Perez Group

Perez group is from Department of Chemistry and Quantum Theory Project University of Florida, Gainesville.
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Publications:

  1. MacCallum JL, Perez A, Dill KA. Determining protein structures by combining semireliable data with atomistic physical models by Bayesian inference. Proc Natl Acad Sci U S A. 2015 Jun 2;112(22):6985-90.
  2. Perez A, MacCallum JL, Dill KA. Accelerating molecular simulations of proteins using Bayesian inference on weak information. Proc Natl Acad Sci U S A. 2015 Sep 22;112(38):11846-51.
  3. Perez A, Morrone JA, Brini E, MacCallum JL, Dill KA. Blind protein structure prediction using accelerated free-energy simulations. Sci Adv. 2016 Nov 11;2(11):e1601274. doi: 10.1126/sciadv.1601274.
  4. Ivani I, Dans PD, Noy A, Pérez A, Faustino I, Hospital A, Walther J, Andrio P, Goñi R, Balaceanu A, Portella G, Battistini F, Gelpí JL, González C, Vendruscolo M, Laughton CA, Harris SA, Case DA, Orozco M. Parmbsc1: a refined force field for DNA simulations. Nat Methods. 2016 Jan;13(1):55-8. doi: 10.1038/nmeth.3658. Epub 2015 Nov 16.
  5. Pérez A, Marchán I, Svozil D, Sponer J, Cheatham TE 3rd, Laughton CA, Orozco M. Refinement of the AMBER force field for nucleic acids: improving the description of alpha/gamma conformers. Biophys J. 2007 Jun 1;92(11):3817-29. doi: 10.1529/biophysj.106.097782. Epub 2007 Mar 9.
  6. Nguyen H, Pérez A, Bermeo S, Simmerling C. Refinement of Generalized Born Implicit Solvation Parameters for Nucleic Acids and Their Complexes with Proteins. J Chem Theory Comput. 2015 Aug 11;11(8):3714-28.