Enzymes of Epigenetics Part B

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.

Epigenetic Technologies 1. Identification and Quantification of Histone PTMs using High-Resolution Mass Spectrometry Kelly R. Karch, Simone Sidoli and Benjamin A. Garcia 2. Substrate Specificity Profiling of Histone-Modifying Enzymes by Peptide Microarray Evan M. Cornett, Bradley M. Dickson, Robert M. Vaughan, Swathi Krishnan, Raymond C. Trievel, Brian D. Strahl, and Scott B. Rothbart 3. ArrayNinja: An Open Source Platform for Unified Planning and Analysis of Microarray Experiments Bradley M. Dickson, Evan M. Cornett, Zachary Ramjan and Scott B. Rothbart 4. Chemical Biology Approaches for Characterization of Epigenetic Regulators Dalia Barsyte-Lovejoy, Magdalena M Szewczyk, Panagiotis Prinos, Evelyne Lima-Fernandes, Suzanne Ackloo and Cheryl H. Arrowsmith 5. Mapping Lysine Acetyltransferase-Ligand Interactions by Activity-Based Capture David C. Montgomery and Jordan L. Meier 6. Investigating Histone Acetylation Stoichiometry and Turnover Rate Jing Fan, Josue Baeza and John M. Denu 7. Rapid Semisynthesis of Acetylated and Sumoylated Histone Analogs Abhinav Dhall, Caroline E. Weller and Champak Chatterjee 8. An IF-FISH Approach for Co-Visualization of Gene Loci and Nuclear Architecture in Fission Yeast Kyoung-Dong Kim, Osamu Iwasaki  and Ken-ichi Noma

Small Molecule Epigenetic Regulators 9. Biology, Chemistry and Pharmacology of Sirtuins Antonio Bedalov, Sarwat Chowdhury and Julian A. Simon 10. Synthesis and Assay of SIRT1 Activating Compounds Han Dai , James L. Ellis , David A. Sinclair and Basil P. Hubbard 11. Synthesis and Assays of Inhibitors of Methyltransferases Xiao-Chuan Cai, Kanishk Kapilashrami and Minkui Luo

Epigenetics and Biological Connections 12. Exploring the Dynamic Relationship between Cellular Metabolism and Chromatin Structure using SILAC-Mass Spec and ChIP-Sequencing Philipp Mews and Shelley L. Berger 13. Current Proteomic Methods to Investigate the Dynamics of Histone Turnover in the Central Nervous System Lorna A. Farrelly, Brian D. Dill, Henrik Molina, Marc R. Birtwistle and Ian Maze 14. ChIP-Sequencing to Map the Epigenome of Senescent Cells using Benzonase Endonuclease Taranjit Singh Rai and Peter D. Adams 15. Exploiting Chromatin Biology to Understand Immunology John L. Johnson and Golnaz Vahed