Stern HA - Search Results

1

Antigenic cartography of H1N1 influenza viruses using sequence-based antigenic distance calculation.

Anderson CS, McCall PR, Stern HA, Yang H, Topham DJ. Anderson CS, et al. Among authors: stern ha. BMC Bioinformatics. 2018 Feb 12;19(1):51. doi: 10.1186/s12859-018-2042-4. BMC Bioinformatics. 2018. PMID: 29433425 Free PMC article.

2

Revised RNA Dihedral Parameters for the Amber Force Field Improve RNA Molecular Dynamics.

Aytenfisu AH, Spasic A, Grossfield A, Stern HA, Mathews DH. Aytenfisu AH, et al. Among authors: stern ha. J Chem Theory Comput. 2017 Feb 14;13(2):900-915. doi: 10.1021/acs.jctc.6b00870. Epub 2017 Jan 24. J Chem Theory Comput. 2017. PMID: 28048939 Free PMC article.

3

Accelerating calculations of RNA secondary structure partition functions using GPUs.

Stern HA, Mathews DH. Stern HA, et al. Algorithms Mol Biol. 2013 Nov 1;8(1):29. doi: 10.1186/1748-7188-8-29. Algorithms Mol Biol. 2013. PMID: 24180434 Free PMC article.

4

Reparameterization of RNA chi Torsion Parameters for the AMBER Force Field and Comparison to NMR Spectra for Cytidine and Uridine.

Yildirim I, Stern HA, Kennedy SD, Tubbs JD, Turner DH. Yildirim I, et al. Among authors: stern ha. J Chem Theory Comput. 2010 May 11;6(5):1520-1531. doi: 10.1021/ct900604a. Epub 2010 Apr 16. J Chem Theory Comput. 2010. PMID: 20463845 Free PMC article.

5

Benchmarking AMBER force fields for RNA: comparisons to NMR spectra for single-stranded r(GACC) are improved by revised χ torsions.

Yildirim I, Stern HA, Tubbs JD, Kennedy SD, Turner DH. Yildirim I, et al. Among authors: stern ha. J Phys Chem B. 2011 Jul 28;115(29):9261-70. doi: 10.1021/jp2016006. Epub 2011 Jul 1. J Phys Chem B. 2011. PMID: 21721539 Free PMC article.

6

Effects of Restrained Sampling Space and Nonplanar Amino Groups on Free-Energy Predictions for RNA with Imino and Sheared Tandem GA Base Pairs Flanked by GC, CG, iGiC or iCiG Base Pairs.

Yildirim I, Stern HA, Sponer J, Spackova N, Turner DH. Yildirim I, et al. Among authors: stern ha. J Chem Theory Comput. 2009 Aug 11;5(8):2088-2100. doi: 10.1021/ct800540c. Epub 2009 Jul 2. J Chem Theory Comput. 2009. PMID: 20090924 Free PMC article.

7

Revision of AMBER Torsional Parameters for RNA Improves Free Energy Predictions for Tetramer Duplexes with GC and iGiC Base Pairs.

Yildirim I, Kennedy SD, Stern HA, Hart JM, Kierzek R, Turner DH. Yildirim I, et al. Among authors: stern ha. J Chem Theory Comput. 2012 Jan 10;8(1):172-181. doi: 10.1021/ct200557r. Epub 2011 Dec 1. J Chem Theory Comput. 2012. PMID: 22249447 Free PMC article.

8

Accounting for ligand conformational restriction in calculations of protein-ligand binding affinities.

Gao C, Park MS, Stern HA. Gao C, et al. Among authors: stern ha. Biophys J. 2010 Mar 3;98(5):901-10. doi: 10.1016/j.bpj.2009.11.018. Biophys J. 2010. PMID: 20197044 Free PMC article.

9

Development of a polarizable force field for proteins via ab initio quantum chemistry: first generation model and gas phase tests.

Kaminski GA, Stern HA, Berne BJ, Friesner RA, Cao YX, Murphy RB, Zhou R, Halgren TA. Kaminski GA, et al. Among authors: stern ha. J Comput Chem. 2002 Dec;23(16):1515-31. doi: 10.1002/jcc.10125. J Comput Chem. 2002. PMID: 12395421 Free PMC article.

10

Controlled oxidation of remote sp3 C-H bonds in artemisinin via P450 catalysts with fine-tuned regio- and stereoselectivity.

Zhang K, Shafer BM, Demars MD 2nd, Stern HA, Fasan R. Zhang K, et al. Among authors: stern ha. J Am Chem Soc. 2012 Nov 14;134(45):18695-704. doi: 10.1021/ja3073462. Epub 2012 Nov 2. J Am Chem Soc. 2012. PMID: 23121379 Free PMC article.

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