Whole-Genome Bisulfite Sequencing of Two Distinct Interconvertible DNA Methylomes of Mouse Embryonic Stem Cells
Habibi, Ehsan, Brinkman, Arie B., Arand, Julia, Kroeze, Leonie I., Kerstens, Hindrik H.D., Matarese, Filomena, Lepikhov, Konstantin, Gut, Marta, Brun-Heath, Isabelle, Hubner, Nina C., Benedetti, Rosaria, Altucci, Lucia, Jansen, Joop H., Walter, Jörn, Gut, Ivo G., Marks, Hendrik, Stunnenberg, Hendrik G.
Published in Cell stem cell (05.09.2013)
Published in Cell stem cell (05.09.2013)
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Journal Article
Genome-wide SNP detection in the great tit Parus major using high throughput sequencing
Bers, Nikkie E.M. van, Oers, Kees van, Kerstens, Hindrik H.D, Dibbits, Bert W, Crooijmans, Richard P.M.A, Visser, Marcel E, Groenen, Martien A.M
Published in Molecular ecology (01.03.2010)
Published in Molecular ecology (01.03.2010)
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Transcriptomics of enterotoxigenic Escherichia coli infection. Individual variation in intestinal gene expression correlates with intestinal function
Niewold, Theo A., van der Meulen, Jan, Kerstens, Hindrik H.D., Smits, Mari A., Hulst, Marcel M.
Published in Veterinary microbiology (24.02.2010)
Published in Veterinary microbiology (24.02.2010)
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Journal Article
An organoid biobank for childhood kidney cancers that captures disease and tissue heterogeneity
Calandrini, Camilla, Schutgens, Frans, Oka, Rurika, Margaritis, Thanasis, Candelli, Tito, Mathijsen, Luka, Ammerlaan, Carola, van Ineveld, Ravian L, Derakhshan, Sepide, de Haan, Sanne, Dolman, Emmy, Lijnzaad, Philip, Custers, Lars, Begthel, Harry, Kerstens, Hindrik H D, Visser, Lindy L, Rookmaaker, Maarten, Verhaar, Marianne, Tytgat, Godelieve A M, Kemmeren, Patrick, de Krijger, Ronald R, Al-Saadi, Reem, Pritchard-Jones, Kathy, Kool, Marcel, Rios, Anne C, van den Heuvel-Eibrink, Marry M, Molenaar, Jan J, van Boxtel, Ruben, Holstege, Frank C P, Clevers, Hans, Drost, Jarno
Published in Nature communications (11.03.2020)
Published in Nature communications (11.03.2020)
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Journal Article
Dynamics of gene silencing during X inactivation using allele-specific RNA-seq
Marks, Hendrik, Kerstens, Hindrik H D, Barakat, Tahsin Stefan, Splinter, Erik, Dirks, René A M, van Mierlo, Guido, Joshi, Onkar, Wang, Shuang-Yin, Babak, Tomas, Albers, Cornelis A, Kalkan, Tüzer, Smith, Austin, Jouneau, Alice, de Laat, Wouter, Gribnau, Joost, Stunnenberg, Hendrik G
Published in Genome Biology (03.08.2015)
Published in Genome Biology (03.08.2015)
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Systematic discovery of gene fusions in pediatric cancer by integrating RNA-seq and WGS
van Belzen, Ianthe A E M, Cai, Casey, van Tuil, Marc, Badloe, Shashi, Strengman, Eric, Janse, Alex, Verwiel, Eugène T P, van der Leest, Douwe F M, Kester, Lennart, Molenaar, Jan J, Meijerink, Jules, Drost, Jarno, Peng, Weng Chuan, Kerstens, Hindrik H D, Tops, Bastiaan B J, Holstege, Frank C P, Kemmeren, Patrick, Hehir-Kwa, Jayne Y
Published in BMC cancer (03.07.2023)
Published in BMC cancer (03.07.2023)
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Abstract B009: The Dutch childhood cancer genome project: Data-driven precision medicine and research
von Berg, Joanna, van Belzen, Ianthe A.E.M., Wallis, Fleur S.A., Spinou, Anastasia, Farag, Roula, Cruz, Victoria M., Kester, Lennart A., Koudijs, Marco, Baker-Hernandez, John L., Janse, Alex, Badloe, Shashi, de Vos, Sam, Santoso, Marcel, Verwiel, Eugene T.P., van Tuil, Mark, Kerstens, Hindrik H.D., Hehir-Kwa, Jayne Y., Holstege, Frank C.P., Tops, Bastiaan B.J., Kemmeren, Patrick
Published in Cancer research (Chicago, Ill.) (05.09.2024)
Published in Cancer research (Chicago, Ill.) (05.09.2024)
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Molecular Characterization Reveals Subclasses of 1q Gain in Intermediate Risk Wilms Tumors
van Belzen, Ianthe A. E. M, van Tuil, Marc, Badloe, Shashi, Strengman, Eric, Janse, Alex, Verwiel, Eugène T. P, van der Leest, Douwe F. M, de Vos, Sam, Baker-Hernandez, John, Groenendijk, Alissa, de Krijger, Ronald, Kerstens, Hindrik H. D, Drost, Jarno, van den Heuvel-Eibrink, Marry M, Tops, Bastiaan B. J, Holstege, Frank C. P, Kemmeren, Patrick, Hehir-Kwa, Jayne Y
Published in Cancers (01.10.2022)
Published in Cancers (01.10.2022)
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Journal Article
Trecode: A FAIR Eco-System for the Analysis and Archiving of Omics Data in a Combined Diagnostic and Research Setting
Kerstens, Hindrik HD, Hehir-Kwa, Jayne Y, van de Geer, Ellen, van Run, Chris, Badloe, Shashi, Janse, Alex, Baker-Hernandez, John, de Vos, Sam, van der Leest, Douwe, Verwiel, Eugène TP, Tops, Bastiaan BJ, Kemmeren, Patrick
Published in BioMedInformatics (01.03.2023)
Published in BioMedInformatics (01.03.2023)
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Journal Article
Mammalian embryo comparison identifies novel pluripotency genes associated with the naïve or primed state
Bernardo, Andreia S, Jouneau, Alice, Marks, Hendrik, Kensche, Philip, Kobolak, Julianna, Freude, Kristine, Hall, Vanessa, Feher, Anita, Polgar, Zsuzsanna, Sartori, Chiara, Bock, Istvan, Louet, Claire, Faial, Tiago, Kerstens, Hindrik H D, Bouissou, Camille, Parsonage, Gregory, Mashayekhi, Kaveh, Smith, James C, Lazzari, Giovanna, Hyttel, Poul, Stunnenberg, Hendrik G, Huynen, Martijn, Pedersen, Roger A, Dinnyes, Andras
Published in Biology open (2018)
Published in Biology open (2018)
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Journal Article
Genome wide SNP discovery, analysis and evaluation in mallard (Anas platyrhynchos)
Kraus, Robert H S, Kerstens, Hindrik H D, Van Hooft, Pim, Crooijmans, Richard P M A, Van Der Poel, Jan J, Elmberg, Johan, Vignal, Alain, Huang, Yinhua, Li, Ning, Prins, Herbert H T, Groenen, Martien A M
Published in BMC genomics (16.03.2011)
Published in BMC genomics (16.03.2011)
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Large scale single nucleotide polymorphism discovery in unsequenced genomes using second generation high throughput sequencing technology: applied to turkey
Kerstens, H.H.D, Crooijmans, R.P.M.A, Veenendaal, A, Dibbits, B.W, Chin-A-Woeng, T.F.C, Dunnen, J.T. den, Groenen, M.A.M
Published in BMC genomics (16.10.2009)
Published in BMC genomics (16.10.2009)
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Journal Article
Erratum to: Dynamics of gene silencing during X inactivation using allele-specific RNA-seq
Marks, Hendrik, Kerstens, Hindrik H D, Barakat, Tahsin Stefan, Splinter, Erik, Dirks, René A M, van Mierlo, Guido, Joshi, Onkar, Wang, Shuang-Yin, Babak, Tomas, Albers, Cornelis A, Kalkan, Tüzer, Smith, Austin, Jouneau, Alice, de Laat, Wouter, Gribnau, Joost, Stunnenberg, Hendrik G
Published in Genome Biology (05.02.2016)
Published in Genome Biology (05.02.2016)
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Journal Article
Allele-specific RNA-seq expression profiling of imprinted genes in mouse isogenic pluripotent states
Dirks, René A M, van Mierlo, Guido, Kerstens, Hindrik H D, Bernardo, Andreia S, Kobolák, Julianna, Bock, István, Maruotti, Julien, Pedersen, Roger A, Dinnyés, András, Huynen, Martijn A, Jouneau, Alice, Marks, Hendrik
Published in Epigenetics & chromatin (15.02.2019)
Published in Epigenetics & chromatin (15.02.2019)
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Journal Article
Widespread horizontal genomic exchange does not erode species barriers among sympatric ducks
Kraus, Robert H S, Kerstens, Hindrik H D, van Hooft, Pim, Megens, Hendrik-Jan, Elmberg, Johan, Tsvey, Arseny, Sartakov, Dmitry, Soloviev, Sergej A, Crooijmans, Richard P M A, Groenen, Martien A M, Ydenberg, Ronald C, Prins, Herbert H T
Published in BMC evolutionary biology (2012)
Published in BMC evolutionary biology (2012)
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Journal Article
Epigenetic programming during monocyte to macrophage differentiation and trained innate immunity
Saeed, Sadia, Quintin, Jessica, Kerstens, Hindrik H.D., Rao, Nagesha A, Aghajanirefah, Ali, Matarese, Filomena, Cheng, Shih-Chin, Ratter, Jacqueline, Berentsen, Kim, van der Ent, Martijn A., Sharifi, Nilofar, Janssen-Megens, Eva M., Huurne, Menno Ter, Mandoli, Amit, van Schaik, Tom, Ng, Aylwin, Burden, Frances, Downes, Kate, Frontini, Mattia, Kumar, Vinod, Giamarellos-Bourboulis, Evangelos J, Ouwehand, Willem H, van der Meer, Jos W.M., Joosten, Leo A.B., Wijmenga, Cisca, Martens, Joost H.A., Xavier, Ramnik J., Logie, Colin, Netea, Mihai G., Stunnenberg, Hendrik G.
Published in Science (American Association for the Advancement of Science) (26.09.2014)
Published in Science (American Association for the Advancement of Science) (26.09.2014)
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Journal Article
Structural variation in the chicken genome identified by paired-end next-generation DNA sequencing of reduced representation libraries
Kerstens, Hindrik Hd, Crooijmans, Richard Pma, Dibbits, Bert W, Vereijken, Addie, Okimoto, Ron, Groenen, Martien Am
Published in BMC genomics (03.02.2011)
Published in BMC genomics (03.02.2011)
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Journal Article
Comparison of linkage disequilibrium and haplotype diversity on macro- and microchromosomes in chicken
Megens, H.J.W.C, Crooijmans, R.P.M.A, Bastiaansen, J.W.M, Kerstens, H.H.D, Coster, A, Jalving, R, Vereijken, A, Silva, P. da, Muir, W.M, Cheng, H.H, Hanotte, O, Groenen, M.A.M
Published in BMC genetics (20.12.2009)
Published in BMC genetics (20.12.2009)
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Journal Article
Transcriptomics of enterotoxigenic infection. Individual variation in intestinal gene expression correlates with intestinal function
Niewold, Theo A., van Der Meulen, Jan, Kerstens, Hindrik H.D., Smits, Mari A., Hulst, Marcel M.
Published in Veterinary microbiology (31.01.2010)
Published in Veterinary microbiology (31.01.2010)
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Journal Article
Application of massive parallel sequencing to whole genome SNP discovery in the porcine genome
Amaral, A.J, Kerstens, H.H.D, Megens, H.J.W.C, Heuven, H.C.M, Dibbits, B.W, Dungen, J. den, Crooijmans, R.P.M.A, Groenen, M.A.M
Published in BMC genomics (12.08.2009)
Published in BMC genomics (12.08.2009)
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