Franke, Prof. Lude
Lude Franke is Professor of Functional Genomics at the University Medical Center Groningen (UMCG). He is a statistical geneticist, working on analyzing data on the genetics of complex and autoimmune diseases (e.g. celiac disease).
Jonge Akademie, Lude Franke
Lude Franke investigates non-coding DNA, genome sequences that are not transcribed into proteins and shed light on how cells and organisms function, and also opened up new avenues for the development of novel drugs. During the covid-19 outbreak, Franke developed the Corona Barometer, which helped us understand how the pandemic was unfolding. In addition, Franke has played a leading role in developing real-world applications for new discoveries, such as an affordable pharmacogenetic passport that predicts a patient's response to certain drugs. Franke also has a gift for visualising his research, and has won several awards for his graphic design work.
He has been awarded a Veni grant (2009), a Horizon Grant (2009), an ERC Starting grant (2014), and a Vidi grant (2014) to work on identifying molecular effects due to disease-causing mutations. 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.
Lude Franke is one of the founding members of the Young Academy Groningen and in 2026, he has been appointed as a member of the Royal Netherlands Academy of Arts and Sciences (KNAW).
Previously in the news
2026
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Accelerating rare disease diagnostics by linking DNA and RNA
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H., Parra-Martínez, M., de Ridder, J., van Steensel, B.,
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Identification of (ultra-)rare functional promoter
mutations in cancer using sequence-based deep learning
models. MedRxiv. https://doi.org/10.1101/2025.05.06.25327057
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L., Munnink, T. O., de Boer-Veger, N.,
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D., ... Franke, L. (2025). Low-cost
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Consortium, van der Graaf, A., Warmerdam, R., Auwerx,
C., Võsa, U., Borges, M. C., Franke, L. H., &
Kutalik, Z. (2025). MR-link-2: pleiotropy robust cis
Mendelian randomization validated in three independent reference
datasets of causality. Nature
Communications, 16(1), Article 6112. https://doi.org/10.1038/s41467-025-60868-1
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J., Oelen, R., van der Wijst, M. G.
P., Franke, L., & Bonder, M.
J. (2025). Optimized summary-statistic-based
single-cell eQTL meta-analysis. Scientific
Reports, 15(1), Article 28407. https://doi.org/10.1038/s41598-025-08808-3
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S., van Zon, S. K. R., Ots,
P., van Den Berg, G., Brouwer,
S., & van Ooijen, R. (2025).
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Leszek, P., Varga, Z. V., Aboumsallem, J. P., der Harst, P.
V., Franke, L. H., van der Wijst, M. G.
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Kisand, K., ... Alasoo, K. (2025). Trans-eQTL mapping
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2024
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R., Mooiweer, J.,
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R., Franke, L., Wijmenga, C.,
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with self-organizing epithelial, mesenchymal, and neural
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Article 114247. https://doi.org/10.1016/j.celrep.2024.114247
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S., Ripoll-Cladellas, A., Culinscaia, A., Bulut, O.,
Bourgonje, A. R., Netea, M. G., Lansdorp, P.,
Aubert, G., Bonder, M. J., Franke, L. H.,
Vogl, T., van der Wijst, M. G. P., Melé,
M., van Baarle, D., Fu, J., &
Zhernakova, A. (2024). Antibody signatures against
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associate with aging and inflammation.
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W., Westra, H. J., Deelen, P.,
& Franke, L. (2024). Co-expression in
tissue-specific gene networks links genes in cancer-susceptibility
loci to known somatic driver genes. BMC Medical
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D., Senabouth, A., Arora, H., Lee, J. T. H., Ripoll-Cladellas,
A., Franke, L., Prabhakar, S., Ye, C. J., McCarthy, D.
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Demuxafy: improvement in droplet assignment by integrating
multiple single-cell demultiplexing and doublet detection
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Epigenome-wide association study on the plasma metabolome
suggests self-regulation of the glycine and serine pathway through
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O., Mens, M. M. J., Warmerdam, R., Dijkema, M., van
den Biggelaar, A. H. J., Franke, L., Goudsmit, J.,
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Urzúa-Traslaviña, C. G., Mulcahy Symmons, S.,
Zidan, M. M. M., Sadler, M. C., Kutalik, Z., Jonkers, I.
H., Franke, L., & Deelen, P.
(2024). Identification of rare disease genes as drivers of
common diseases through tissue-specific gene regulatory
networks. Scientific Reports,
14, Article 30206. https://doi.org/10.1038/s41598-024-80670-1
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A., van Dongen, J., Finnicum, C. T., Westra, H.
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(2024). Multiomic analyses uncover immunological signatures
in acute and chronic coronary syndromes. Nature
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M., Deelen, J., van Meurs, J. B. J., van Dongen, J., Pool, R.,
Boomsma, D. I., Ghanbari, M., & Franke, L. (2024).
NMR metabolomics-guided DNA methylation mortality
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107, Article 105279. https://doi.org/10.1016/j.ebiom.2024.105279
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ABCTB
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Vaudel, M., Mendes de Oliveira, E., Messina, A., Walters, R. G.,
Liu, X., Busch, A. S., Helgason, H., Thompson, D. J., Santoni, F.,
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Blokland, I. V., Oelen, R., Groot, H.
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Harst, P., Franke, L., & van der
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Immune Response After Acute Myocardial Infarction.
Circulation. Genomic and precision medicine,
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Investigators, Perry, J. R. B., & Ong, K. K. (2024).
Understanding the genetic complexity of puberty timing across
the allele frequency spectrum. Nature
genetics, 56(7), 1397-1411. https://doi.org/10.1038/s41588-024-01798-4
2023
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HUNT
All-In Stroke, CADISP group, International Consortium for Blood
Pressure (ICBP), The International Headache Genetics Consortium
(IHGC), International Stroke Genetics Consortium, ISGC Intracranial
Aneurysm Working Group, Bakker, M. K., Kanning, J. P., Abraham, G.,
Martinsen, A. E., Winsvold, B. S., Zwart, J. A., Bourcier, R.,
Sawada, T., Koido, M., Kamatani, Y., Morel, S., Amouyel, P.,
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BBJ,
BioMe, BioVU, Canadian Partnership for Tomorrow's Health/OHS, China
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Personalized Medicine, deCODE Genetics, ESTBB, FinnGen, Generation
Scotland, Genes & Health, LifeLines, Mass General Brigham
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across diverse cohorts. Cell Genomics,
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Consortium, sc-eQTLgen Consortium, Li, S., Schmid, K.
T., de Vries, D. H., Korshevniuk, M.,
Losert, C., Oelen, R., van Blokland, I.
V., Groot, H. E., Swertz, M.
A., van der Harst, P., Westra, H.
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C. K., Oelen, R., Le, K., Netea,
M. G., Franke, L., Wijst, M. G. P. V.
D., & Kumar, V. (2023). Integration
of Candida albicans-induced single-cell gene expression data and
secretory protein concentrations reveal genetic regulators of
inflammation. Frontiers in Immunology,
14, Article 1069379. https://doi.org/10.3389/fimmu.2023.1069379
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England Research Consortium, Boulogne, F., Claus, L.
R., Wiersma, H., Oelen, R., Schukking,
F., de Klein, N., Li, S., Westra,
H. J., van der Zwaag, B., van Reekum, F., Sierks, D.,
Schönauer, R., Li, Z., Bijlsma, E. K., Bos, W. J. W.,
Halbritter, J., Knoers, N. V. A. M., Besse, W., ...
van Eerde, A. M. (2023). KidneyNetwork: Using kidney-derived
gene expression data to predict and prioritize novel genes involved
in kidney disease. European Journal of Human
Genetics, 31, 1300–1308. https://doi.org/10.1038/s41431-023-01296-x
BIOS
Consortium, Dekkers, K. F., Slieker, R. C., Ioan-Facsinay, A., van
Iterson, M., Ikram, M. A., van Greevenbroek, M. M. J., Veldink, J.
H., Franke, L., Boomsma, D. I., Slagboom, P. E.,
Jukema, J. W., & Heijmans, B. T. (2023). Lipid-induced
transcriptomic changes in blood link to lipid metabolism and
allergic response. Nature
Communications, 14, Article 544. https://doi.org/10.1038/s41467-022-35663-x
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K., Losert, C., Knottenberg, V., van Blokland, I.
V., Oelen, R., Groot, H. E.,
Benjamins, J. W., Brambs, S., Kaiser, R., Eivers, L.,
Polewka, V., Escaig, R., Joppich, M., Janjic, A., Popp, O.,
Petzold, T., Zimmer, R., Enard, W., Saar, K., ... Stark, K. (2023).
Multi-Omic Factor Analysis uncovers immunological
signatures with pathophysiologic and clinical implications in
coronary syndromes. MedRxiv. https://doi.org/10.1101/2023.05.02.23289392
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Consortium, Dai, Q., Zhou, G., Zhao, H., Võsa,
U., Franke, L., Battle, A., Teumer, A.,
Lehtimäki, T., Raitakari, O. T., Esko, T., Epstein, M. P.,
& Yang, J. (2023). OTTERS: a powerful TWAS framework
leveraging summary-level reference data. Nature
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The
Netherlands A. C. M./P. L. N. Registry, Lifelines Cohort
Study, Lopera-Maya, E. A., Li, S.,
de Brouwer, R., Nolte, I. M., van Breen,
J., Jongbloed, J. D. H., Swertz, M.
A., Snieder, H., Franke, L.,
Wijmenga, C., de Boer, R. A., Deelen,
P., van der Zwaag, P. A., & Sanna,
S. (2023). Phenotypic and Genetic Factors Associated
with Absence of Cardiomyopathy Symptoms in PLN:c.40_42delAGA
Carriers. Journal of cardiovascular translational
research, 16, 1251–1266. https://doi.org/10.1007/s12265-022-10347-5
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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, 2023. https://doi.org/10.1093/database/baad019
ABCTB
Investigators, Kentistou, K. A., Kaisinger, L. R., Stankovic, S.,
Vaudel, M., de Oliveira, E. M., Messina, A., Walters, R. G., Liu,
X., Busch, A. S., Helgason, H., Thompson, D. J., Santon, F.,
Petricek, K. M., Zouaghi, Y., Huang-Doran, I., Gudbjartsson, D. F.,
Bratland, E., Lin, K., ... Ong, K. K. (2023).
Understanding the genetic complexity of puberty timing
across the allele frequency spectrum. MedRxiv. https://doi.org/10.1101/2023.06.14.23291322
Lifelines
Corona Research initiative, Mobach, M. P., Boezen, H.
M., Mierau, J. O., Franke, H.
L., 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., van Blokland, I.,
de Bock, G. T. H., ... Wijmenga, C. (2023).
Workplace impact on employees: A Lifelines Corona Research
Initiative on the return to work. PLoS
ONE, 18(1), Article e0279902. https://doi.org/10.1371/journal.pone.0279902
2022
COVID-19
Host Genetics Initiative (2022). A first update on mapping
the human genetic architecture of COVID-19.
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Penn Medicine BioBank, Qatar Biobank, The QSkin Sun and Health
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G., Vochteloo, M., Ye, C. J., Westra,
H.-J., Franke, L., & van der Wijst,
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J., Franke, H. L., Dekens,
J., Deelen, P., Lanting, P.,
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S., Claringbould, A., Boulogne,
F., Dijkema, M. X. L., Wiersma, H. H.,
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Blokland, I. V., Groot, H. E., Franke, L.
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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.,
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Common and rare variant association analyses in amyotrophic
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architectures and neuron-specific biology. Nature
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important to identify genes that correlate with age.
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R. H., Hafferty, J. D., Adams, M. J., Walker, R. M., Morris, S. W.,
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Huang, J., Castillo-Fernandez, J. E., Wiggins, K. L., de
Klein, N., Grioni, S., Swenson, B. R., Polidoro, S., Treur,
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Integrative Omics St, eQTLgen Consortium, BioBank Japan Project,
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Lifelines Cohort Study, InterAct Consortium, 23 Me Res Team, Ruth,
K. S., Day, F. R., Hussain, J., Martinez-Marchal, A., Aiken, C. E.,
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A., Fu, J., Withoff, S.,
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S. P., Moorlag, S., Mourits, V. P., Koeken, V. A. C. M., de Bree,
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influencing human gut microbiome composition.
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BIOS
Consortium, i2QTL Consortium, Võsa, U.,
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M. J., Deelen, P., Zeng, B., Kirsten, H., Saha,
A., Kreuzhuber, R., Yazar, S., Brugge, H.,
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Wijst, M. G. P., Kasela, S., Pervjakova, N., Alves,
I., ... Franke, L. (2021). Large-scale cis- and
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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,
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U., Zhernakova, A., Reijneveld, S.
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infection and its health and societal impacts in a Dutch
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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,
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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.
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Diagnoses and SARS-CoV-2 Testing Practices During the First Wave of
the Pandemic: The Dutch Lifelines COVID-19 Cohort Study.
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Consortium, van der Graaf, A., Zorro, M.
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U., Aguirre-Gamboa, R., Li,
C., Mooiweer, J., Ricano-Ponce,
I., Borek, Z., Koning, F., Kooy-Winkelaar, Y., Sollid, L.
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M., Warmerdam, R. C. A., Herkert, J.
C., Boulogne, F., Claringbould,
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