Enzymes of Epigenetics

Dr. Marmorstein obtained his Ph.D. in Chemistry from the University of Chicago and, following a postdoctoral fellowship at Harvard University and a faculty appointment at The Wistar Institute, he joined the faculty at the Perelman School of Medicine at the University of Pennsylvania. Dr. Marmorstein is currently a Professor in the Department of Biochemistry and Biophysics and an Investigator in the Abramson Family Cancer Research Institute with adjunct appoints in the Department of Chemistry at the University of Pennsylvania and The Wistar Institute. The Marmorstein laboratory uses a broad range of molecular, biochemical and biophysical research tools centered on X-ray crystal structure determination to understand the chemical basis for the epigenetic regulation of gene expression. The laboratory is particularly interested in gene regulatory proteins and their upstream signaling kinases that are aberrantly regulated in cancer and other age-related disorders such as obesity and Alzheimer's disease, and the use of high-throughput small molecule screening and structure-based design strategies towards the development of protein-specific small-molecule probes of protein function and for development into therapeutic agents.

Chromatin Structure and Histones 1. In Vitro Chromatin Assembly - Strategies and Quality Control Uma Muthurajan, Francesca Mattiroli, Serge Bergeron, Keda Zhou, Yajie Gu, Srinivas Chakravarthy, Pamela Dyer, Thomas Irving and Karolin Luger 2. Preparation, Crystallization and Structure Determination of Chromatin Enzyme/Nucleosome Complexes Robert K. McGinty, Ravindra D. Makde and Song Tan 3. Preparation of Recombinant Centromeric Nucleosomes and Formation of Complexes with Non-Histone Centromere Proteins Nikolina Sekulic and Ben E. Black 4. Functional Characterization of Histone Chaperones using SNAP-Tag-Based Imaging to Assess De Novo Histone Deposition Camille Clement, Isabelle Vassias, Dominique Ray-Gallet and Genevieve Almouzni 5. Analysis of Nucleosome Sliding by ATP-Dependent Chromatin Remodelling Enzymes Coral Y. Zhou and Geeta J. Narlikar Posttranslational Histone Modification Enzymes and Complexes 6. In Vitro Activity Assays for Myst Histone Acetyltransferases and Adaptation for High-Throughput Inhibitor Screening Cheryl E. McCullough and Ronen Marmorstein 7. Preparation and Biochemical Analysis of Classical Histone Deacetylases Alejandro Villagra, Eva Sahakian and Edward Seto 8. Recombinant Preparation, Biochemical Analysis, and Structure Determination of Sirtuin Family Histone/Protein Deacylases Benjamin Suenkel and Clemens Steegborn 9. Preparation, Biochemical Analysis and Structure Determination of SET Domain Histone Methyltransferases Elisa Bergamin and Jean Francois Couture 10. Expression, Purification and Biochemical Analysis of the LSD1/KDM1A Histone Demethylase Benoit Laurent and Yang Shi 11. LSD1 Histone Demethylase Assays and Inhibition Dawn Hayward and Philip A. Cole 12. Purification, Biochemical Analysis, and Structure Determination of JmjC Lysine Demethylases Swathi Krishnan and Raymond C. Trievel 13. Preparation and Analysis of Native Chromatin Modifying Complexes Yannick Doyon and Jacques Cote Histone Modification Binders (Readers) 14. Preparation, Biochemical Analysis and Structure Determination of the Bromodomain, an Acetyl-lysine Binding Domain Chunyan Ren, Lei Zeng and Ming-Ming Zhou 15. Preparation, Biochemical Analysis and Structure Determination of Methyllysine Readers Catherine A. Musselman and Tatiana G. Kutateladze DNA Modifications and Nucleic Acid Regulators 16. Quantification of Oxidized 5-Methylcytosine Bases and TET Enzyme Activity Monica Yun Liu, Jamie E. DeNizio and Rahul M. Kohli 17. Characterization of how DNA Modifications Affect DNA Binding by C2H2 Zinc Finger Proteins Anamika Patel, Hideharu Hashimoto, Xing Zhang and Xiaodong Cheng 18. Crystallographic Studies of Telomerase Hunter Hoffman and Emmanuel Skordalakes 19. Detection and Analysis of Long Non-Coding RNAs Fan Lai, Ezra Blumenthal and Ramin Shiekhattar 20. Identifying Centromeric RNAs Involved in Histone Dynamics in Vivo Delphine Quenet, David Sturgill and Yamini Dalal