eQTL Detection and Its Application to GWAS Interpretation. Genetics, 212(3), 905-918.
BIOS Consortium, van Dongen, J., Zilhao, N. R., Sugden, K., Hannon, E. J., Mill, J., Caspi, A., Agnew-Blais, J., Arseneault, L., Corcoran, D. L., Moffitt, T. E., Poulton, R., Franke, B., & Boomsma, D. (2019). Epigenome-wide Association Study of Attention-Deficit/Hyperactivity Disorder Symptoms in Adults. Biological Psychiatry, 86(8), 599-607.
BIOS Consortium, van Rooij, J., Mandaviya, P. R., Claringbould, A., Felix, J. F., van Dongen, J., Jansen, R., Franke, L., 't Hoen, P. A. C., Heijmans, B., & van Meurs, J. B. J. (2019). Evaluation of commonly used analysis strategies for epigenome- and transcriptome-wide association studies through replication of large-scale population studies. Genome Biology, 20(1), [235].
CommonMind Consortium, Psychiat Genomics Consortium, iPSYCH-GEMS Schizophrenia Working, Huckins, L. M., Dobbyn, A., Ruderfer, D. M., Hoffman, G., Wang, W., Pardinas, A. F., Rajagopal, V. M., Als, T. D., Nguyen, H. T., Girdhar, K., Boocock, J., Roussos, P., Fromer, M., Kramer, R., Purcell, S., Demontis, D., ... Stahl, E. A. (2019). Gene expression imputation across multiple brain regions provides insights into schizophrenia risk. Nature Genetics, 51(4), 659-674.
23and Me Res Team, eQTLgen Consortium, Int Cannabis Consortium, & Soc Sci Genetic Association Con (2019). Genome-wide association analyses of risk tolerance and risky behaviors in over 1 million individuals identify hundreds of loci and shared genetic influences. Nature Genetics, 51(2), 245-257.
eQTLgen Consortium, Timmers, P. R., Mounier, N., Lall, K., Fischer, K., Ning, Z., Feng, X., Bretherick, A. D., & Clark, D. W. (2019). Genomics of 1 million parent lifespans implicates novel pathways and common diseases and distinguishes survival chances. eLife, 8, [39856].
van Arensbergen, J., Pagie, L., FitzPatrick, V. D., de Haas, M., Baltissen, M. P., Comoglio, F., van der Weide, R. H., Teunissen, H., Vosa, U., Franke, L., de Wit, E., Vermeulen, M., Bussemaker, H. J., & van Steensel, B. (2019). High-throughput identification of human SNPs affecting regulatory element activity. Nature Genetics, 51(7), 1160–1169.
Deelen, P., van Dam, S., Karjalainen, J. M., Brugge, H., Folkertsma, P., van Diemen, C. C., Kerstjens-Frederikse, W. S., Herkert, J. C., Gillett, T., Swertz, M. A., & Franke, L. (2019). Improving diagnostic yield of exome-sequencing through prioritization of genes with predicted HPO assignments. European Journal of Human Genetics, 27, 537-537.
Deelen, P., van Dam, S., Herkert, J. C., Karjalainen, J. M., Brugge, H., Abbott, K. M., van Diemen, C. C., van der Zwaag, P. A., Gerkes, E. H., Zonneveld-Huijssoon, E., Boer-Bergsma, J. J., Folkertsma, P., Gillett, T., van der Velde, K. J., Kanninga, R., van den Akker, P. C., Jan, S. Z., Hoorntje, E. T., Te Rijdt, W. P., ... Franke, L. (2019). Improving the diagnostic yield of exome-sequencing by predicting gene-phenotype associations using large-scale gene expression analysis. Nature Communications, 10(1), [2837].
Chu, X., Jaeger, M., Bakker, O. B., Aguirre-Gamboa, R., Oosting, M., Smeekens, S. P., Withoff, S., Netea-Maier, R. T., Koenen, H. J. P. M., Joosten, I., Xavier, R. J., Franke, L., Joosten, L. A. B., Sanna, S., Kumar, V., Wijmenga, C., Netea, M. G., & Li, Y. (2019). Integration of similar to 10,000 metabolite features with genotype data and immune phenotypes reveals genetic determinants and common regulatory modules. European Journal of Human Genetics, 27, 787-787.
BBMRI Metabolomics Consortium (2019). Large-scale plasma metabolome analysis reveals alterations in HDL metabolism in migraine. Neurology, 92(16), E1899-E1911.
Porcu, E., Rueger, S., Lepik, K., eQTLgen Consortium, & BIOS Consortium (2019). Mendelian randomization integrating GWAS and eQTL data reveals genetic determinants of complex and clinical traits. Nature Communications, 10, [3300].
Kilpelainen, T. O., Nolte, I. M., van der Most, P. J., Verweij, N., Snieder, H., van der Ende, M. Y., Oldehinkel, A. J., van der Harst, P., Van Vliet-Ostaptchouk, J. V., Lifelines Cohort Study, & Wang, Y. X. (2019). Multi-ancestry study of blood lipid levels identifies four loci interacting with physical activity. Nature Communications, 10(1), [376].
Vojinovic, D., Radjabzadeh, D., Kurilshikov, A., Amin, N., Wijmenga, C., Franke, L., Ikram, M. A., Uitterlinden, A. G., Zhernakova, A., Fu, J., Kraaij, R., & van Duijn, C. M. (2019). Relationship between gut microbiota and circulating metabolites in population-based cohorts. Nature Communications, 10(1), [5813].
GoNL Consortium, BIOS Consortium, Jadhav, B., Monajemi, R., Gagalova, K. K., Ho, D., Draisma, H. H. M., van de Wiel, M. A., Franke, L., Heijmans, B. T., van Meurs, J., Jansen, R., t Hoen, P. A. C., Sharp, A. J., & Kielbasa, S. M. (2019). RNA-Seq in 296 phased trios provides a high-resolution map of genomic imprinting. BMC Biology, 17(1), [50].
Peters, V., Tigchelaar, E., Imhann, F., Dekens, J., Swertz, M., Franke, L., Wijmenga, C., Weersma, R. K., Alizadeh, B., Dijkstra, G., & Campmans-Kuijpers, M. J. (2019). Sa2029 – Habitual dietary intake of dutch IBD patients differs from population controls: A case-control study. Gastroenterology, 156(6), S477-S478. Abstract
BIOS Consortium, & GoNL Consortium (2019). Skewed X-inactivation is common in the general female population. European Journal of Human Genetics, 27(3), 455-465.
BIOS Consortium, KORA Study Grp, Schlicht, K., Nyczka, P., Caliebe, A., Freitag-Wolf, S., Claringbould, A., Franke, L., Vosa, U., Kardia, S. L. R., Smith, J. A., Zhao, W., Gieger, C., Peters, A., Prokisch, H., Strauch, K., Baurecht, H., Weidinger, S., Rosenstiel, P., ... Krawczak, M. (2019). The metabolic network coherence of human transcriptomes is associated with genetic variation at the cadherin 18 locus. HUMAN GENETICS, 138(4), 375-388.


van der Wijst, M. G. P., de Vries, D. H., Brugge, H., Westra, H-J., & Franke, L. (2018). An integrative approach for building personalized gene regulatory networks for precision medicine. Genome medicine, 10, [96].
BIOS Consortium (2018). A SNP panel for identification of DNA and RNA specimens. BMC Genomics, 19(90).
BIOS Consortium, GLOBAL Meth QTL, Parmar, P., Lowry, E., Cugliari, G., Suderman, M., Wilson, R., Karhunen, V., Andrew, T., Wiklund, P., Wielscher, M., Guarrera, S., Teumer, A., Lehne, B., Milani, L., de Klein, N., Mishra, P. P., Melton, P. E., Mandaviya, P. R., ... Verweij, N. (2018). Association of maternal prenatal smoking GFI1-locus and cardiometabolic phenotypes in 18,212 adults. EBioMedicine, 38, 206-216.
Pirastu, N., Joshi, P. K., de Vries, P. S., Cornelis, M. C., McKeigue, P. M., Keum, N., Franceschini, N., Colombo, M., Giovannucci, E. L., Spiliopoulou, A., Franke, L., North, K. E., Kraft, P., Morrison, A. C., Esko, T., & Wilson, J. F. (2018). Author Correction: GWAS for male-pattern baldness identifies 71 susceptibility loci explaining 38% of the risk. Nature Communications, 9(1), 2536.
Lifelines Cohort Study, Zhernakova, D. V., Le, T. H., Kurilshikov, A., Atanasovska, B., Bonder, M. J., Sanna, S., Claringbould, A., Võsa, U., Deelen, P., Franke, L., de Boer, R. A., Kuipers, F., Netea, M. G., Hofker, M. H., Wijmenga, C., Zhernakova, A., & Fu, J. (2018). Author Correction: Individual variations in cardiovascular-disease-related protein levels are driven by genetics and gut microbiome. Nature Genetics, 50(12), [1752].
BIOS Consortium, Luijk, R., Wu, H., Ward-Caviness, C. K., Hannon, E., Carnero-Montoro, E., Min, J. L., Mandaviya, P., Mueller-Nurasyid, M., Mei, H., van der Maarel, S. M., Relton, C., Mill, J., Waldenberger, M., Bell, J. T., Jansen, R., Zhernakova, A., Franke, L., 't Hoen, P. A. C., ... Heijmans, B. T. (2018). Autosomal genetic variation is associated with DNA methylation in regions variably escaping X-chromosome inactivation. Nature Communications, 9(1), 3738. [3738].
Amini, M., Vonk, J. M., Abbasi, A., Prins, B. P., Bruinenberg, M., Franke, L., van der Harst, P., Navis, G., Koppelman, G. H., Wolffenbuttel, B. H. R., Boezen, H. M., Snieder, H., Chasman, D. I., & Alizadeh, B. Z. (2018). Blood Eosinophil Count and Metabolic, Cardiac and Pulmonary Outcomes: A Mendelian Randomization Study. Twin research and human genetics, 21(2), 89-100.
Bolling, M., Jan, S., Pasmooij, A., Lemmink, H., Franke, L., Yenamandra, V., Sinke, R., van den Akker, P., & Jonkman, M. F. (2018). Generalized ichthyotic peeling skin syndrome due to FLG2 mutations. Journal of Investigative Dermatology, 138(5), S128.
Bolling, M. C., Jan, S. Z., Pasmooij, A. M. G., Lemmink, H. H., Franke, L. H., Yenamandra, V. K., Sinke, R. J., van den Akker, P. C., & Jonkman, M. F. (2018). Generalized Ichthyotic Peeling Skin Syndrome due to FLG2 Mutations. Journal of Investigative Dermatology, 138(8), 1881-1884.
Lifelines Cohort Study, Ligthart, S., Vaez, A., Võsa, U., Stathopoulou, M. G., de Vries, P. S., Prins, B. P., Van der Most, P. J., Tanaka, T., Naderi, E., Rose, L. M., Wu, Y., Karlsson, R., Barbalic, M., Lin, H., Pool, R., Zhu, G., Macé, A., Sidore, C., ... Amini, M. (2018). Genome Analyses of >200,000 Individuals Identify 58 Loci for Chronic Inflammation and Highlight Pathways that Link Inflammation and Complex Disorders. American Journal of Human Genetics, 103(5), 691-706.,
BIOS Consortium, Luijk, R., Dekkers, K. F., van Iterson, M., Arindrarto, W., Claringbould, A., Hop, P., Boomsma, D., van Duijn, C. M., van Greevenbroek, M. M. J., Veldink, J. H., Wijmenga, C., Franke, L., 't Hoend, P. A. C., Jansen, R., van Meurs, J., Mei, H., Slagboomi, P. E., Heijmans, B. T., & van Zwet, E. W. (2018). Genome-wide identification of directed gene networks using large-scale population genomics data. Nature Communications, 9(1), 3097. [3097].
Vich Vila, A., Imhann, F., Collij, V., Jankipersadsing, S. A., Gurry, T., Mujagic, Z., Kurilshikov, A., Bonder, M. J., Jiang, X., Tigchelaar, E. F., Dekens, J., Peters, V., Voskuil, M. D., Visschedijk, M. C., van Dullemen, H. M., Keszthelyi, D., Swertz, M. A., Franke, L., Alberts, R., ... Weersma, R. K. (2018). Gut microbiota composition and functional changes in inflammatory bowel disease and irritable bowel syndrome. Science Translational Medicine, 10(472).
Lifelines Cohort Study (2018). Individual variations in cardiovascular-disease-related protein levels are driven by genetics and gut microbiome. Nature Genetics, 50(11), 1524-+.
Bakker, O. B., Aguirre-Gamboa, R., Sanna, S., Oosting, M., Smeekens, S. P., Jaeger, M., Zorro, M., Vosa, U., Withoff, S., Netea-Maier, R. T., Koenen, H. J. P. M., Joosten, I., Xavier, R. J., Franke, L., Joosten, L. A. B., Kumar, V., Wijmenga, C., Netea, M. G., & Li, Y. (2018). Integration of multi-omics data and deep phenotyping enables prediction of cytokine responses. Nature Immunology, 19(7), 776-786.
Barbieri, R., Venema, W. U., Vich Vila, A., Li, Y., Franke, L., van Dijk, F., De Klein, N., Swertz, M., Sanna, S., Voskuil, M. D., Rivas, M., Xavier, R., Daly, M., Festen, E. A., & Weersma, R. K. (2018). Integration of whole-exome sequencing and RNA sequencing of intestinal biopsies in inflammatory bowel disease identifies inflammation-dependent effects. Journal of Crohn's and Colitis, 12, S8-S9.
Imhann, F., Vich Vila, A., Bonder, M. J., Fu, J., Gevers, D., Visschedijk, M. C., Spekhorst, L. M., Alberts, R., Franke, L., van Dullemen, H. M., Ter Steege, R. W. F., Huttenhower, C., Dijkstra, G., Xavier, R. J., Festen, E. A. M., Wijmenga, C., Zhernakova, A., & Weersma, R. K. (2018). Interplay of host genetics and gut microbiota underlying the onset and clinical presentation of inflammatory bowel disease. Gut, 67(1), 108-119.
MiBioGen Consortium Initiative (2018). Meta-analysis of human genome-microbiome association studies: The MiBioGen consortium initiative. Microbiome, 6(1), [101].
Peters, V., Tigchelaar, E., Campmans-Kuijpers, M., Sheedfar, F., Imhann, F., Dekens, J., Wijmenga, C., Swertz, M., Franke, L., Weersma, R., Dijkstra, G., & Alizadeh, B. (2018). P831 - Habitual dietary intake of Dutch IBD patients differs from population controls: A case-control study. Journal of Crohn's and Colitis, 12, S536-S536. [P831].
van Setten, J., Brody, J. A., Jamshidi, Y., Swenson, B. R., Butler, A. M., Campbell, H., Del Greco, F. M., Evans, D. S., Gibson, Q., Gudbjartsson, D. F., Kerr, K. F., Krijthe, B. P., Lyytikainen, L-P., Mueller, C., Mueller-Nurasyid, M., Nolte, I. M., Padmanabhan, S., Ritchie, M. D., Robino, A., ... Snieder, H. (2018). PR interval genome-wide association meta-analysis identifies 50 loci associated with atrial and atrioventricular electrical activity. Nature Communications, 9(1), [2904].
Pirastu, N., Joshi, P. K., de Vries, P. S., Cornelis, M. C., Keum, N., Franceschini, N., Colombo, M., Giovannucci, E. L., Spiliopoulou, A., Franke, L., North, K. E., Kraft, P., Morrison, A. C., Esko, T., & Wilson, J. F. (2018). Reply to 'Misestimation of heritability and prediction accuracy of male-pattern baldness'. Nature Communications, 9(1), 2538. [2538].
Lifelines Cohort Study, & BIOS Consortium (2018). Single-cell RNA sequencing identifies celltype-specific cis-eQTLs and co-expression QTLs. Nature Genetics, 50(4), 493-497.
Scholz, R. W., Bartelsman, E. J., Diefenbach, S., Franke, L., Grunwald, A., Helbing, D., Hill, R., Hilty, L., Hojer, M., Klauser, S., Montag, C., Parycek, P., Prote, J. P., Renn, O., Reichel, A., Schuh, G., Steiner, G., & Pereira, G. V. (2018). Unintended Side Effects of the Digital Transition: European Scientists' Messages from a Proposition-Based Expert Round Table. Sustainability, 10(6), [2001].


van Dam, S., Võsa, U., van der Graaf, A., Franke, L., & de Magalhães, J. P. (2018). Gene co-expression analysis for functional classification and gene-disease predictions. Briefings in Bioinformatics, 19(4), 575-592.
Linner, R. K., Marioni, R. E., Rietveld, C. A., Simpkin, A. J., Davies, N. M., Watanabe, K., Armstrong, N. J., Auro, K., Baumbach, C., Bonder, M. J., Buchwald, J., Fiorito, G., Ismail, K., Iurato, S., Joensuu, A., Karell, P., Kasela, S., Lahti, J., Mcrae, A. F., ... BIOS Consortium (2017). An epigenome-wide association study meta-analysis of educational attainment. Molecular Psychiatry, 22(12), 1680-1690.
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