pycoMeth: a toolbox for differential methylation testing from Nanopore methylation calls by Rene Snajder, Adrien Leger, Oliver Stegle, Marc Jan Bonder

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Breast cancer subtype specific classifiers of response to neoadjuvant chemotherapy do not outperform classifiers trained on all subtypes. by Jorma J de Ronde, Marc Jan Bonder, Esther H Lips, Sjoerd Rodenhuis, Lodewyk F A Wessels

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Optimizing expression quantitative trait locus mapping workflows for single-cell studies by Anna S. E. Cuomo, Giordano Alvari, Christina B. Azodi, single-cell eQTLGen consortium, Davis J. McCarthy, Marc Jan Bonder

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Ageing affects DNA methylation drift and transcriptional cell-to-cell variability in mouse muscle stem cells by Irene Hernando-Herraez, Brendan Evano, Thomas Stubbs, Pierre-Henri Commere, Marc Jan Bonder, Stephen Clark, Simon Andrews, Shahragim Tajbakhsh, Wolf Reik

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Multi-tissue DNA methylation age predictor in mouse by Thomas M. Stubbs, Marc Jan Bonder, Anne-Katrien Stark, Felix Krueger, BI Ageing Clock Team, Ferdinand von Meyenn, Oliver Stegle, Wolf Reik

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Population-scale proteome variation in human induced pluripotent stem cells by Bogdan Andrei Mirauta, Daniel D Seaton, Dalila Bensaddek, Alejandro Brenes, Marc Jan Bonder, Helena Kilpinen, HipSci Consortium, Oliver Stegle, Angus I Lamond

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Systematic genetic analysis of the MHC region reveals mechanistic underpinnings of HLA type associations with disease by Matteo D'Antonio, Joaquin Reyna, David Jakubosky, Margaret KR Donovan, Marc-Jan Bonder, Hiroko Matsui, Oliver Stegle, Naoki Nariai, Agnieszka D'Antonio-Chronowska, Kelly A Frazer

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Screening for genes that accelerate the epigenetic aging clock in humans reveals a role for the H3K36 methyltransferase NSD1 by Daniel E. Martin-Herranz, Erfan Aref-Eshghi, Marc Jan Bonder, Thomas M. Stubbs, Sanaa Choufani, Rosanna Weksberg, Oliver Stegle, Bekim Sadikovic, Wolf Reik, Janet M. Thornton

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Detection of stable community structures within gut microbiota co-occurrence networks from different human populations by Matthew A. Jackson, Marc Jan Bonder, Zhana Kuncheva, Jonas Zierer, Jingyuan Fu, Alexander Kurilshikov, Cisca Wijmenga, Alexandra Zhernakova, Jordana T. Bell, Tim D. Spector, Claire J. Steves

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Combined single-cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity by Stephanie M. Linker, Lara Urban, Stephen J. Clark, Mariya Chhatriwala, Shradha Amatya, Davis J. McCarthy, Ingo Ebersberger, Ludovic Vallier, Wolf Reik, Oliver Stegle, Marc Jan Bonder

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scEpiAge: an age predictor highlighting single-cell ageing heterogeneity in mouse blood by Marc Jan Bonder, Stephen J. Clark, Felix Krueger, Siyuan Luo, João Agostinho de Sousa, Aida M. Hashtroud, Thomas M. Stubbs, Anne-Katrien Stark, Steffen Rulands, Oliver Stegle, Wolf Reik, Ferdinand von Meyenn

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Discovery and quality analysis of a comprehensive set of structural variants and short tandem repeats by David Jakubosky, Erin N. Smith, Matteo D’Antonio, Marc Jan Bonder, William W. Young Greenwald, Agnieszka D’Antonio-Chronowska, Hiroko Matsui, i2QTL Consortium, Oliver Stegle, Stephen B. Montgomery, Christopher DeBoever, Kelly A. Frazer

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Epigenome-wide association study on the plasma metabolome suggests self-regulation of the glycine and serine pathway through DNA methylation by Jiafei Wu, Victoria Palasantzas, Sergio Andreu-Sánchez, Torsten Plösch, Sam Leonard, Shuang Li, Marc Jan Bonder, Harm-Jan Westra, Joyce van Meurs, Mohsen Ghanbari, Lude Franke, Alexandra Zhernakova, Jingyuan Fu, Joanne A. Hoogerland, Daria V. Zhernakova

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Genetic, parental and lifestyle factors influence telomere length by Sergio Andreu-Sánchez, Geraldine Aubert, Aida Ripoll-Cladellas, Sandra Henkelman, Daria V. Zhernakova, Trishla Sinha, Alexander Kurilshikov, Maria Carmen Cenit, Marc Jan Bonder, Lude Franke, Cisca Wijmenga, Jingyuan Fu, Monique G. P. van der Wijst, Marta Melé, Peter Lansdorp, Alexandra Zhernakova

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Linking the gut microbiome to host DNA methylation by a discovery and replication epigenome-wide association study by Ayşe Demirkan, Jenny van Dongen, Casey T. Finnicum, Harm-Jan Westra, Soesma Jankipersadsing, Gonneke Willemsen, Richard G. Ijzerman, Dorret I. Boomsma, Erik A. Ehli, Marc Jan Bonder, Jingyuan Fu, Lude Franke, Cisca Wijmenga, Eco J. C. de Geus, Alexander Kurilshikov, Alexandra Zhernakova

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Properties of structural variants and short tandem repeats associated with gene expression and complex traits by David Jakubosky, Matteo D’Antonio, Marc Jan Bonder, Craig Smail, Margaret K. R. Donovan, William W. Young Greenwald, Hiroko Matsui, i2QTL Consortium, Agnieszka D’Antonio-Chronowska, Oliver Stegle, Erin N. Smith, Stephen B. Montgomery, Christopher DeBoever, Kelly A. Frazer

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Antibody signatures against viruses and microbiome reflect past and chronic exposures and associate with aging and inflammation by Sergio Andreu-Sánchez, Aida Ripoll-Cladellas, Anna Culinscaia, Ozlem Bulut, Arno R. Bourgonje, Mihai G. Netea, Peter Lansdorp, Geraldine Aubert, Marc Jan Bonder, Lude Franke, Thomas Vogl, Monique G.P. van der Wijst, Marta Melé, Debbie Van Baarle, Jingyuan Fu, Alexandra Zhernakova

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Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression by Anna S. E. Cuomo, Daniel D. Seaton, Davis J. McCarthy, Iker Martinez, Marc Jan Bonder, Jose Garcia-Bernardo, Shradha Amatya, Pedro Madrigal, Abigail Isaacson, Florian Buettner, Andrew Knights, Kedar Nath Natarajan, HipSci Consortium, Ludovic Vallier, John C. Marioni, Mariya Chhatriwala, Oliver Stegle

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Publisher Correction: Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression by Anna S. E. Cuomo, Daniel D. Seaton, Davis J. McCarthy, Iker Martinez, Marc Jan Bonder, Jose Garcia-Bernardo, Shradha Amatya, Pedro Madrigal, Abigail Isaacson, Florian Buettner, Andrew Knights, Kedar Nath Natarajan, HipSci Consortium, Ludovic Vallier, John C. Marioni, Mariya Chhatriwala, Oliver Stegle

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Meta-analysis of human genome-microbiome association studies: the MiBioGen consortium initiative by Jun Wang, Alexander Kurilshikov, Djawad Radjabzadeh, Williams Turpin, Kenneth Croitoru, Marc Jan Bonder, Matthew A. Jackson, Carolina Medina-Gomez, Fabian Frost, Georg Homuth, Malte Rühlemann, David Hughes, Han-na Kim, MiBioGen Consortium Initiative, Tim D. Spector, Jordana T. Bell, Claire J. Steves, Nicolas Timpson, Andre Franke, Cisca Wijmenga, Katie Meyer, Tim Kacprowski, Lude Franke, Andrew D. Paterson, Jeroen Raes, Robert Kraaij, Alexandra Zhernakova

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