Now showing items 1-7 of 7

    • C/EBPα Activates Pre-existing and De Novo Macrophage Enhancers during Induced Pre-B Cell Transdifferentiation and Myelopoiesis 

      van Oevelen, Chris; Collombet, Samuel; Vicent, Guillermo; Hoogenkamp, Maarten; Lepoivre, Cyrille; Badeaux, Aimee; Bussmann, Lars; Sardina, Jose Luis; Thieffry, Denis; Beato, Miguel; Shi, Yang; Bonifer, Constanze; Graf, Thomas (Elsevier, 2015)
      Summary Transcription-factor-induced somatic cell conversions are highly relevant for both basic and clinical research yet their mechanism is not fully understood and it is unclear whether they reflect normal differentiation ...
    • Dynamic regulation of histone lysine methylation via the ubiquitin-proteasome system. 

      Lim, Hui Jun (2013-10-18)
      Lysine methylation is an important post-translational modification found on histones that is added and removed by histone lysine methyltransferases and demethylases, respectively. Lysine methylation occurs in a specific ...
    • Genome-wide comparison of DNA hydroxymethylation in mouse embryonic stem cells and neural progenitor cells by a new comparative hMeDIP-seq method 

      Tan, Li; Xiong, Lijun; Xu, Wenqi; Wu, Feizhen; Huang, Ning; Xu, Yufei; Kong, Lingchun; Zheng, Lijuan; Schwartz, Lisa; Shi, Yang; Shi, Yujiang (Oxford University Press, 2013)
      The genome-wide distribution patterns of the ‘6th base’ 5-hydroxymethylcytosine (5hmC) in many tissues and cells have recently been revealed by hydroxymethylated DNA immunoprecipitation (hMeDIP) followed by high throughput ...
    • The histone chaperone CAF-1 safeguards somatic cell identity 

      Cheloufi, Sihem; Elling, Ulrich; Hopfgartner, Barbara; Jung, Youngsook L; Murn, Jernej; Ninova, Maria; Hubmann, Maria; Badeaux, Aimee I; Ang, Cheen Euong; Tenen, Danielle; Wesche, Daniel J; Abazova, Nadezhda; Hogue, Max; Tasdemir, Nilgun; Brumbaugh, Justin; Rathert, Philipp; Jude, Julian; Ferrari, Francesco; Blanco, Andres; Fellner, Michaela; Wenzel, Daniel; Zinner, Marietta; Vidal, Simon E; Bell, Oliver; Stadtfeld, Matthias; Chang, Howard Y.; Almouzni, Genevieve; Lowe, Scott W; Rinn, John; Wernig, Marius; Aravin, Alexei; Shi, Yang; Park, Peter; Penninger, Josef M; Zuber, Johannes; Hochedlinger, Konrad (2016)
      Cellular differentiation involves profound remodeling of chromatic landscapes, yet the mechanisms by which somatic cell identity is subsequently maintained remain incompletely understood. To further elucidate regulatory ...
    • The histone demethylase LSD1/KDM1A promotes the DNA damage response 

      Mosammaparast, Nima; Kim, Haeyoung; Laurent, Benoit; Zhao, Yu; Lim, Hui Jun; Majid, Mona C.; Dango, Sebastian; Luo, Yuying; Hempel, Kristina; Sowa, Mathew E.; Gygi, Steven P.; Steen, Hanno; Harper, J. Wade; Yankner, Bruce; Shi, Yang (The Rockefeller University Press, 2013)
      Histone demethylation is known to regulate transcription, but its role in other processes is largely unknown. We report a role for the histone demethylase LSD1/KDM1A in the DNA damage response (DDR). We show that LSD1 is ...
    • The PRC2-associated factor C17orf96 is a novel CpG island regulator in mouse ES cells 

      Liefke, Robert; Shi, Yang (Nature Publishing Group, 2015)
      CpG islands (CGIs) are key DNA regulatory elements in the vertebrate genome and are often found at gene promoters. In mammalian embryonic stem (ES) cells, CGIs are decorated by either the active or repressive histone marks, ...
    • A primary role of TET proteins in establishment and maintenance of De Novo bivalency at CpG islands 

      Kong, Lingchun; Tan, Li; Lv, Ruitu; Shi, Zhennan; Xiong, Lijun; Wu, Feizhen; Rabidou, Kimberlie; Smith, Michael; He, Celestine; Zhang, Lei; Qian, Yanyan; Ma, Duan; Lan, Fei; Shi, Yang; Shi, Yujiang Geno (Oxford University Press, 2016)
      Ten Eleven Translocation (TET) protein-catalyzed 5mC oxidation not only creates novel DNA modifications, such as 5hmC, but also initiates active or passive DNA demethylation. TETs’ role in the crosstalk with specific histone ...