M
Marc Jan Bonder
Researcher at European Bioinformatics Institute
Publications - 117
Citations - 15800
Marc Jan Bonder is an academic researcher from European Bioinformatics Institute. The author has contributed to research in topics: DNA methylation & Expression quantitative trait loci. The author has an hindex of 46, co-authored 108 publications receiving 10517 citations. Previous affiliations of Marc Jan Bonder include Netherlands Cancer Institute & German Cancer Research Center.
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Journal ArticleDOI
Population-scale proteome variation in human induced pluripotent stem cells.
Bogdan Mirauta,Daniel D Seaton,Dalila Bensaddek,Alejandro Brenes,Marc Jan Bonder,Helena Kilpinen,Oliver Stegle,Oliver Stegle,Angus I. Lamond +8 more
TL;DR: The first comprehensive proteomic analysis of human induced pluripotent stem cells (iPSC), a key cell type for disease modelling, is presented, analysing 202 iPSC lines derived from 151 donors, with integrated transcriptome and genomic sequence data from the same lines.
Genome-wide analysis identifies 12 loci influencing human reproductive behavior
Nicola Barban,Rick Jansen,Ronald de Vlaming,Ahmad Vaez,Jornt J. Mandemakers,Felix C. Tropf,Xia Shen,James F. Wilson,Daniel I. Chasman,Ilja M. Nolte,Vinicius Tragante,Sander W. van der Laan,John R. B. Perry,Augustine Kong,Tarunveer S. Ahluwalia,Eva Albrecht,Laura M. Yerges-Armstrong,Gil Atzmon,Kirsi Auro,Kristin L. Ayers,Andrew Bakshi,Danny Ben-Avraham,Klaus Berger,Aviv Bergman,Lars Bertram,Lawrence F. Bielak,Gyda Bjornsdottir,Marc Jan Bonder,Linda Broer,Minh Bui,Caterina Barbieri,Alana Cavadino,Jorge E. Chavarro,Constance Turman,Maria Pina Concas,Heather J. Cordell,Gail Davies,Peter Eibich,Nicholas Eriksson,Tõnu Esko,Joel Eriksson,Fahimeh Falahi,Janine F. Felix,Mark Alan Fontana,Lude Franke,Ilaria Gandin,Audrey J. Gaskins,Christian Gieger,Erica P. Gunderson,Xiuqing Guo,Caroline Hayward,Chunyan He,Edith Hofer,Hongyan Huang,Peter K. Joshi,Stavroula Kanoni,Robert Karlsson,Stefan Kiechl,Annette Kifley,Alexander Kluttig,Peter Kraft,Vasiliki Lagou,Cécile Lecoeur,Jari Lahti,Ruifang Li-Gao,Penelope A. Lind,Tian Liu,Enes Makalic,Crysovalanto Mamasoula,Lindsay K. Matteson,Hamdi Mbarek,Patrick F. McArdle,George McMahon,S. Fleur W. Meddens,Evelin Mihailov,Michael B. Miller,Stacey A. Missmer,Claire Monnereau,Peter J. van der Most,Ronny Myhre,Mike A. Nalls,Teresa Nutile,Kalafati Ioanna Panagiota,Eleonora Porcu,Inga Prokopenko,Kumar B. Rajan,Janet W. Rich-Edwards,Cornelius A. Rietveld,Antonietta Robino,Lynda M. Rose,Rico Rueedi,Kathy Ryan,Yasaman Saba,Daniel F. Schmidt,Jennifer A. Smith,Lisette Stolk,Elizabeth A. Streeten,Anke Tönjes,Gudmar Thorleifsson,Sheila Ulivi,Juho Wedenoja,Juergen Wellman,Peter Willeit,Jie Yao,Loic Yengo,Jing Hua Zhao,Wei Zhao,Daria V. Zhernakova,Najaf Amin,Howard Andrews,B. Balkau,Nir Barzilai,Sven Bergmann,Ginevra Biino,Hans Bisgaard,Klaus Bønnelykke,Dorret I. Boomsma,Julie E. Buring,Harry Campbell,Stefania Cappellani,Marina Ciullo,Simon R. Cox,Francesco Cucca,Toniolo Daniela,George Davey-Smith,Ian J. Deary,George Dedoussis,Panos Deloukas,Cornelia M. van Duijn,Eco J. C. de Geus,Johan G. Eriksson,Denis A. Evans,Jessica D. Faul,Sala Cinzia Felicita,Philippe Froguel,Paolo Gasparini,Giorgia Girotto,Hans-Jörgen Grabe,Karin Halina Greiser,Patrick J. F. Groenen,Hugoline G. de Haan,Johannes Haerting,Tamara B. Harris,Andrew C. Heath,Kauko Heikkilä,Albert Hofman,Georg Homuth,Elizabeth G. Holliday,John L. Hopper,Elina Hyppönen,Bo Jacobsson,Vincent W. V. Jaddoe,Magnus Johannesson,Astanand Jugessur,Mika Kähönen,Eero Kajantie,Sharon L.R. Kardia,Bernard Keavney,Ivana Kolcic,P Koponen,Peter Kovacs,Florian Kronenberg,Zoltán Kutalik,Martina La Bianca,Genevieve Lachance,William G. Iacono,Sandra Lai,Terho Lehtimäki,David C. Liewald,Cecilia M. Lindgren,Yongmei Liu,Robert Luben,Michael Lucht,Riitta Luoto,Per Magnus,Patrik K. E. Magnusson,Nicholas G. Martin,Matt McGue,Ruth McQuillan,Sarah E. Medland,Christa Meisinger,Dan Mellström,Andres Metspalu,Traglia Michela,Lili Milani,Paul Mitchell,Grant W. Montgomery,Dennis O. Mook-Kanamori,Renée de Mutsert,Ellen A. Nohr,Claes Ohlsson,Jørn Olsen,Ken K. Ong,Lavinia Paternoster,Alison Pattie,Brenda W.J.H. Penninx,Markus Perola,Patricia A. Peyser,Mario Pirastu,Ozren Polasek,Chris Power,Jaakko Kaprio,Leslie J. Raffel,Katri Räikkönen,Olli T. Raitakari,Paul M. Ridker,Susan M. Ring,Kathryn Roll,Igor Rudan,Daniela Ruggiero,Dan Rujescu,Veikko Salomaa,David Schlessinger,Helena Schmidt,Reinhold Schmidt,Nicole Schupf,Johannes W. A. Smit,Rossella Sorice,Tim D. Spector,John M. Starr,Doris Stöckl,Konstantin Strauch,Michael Stumvoll,Morris A. Swertz,Unnur Thorsteinsdottir,Roy Thurik,Nicholas J. Timpson,Joyce Y. Tung,André G. Uitterlinden,Simona Vaccargiu,J. Viikari,Veronique Vitart,Henry Völzke,Peter Vollenweider,Dragana Vuckovic,Johannes Waage,Gert G. Wagner,Jie Jin Wang,Nicholas J. Wareham,David R. Weir,Gonneke Willemsen,Johann Willeit,Alan F. Wright,Krina T. Zondervan,Kari Stefannson,Robert F. Krueger,James J. Lee,Daniel J. Benjamin,David Cesarini,Philipp Koellinger,Marcel den Hoed,Harold Snieder,Melinda Mills +252 more
TL;DR: A large genome-wide association study of both sexes including 251,151 individuals for AFB and 343,072 individuals for NEB finds 12 independent loci that are significantly associated with AFB and/or NEB in a SNP-based genome- wide association study and 4 additional loci associated in a gene-based effort.
Journal ArticleDOI
Systematic genetic analysis of the MHC region reveals mechanistic underpinnings of HLA type associations with disease.
Matteo D’Antonio,Joaquin Reyna,David Jakubosky,Margaret K.R. Donovan,Marc Jan Bonder,Hiroko Matsui,Oliver Stegle,Naoki Nariai,Agnieszka D'Antonio-Chronowska,Kelly A. Frazer +9 more
TL;DR: This study provides insights into the genetic architecture of the MHC region and pinpoints disease associations that are due to differential expression of HLA genes and non-HLA genes.
Journal ArticleDOI
Optimizing expression quantitative trait locus mapping workflows for single-cell studies
Anna S E Cuomo,Anna S E Cuomo,Giordano Alvari,Christina B. Azodi,Christina B. Azodi,Davis J. McCarthy,Davis J. McCarthy,Marc Jan Bonder +7 more
TL;DR: In this article, the role of different normalization and aggregation strategies, covariate adjustment techniques, and multiple testing correction methods to optimize single-cell expression quantitative trait locus (sc-eQTL) mapping is evaluated.
Posted ContentDOI
Screening for genes that accelerate the epigenetic ageing clock in humans reveals a role for the H3K36 methyltransferase NSD1
Daniel E. Martin-Herranz,Erfan Aref-Eshghi,Erfan Aref-Eshghi,Marc Jan Bonder,Thomas M. Stubbs,Oliver Stegle,Oliver Stegle,Bekim Sadikovic,Bekim Sadikovic,Wolf Reik,Wolf Reik,Wolf Reik,Janet M. Thornton +12 more
TL;DR: It is demonstrated that loss-of-function mutations in the H3K36 histone methyltransferase NSD1, which cause Sotos syndrome, substantially accelerate epigenetic ageing, and this role seems to be conserved in model organisms.