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Publications

Published work in peer-reviewed international journals

  1. Tahsin Stefan Barakat*#, Florian Halbritter#, Man Zhang, André F. Rendeiro, Elena Perenthaler, Christoph Bock and Ian Chambers* (2018) “Functional dissection of the enhancer repertoire in human embryonic stem cells”, Cell Stem Cell  23, 276-288 doi: https://doi.org/10.1016/j.stem.2018.06.014 supplementary data available at our resource website: http://hesc-enhancers.computational-epigenetics.org)  * corresponding authors, # equal contribution
  2. Hendrik Marks, Hindrik HD Kerstens, Tahsin Stefan Barakat, Erik Splinter, René A.M. Dirks, Guido van Mierlo, Onkar Joshi, Shuang-Yin Wang, Tomas Babak, Cornelis A Albers, Tüzer Kalkan, Austin Smith, Alice Jouneau, Wouter de Laat, Joost Gribnau and Hendrik G Stunnenberg (2015) “Dynamics of gene silencing during X inactivation using allele-specific RNA-Seq” Genome Biology, Aug 3;16(1):149. doi: 10.1186/s13059-015-0698-x
  3. Tahsin Stefan Barakat#, Mehrnaz Ghazvini#, Bas de Hoon, Tracy Li, Bert Eussen, Hannie Douben, Reinier van der Linden, Marjan Boter, Robert-Jan Galjaard, J. Anton Grootegoed, Annelies de Klein and Joost Gribnau (2015) “Stable X chromosome reactivation in female human induced pluripotent stem cells” Stem Cell Reports, Feb 10;4(2):199-208 (#TSB and MG contributed equally to this work)
  4. Tahsin Stefan Barakat* and Joost Gribnau (2015) “Generation of knockout alleles by RFLP based BAC targeting of polymorphic embryonic stem cells” Methods in Molecular Biology, 1227:143-80 * corresponding author
  5. Tahsin Stefan Barakat* and Joost Gribnau (2014) “Combined DNA-RNA Fluorescent In Situ Hybridization (FISH) to Study X Chromosome Inactivation in Differentiated Female Mouse Embryonic Stem Cells” Journal of Visual Experiments, e51628, doi:10.3791/51628; * corresponding author
  6. Tahsin Stefan Barakat, Friedemann Loos, Selma van Staveren, Elvira Myronova, Mehrnaz Ghazvini, J. Anton Grootegoed and Joost Gribnau (2014) “The Trans-activator RNF12 and cis-acting elements effectuate X chromosome inactivation independent of X-pairing” Molecular Cell, 20;53(6):965-78
  7. Erwin Brosens, Elisabeth M. de Jong, Tahsin Stefan Barakat, Bert H Eussen, Barbara D’haene, Elfride de Baere, Pino P Poddighe, Robert-Jan Galjaard, Joost Gribnau, Alice S Brooks, Dick Tibboel, and Annelies de Klein (2014) “Structural and numerical changes of chromosome X in patients with oesophageal atresia” European Journal of Human Genetics, Jan 8. doi: 10.1038/ejhg.2013.295
  8. Alissa Minkovsky, Tahsin Stefan Barakat, Nadia Sellami, Mark Henry Chin, Nilhan Gunhanlar, Joost Gribnau, and Kathrin Plath (2013) “The pluripotency factor-bound intron 1 of Xist is dispensable for X chromosome inactivation and reactivation in vitro and in vivo” Cell Reports, 3: 1-14
  9. Tahsin Stefan Barakat and Joost Gribnau (2012) “X chromosome inactivation in the cycle of life” Development, 139 (12): 2085-2089. (Review)
  10. Cristina Gontan, Eskeatnaf Mulugeta Achame, Jeroen Demmers, Tahsin Stefan Barakat, Eveline Rentmeester, Wilfred van IJcken, J. Anton Grootegoed and Joost Gribnau (2012) “RNF12 initiates X chromosome inactivation by targeting REX1 for degradation” Nature 2012 485 (7398): p. 386-90
  11. Long Zhang, Huizhe Huang, Fang Fang Zhou, Joost Schimmel, Cristina Gontan Pardo, Tingting Zhang, Tahsin Stefan Barakat, Kelly-Ann Sheppard, Craig Mickanin, Jeff A. Porter, Alfred C.O. Vertegaal, Hans van Dam, Joost Gribnau, Chris X. Lu, and Peter ten Dijke (2012) “RNF12 Controls Embryonic Stem Cell Fate and Morphogenesis in Zebrafish Embryos by Targeting SMAD7 for Degradation” Molecular Cell, 46:650-61
  12. Tahsin Stefan Barakat, Eveline Rentmeester, Frank Sleutels, J. Anton Grootegoed and Joost Gribnau (2011) “Precise BAC targeting of genetically polymorphic mouse ES cells” Nucleic Acids Research,  Oct;39(18):e121
  13. Tahsin Stefan Barakat, Nilhan Gunhanlar, Cristina Gontan Pardo, Eskeatnaf Mulugeta Achame, Mehrnaz Ghazvini, Ruben Boers, Annegien Kenter, Eveline Rentmeester, J.Anton Grootegoed and Joost Gribnau (2011) “RNF12 activates Xist and is essential for X chromosome inactivation” PLoS Genetics, 7(1):e1002001
  14. Tahsin Stefan Barakat and Joost Gribnau (2010) "X chromosome inactivation and embryonic stem cells" Advances in Experimental Medicine and Biology, 695: 132-154. (Review)
  15. Christa Buecker, Hsu-Hsin Chen, Jose Maria Polo, Laurence Daheron, Lei Bu, Tahsin Stefan Barakat, Patricia Okwieka, Andrew Porter, Joost Gribnau, Konrad Hochedlinger, and Niels Geijsen (2010) “A murine ESC-like state facilitates transgenesis and homologous recombination in human pluripotent stem cells” Cell Stem Cell, 6:535-46
  16. Tahsin Stefan Barakat, Iris Jonkers, Kim Monkhorst and Joost Gribnau (2010) “X-changing information on X inactivation” Experimental Cell Research, 10;316(5):679-87 (Review)
  17. Iris Jonkers#, Tahsin Stefan Barakat#, Eskeatnaf Mulugeta Achame, Kim Monkhorst, Annegien Kenter, Eveline Rentmeester, Frank Grosveld, J. Anton Grootegoed and Joost Gribnau (2009) “RNF12 is an X-Encoded dose-dependent activator of X chromosome inactivation” Cell, 139(5):999-1011 (#IJ and TSB contributed equally to this work)


Books
1. Tahsin Stefan Barakat (2012) “Living with two X chromosomes: of mice and women. Studies on the initiation mechanisms of X chromosome inactivation in stem cells and mouse models, and the role of RNF12 herein” Doctoral Thesis, Erasmus University, ISBN: 978-94-6182-154-6, 386 pages. http://repub.eur.nl/pub/38917/

Other publications
1. Joost Gribnau* and Tahsin Stefan Barakat* (2017) “X chromosome inactivation and its implications for human disease” BioRXiv preprint, doi: https://doi.org/10.1101/076950  * corresponding authors
2. Tahsin Stefan Barakat*, Mariska de Pagter and Michel ten Have (2015) “Can adrenaline safely be used in local anaesthesia involving distal extremities? A systematic review” Erasmus Journal of Medicine 4(2):15-19  * corresponding author