Křenek A - Search Results

1

αCharges: partial atomic charges for AlphaFold structures in high quality.

Schindler O, Berka K, Cantara A, Křenek A, Tichý D, Raček T, Svobodová R. Schindler O, et al. Among authors: krenek a. Nucleic Acids Res. 2023 Jul 5;51(W1):W11-W16. doi: 10.1093/nar/gkad349. Nucleic Acids Res. 2023. PMID: 37158246 Free PMC article.

2

High-quality and universal empirical atomic charges for chemoinformatics applications.

Geidl S, Bouchal T, Raček T, Svobodová Vařeková R, Hejret V, Křenek A, Abagyan R, Koča J. Geidl S, et al. Among authors: krenek a. J Cheminform. 2015 Dec 2;7:59. doi: 10.1186/s13321-015-0107-1. eCollection 2015. J Cheminform. 2015. PMID: 26633997 Free PMC article.

3

NEEMP: software for validation, accurate calculation and fast parameterization of EEM charges.

Raček T, Pazúriková J, Svobodová Vařeková R, Geidl S, Křenek A, Falginella FL, Horský V, Hejret V, Koča J. Raček T, et al. Among authors: krenek a. J Cheminform. 2016 Oct 17;8:57. doi: 10.1186/s13321-016-0171-1. eCollection 2016. J Cheminform. 2016. PMID: 27803746 Free PMC article.

4

Collective Variable for Metadynamics Derived From AlphaFold Output.

Spiwok V, Kurečka M, Křenek A. Spiwok V, et al. Among authors: krenek a. Front Mol Biosci. 2022 Jun 13;9:878133. doi: 10.3389/fmolb.2022.878133. eCollection 2022. Front Mol Biosci. 2022. PMID: 35769910 Free PMC article.

5

Property Map Collective Variable as a Useful Tool for a Force Field Correction.

Trapl D, Krupička M, Višňovský V, Hozzová J, Ol'ha J, Křenek A, Spiwok V. Trapl D, et al. Among authors: krenek a. J Chem Inf Model. 2022 Feb 14;62(3):567-576. doi: 10.1021/acs.jcim.1c00651. Epub 2022 Feb 3. J Chem Inf Model. 2022. PMID: 35112877

6

Reducing the number of mean-square deviation calculations with floating close structure in metadynamics.

Pazúriková J, Křenek A, Spiwok V, Šimková M. Pazúriková J, et al. Among authors: krenek a. J Chem Phys. 2017 Mar 21;146(11):115101. doi: 10.1063/1.4978296. J Chem Phys. 2017. PMID: 28330370

7

Nonlinear vs. linear biasing in Trp-cage folding simulations.

Spiwok V, Oborský P, Pazúriková J, Křenek A, Králová B. Spiwok V, et al. Among authors: krenek a. J Chem Phys. 2015 Mar 21;142(11):115101. doi: 10.1063/1.4914828. J Chem Phys. 2015. PMID: 25796266

8

Genome assembly and annotation for red clover (Trifolium pratense; Fabaceae).

Istvánek J, Jaros M, Krenek A, Řepková J. Istvánek J, et al. Among authors: krenek a. Am J Bot. 2014 Feb;101(2):327-37. doi: 10.3732/ajb.1300340. Epub 2014 Feb 5. Am J Bot. 2014. PMID: 24500806 Free article.

9

The EurOPDX Data Portal: an open platform for patient-derived cancer xenograft data sharing and visualization.

Dudová Z, Conte N, Mason J, Stuchlík D, Peša R, Halmagyi C, Perova Z, Mosaku A, Thorne R, Follette A, Pivarč Ľ, Šašinka R, Usman M, Neuhauser S, Begley DA, Krupke DM, Frassà M, Fiori A, Corsi R, Vezzadini L, Isella C, Bertotti A, Bult C, Parkinson H, Medico E, Meehan T, Křenek A. Dudová Z, et al. Among authors: krenek a. BMC Genomics. 2022 Feb 22;23(1):156. doi: 10.1186/s12864-022-08367-1. BMC Genomics. 2022. PMID: 35193494 Free PMC article.

10

Identification of "BRAF-Positive" Cases Based on Whole-Slide Image Analysis.

Popovici V, Křenek A, Budinská E. Popovici V, et al. Among authors: krenek a. Biomed Res Int. 2017;2017:3926498. doi: 10.1155/2017/3926498. Epub 2017 Apr 24. Biomed Res Int. 2017. PMID: 28523274 Free PMC article.

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