Dr. Ilyas Yildirim

Dr. Ilyas Yildirim

Assistant Professor
Department of Chemistry and Biochemistry
Ph.D. in Physics, University of Rochester

Contact Information
Office: MC17 228
Phone: (561) 799-8325
Email: iyildirim@fau.edu

Lab: http://cosweb1.fau.edu/~iyildirim

Research Interests

Theoretical and computational biophysical chemistry; developing new computational methods and models to study nucleic acids; drug design targeting RNA molecules causing genetic disease (such as Huntington Disease, Myotonic Dystrophy, and Fragile X-Syndrome); investigating properties of microRNA/AGO complex; force field development for modified RNA residues; interactions of transcription factors with DNA; DNA based nanomaterials.

Recent Publications

  • Yildirim, I., Chakraborty, D., Disney, M. D., Wales, D. J., and Schatz, G. C., “Computational Investigation of RNA CUG repeats responsible for Myotonic Dystrophy 1”, J. Chem. Theory Comput. 11, 4943–4958, 2015 .
    http://pubs.acs.org/doi/abs/10.1021/acs.jctc.5b00728
  • Philips, S. J., Hernandez, M. C., Yildirim, I., Schatz, G. C., Mondragón, A., O’Halloran, T. V., “Allosteric Transcriptional Regulation via Changes in the Overall Topology of the Core Promoter”, Science 349, 877-881, 2015.
    http://www.sciencemag.org/content/349/6250/877.short
  • Yildirim, I., Kierzek, E., Kierzek, R., and Schatz, G. C., “Interplay of LNA and 2ʹ-O-methyl RNA in the structure and thermodynamics of RNA hybrid systems: A molecular dynamics study using revised AMBER force field and comparison to experimental results”, J. Phys. Chem. B 118, 14177–14187, 2014.
    http://pubs.acs.org/doi/abs/10.1021/jp506703g
  • Yildirim, I., Eryazici, I., Nguyen, S. T., Schatz, G. C., “Hydrophobic Organic Linkers in the Self-assembly of Small Molecule-DNA hybrid Dimers:  A Computational-Experimental Study of the Role of Linkage Direction in Product Distributions and Stabilities”, J. Phys. Chem. B 118, 2366–2376, 2014.
    http://pubs.acs.org/doi/abs/10.1021/jp501041m
  • Childs-Disney, J. L., Stepniak-Konieczna E., Tran, T., Yildirim, I., Park, H., Chen., C. Z., Hoskins, J., Southall, N., Marugan, J. J., Patnaik, S., Zheng, W., Austin, C. P., Schatz, G. C., Sobczak, K., Thornton, C. A., Disney, M. D., “Induction and Reversal of Myotonic Dystrophy Type 1 Pre-mRNA Splicing Defects by Small Molecules”, Nat. Commun. 4, 2044, 2013.
    http://www.nature.com/ncomms/2013/130628/ncomms3044/full/ncomms3044.html

Other Information

Member, American Chemical Society