Publikace

Cassone, G., Creazzo, F., Giaquinta, PV., Saija, F., Saitta, AM. (2016), Ab initio molecular dynamics study of an aqueous NaCl solution under an electric field, PHYSICAL CHEMISTRY CHEMICAL PHYSICS 18, 23164-23173

Lasorsa, A., Stuchlikova, O., Brabec, V., Natile, G., Arnesano, F. (2016), Activation of Platinum(IV) Prodrugs by Cytochrome c and Characterization of the Protein Binding Sites, MOLECULAR PHARMACEUTICS 13, 3216-3223

Trifonov, EN., Kejnovsky, E. (2016), Acytota - associated kingdom of neglected life, JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS 34, 1641-1648

Franek, M., Suchankova, J., Sehnalova, P., Krejci, J., Legartova, S., Kozubek, S., Vecera, J., Sorokin, DV., Bartova, E. (2016), Advanced Image Acquisition and Analytical Techniques for Studies of Living Cells and Tissue Sections, MICROSCOPY AND MICROANALYSIS 22, 326-341

Fajkus, P., Peška, V., Sitová, Z., Fulnečková, J., Dvořáčková, M., Gogela, R., Sýkorová, E., Hapala, J., Fajkus, J. (2016), Allium telomeres unmasked: the unusual telomeric sequence (CTCGGTTATGGG)n is synthesized by telomerase., PLANT JOURNAL

Pracharova, J., Muchova, TR., Tomastikova, ED., Intini, FP., Pacifico, C., Natile, G., Kasparkova, J., Brabec, V. (2016), Anticancer potential of a photoactivated transplatin derivative containing the methylazaindole ligand mediated by ROS generation and DNA cleavage, DALTON TRANSACTIONS 45, 13179-13186

Kucera, J., Bino, L., Stefkova, K., Jaros, J., Vasicek, O., Vecera, J., Kubala, L., Pachernik, J. (2016), Apocynin and Diphenyleneiodonium Induce Oxidative Stress and Modulate PI3K/Akt and MAPK/Erk Activity in Mouse Embryonic Stem Cells, OXIDATIVE MEDICINE AND CELLULAR LONGEVITY

Josypcuk, O., Fojta, M., Danhel, A., Josypcuk, B. (2016), Applying Mesoporous Silica SBA-15 in Electrochemical Detection of DNA Hybridization, ELECTROANALYSIS 28, 1860-1864

Galindo-Murillo, R., Robertson, JC., Zgarbova, M., Sponer, J., Otyepka, M., Jurecka, P., Cheatham, TE. (2016), Assessing the Current State of Amber Force Field Modifications for DNA, JOURNAL OF CHEMICAL THEORY AND COMPUTATION 12, 4114-4127

Wang, WC., Ma, L., Becher, H., Garcia, S., Kovarikova, A., Leitch, IJ., Leitch, AR., Kovarik, A. (2016), Astonishing 35S rDNA diversity in the gymnosperm species Cycas revoluta Thunb, CHROMOSOMA 125, 683-699

Janovska, P., Poppova, L., Plevova, K., Plesingerova, H., Behal, M., Kaucka, M., Ovesna, P., Hlozkova, M., Borsky, M., Stehlikova, O., Brychtova, Y., Doubek, M., Machalova, M., Baskar, S., Kozubik, A., Pospisilova, S., Pavlova, S., Bryja, V. (2016), Autocrine Signaling by Wnt-5a Deregulates Chemotaxis of Leukemic Cells and Predicts Clinical Outcome in Chronic Lymphocytic Leukemia, CLINICAL CANCER RESEARCH 22, 459-469

Islam, B., Stadlbauer, P., Neidle, S., Haider, S., Sponer, J. (2016), Can We Execute Reliable MM-PBSA Free Energy Computations of Relative Stabilities of Different Guanine Quadruplex Folds?, JOURNAL OF PHYSICAL CHEMISTRY B 120, 2899-2912

Olszewska, A., Pohl, R., Brazdova, M., Fojta, M., Hocek, M. (2016), Chloroacetamide-Linked Nucleotides and DNA for Cross-Linking with Peptides and Proteins, BIOCONJUGATE CHEMISTRY 27, 2089-2094

Kuhrova, P., Best, RB., Bottaro, S., Bussi, G., Sponer, J., Otyepka, M., Banas, P. (2016), Computer Folding of RNA Tetraloops: Identification of Key Force Field Deficiencies, JOURNAL OF CHEMICAL THEORY AND COMPUTATION 12, 4534-4548

Gkionis, K., Kruse, H., Sponer, J. (2016), Derivation of Reliable Geometries in QM Calculations of DNA Structures: Explicit Solvent QM/MM and Restrained Implicit Solvent QM Optimizations of G-Quadruplexes, JOURNAL OF CHEMICAL THEORY AND COMPUTATION 12, 2000-2016

Rumlova, T., Kabatova, A., Fojta, M., Barek, J. (2016), Determination of 2-nitrophenol using carbon film electrode, MONATSHEFTE FUR CHEMIE 147, 173-179

Cervenka, I., Valnohova, J., Bernatik, O., Harnos, J., Radsetoulal, M., Sedova, K., Hanakova, K., Potesil, D., Sedlackova, M., Salasova, A., Steinhart, Z., Angers, S., Schulte, G., Hampl, A., Zdrahal, Z., Bryja, V. (2016), Dishevelled is a NEK2 kinase substrate controlling dynamics of centrosomal linker proteins, PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 113, 9304-9309

Dorcak, V., Kabelac, M., Kroutil, O., Bednarova, K., Vacek, J. (2016), Electrocatalytic monitoring of peptidic proton-wires, ANALYST 141, 4554-4557

Dudova, Z., Spacek, J., Tomasko, M., Havran, L., Pivonkova, H., Fojta, M. (2016), Electrochemical behavior of 7-deazaguanine- and 7-deazaadenine-modified DNA at the hanging mercury drop electrode, MONATSHEFTE FUR CHEMIE 147, 3-11

Vargova, V., Helma, R., Palecek, E., Ostatna, V. (2016), Electrochemical sensing of concanavalin A and ovalbumin interaction in solution, ANALYTICA CHIMICA ACTA 935, 97-103

Fojt, L., Fojta, M., Holub, J., Gruner, B., Vespalec, R. (2016), Electrochemistry of different boranes, carbaboranes and their exo-skeletal hydroxy derivatives at the graphite carbon electrode in aqueous phosphate buffers, ELECTROCHIMICA ACTA 205, 8-14

Sponer, JE., Sponer, J., Novakova, O., Brabec, V., Sedo, O., Zdrahal, Z., Costanzo, G., Pino, S., Saladino, R., Di Mauro, E. (2016), Emergence of the First Catalytic Oligonucleotides in a Formamide-Based Origin Scenario, CHEMISTRY-A EUROPEAN JOURNAL 22, 3572-3586

Medrikova, Z., Novohradsky, V., Zajac, J., Vrana, O., Kasparkova, J., Bakandritsos, A., Petr, M., Zboril, R., Brabec, V. (2016), Enhancing Tumor Cell Response to Chemotherapy through the Targeted Delivery of Platinum Drugs Mediated by Highly Stable, Multifunctional Carboxymethylcellulose-Coated Magnetic Nanoparticles, CHEMISTRY-A EUROPEAN JOURNAL 22, 9750-9759

Vondracek, J., Machala, M. (2016), Environmental Ligands of the Aryl Hydrocarbon Receptor and Their Effects in Models of Adult Liver Progenitor Cells, STEM CELLS INTERNATIONAL

Sponer, JE., Sponer, J., Di Mauro, E. (2016), Four Ways to Oligonucleotides Without Phosphoimidazolides, JOURNAL OF MOLECULAR EVOLUTION 82, 5-10

Fruciano, C., Franchini, P., Kovacova, V., Elmer, KR., Henning, F., Meyer, A. (2016), Genetic linkage of distinct adaptive traits in sympatrically speciating crater lake cichlid fish, NATURE COMMUNICATIONS 7

Kudova, J., Prochazkova, J., Vasicek, O., Perecko, T., Sedlackova, M., Pesl, M., Pachernik, J., Kubala, L. (2016), HIF-1alpha Deficiency Attenuates the Cardiomyogenesis of Mouse Embryonic Stem Cells, PLOS ONE 11

Haronikova, L., Coufal, J., Kejnovska, I., Jagelska, EB., Fojta, M., Dvorakova, P., Muller, P., Vojtesek, B., Brazda, V. (2016), IFI16 Preferentially Binds to DNA with Quadruplex Structure and Enhances DNA Quadruplex Formation, PLOS ONE 11

Nesporova, K., Sogorkova, J., Smejkalova, D., Kulhanek, J., Huerta-Angeles, G., Kubala, L., Velebny, V. (2016), Influence of serum albumin on intracellular delivery of drug-loaded hyaluronan polymeric micelles, INTERNATIONAL JOURNAL OF PHARMACEUTICS 511, 638-647

Brabec, V., Kasparkova, J., Kostrhunova, H., Farrell, NP. (2016), Inhibition of nuclear factor kappaB proteins-platinated DNA interactions correlates with cytotoxic effectiveness of the platinum complexes, SCIENTIFIC REPORTS 6

Gimenez, RE., Vargova, V., Rey, V., Turbay, MBE., Abatedaga, I., Vieyra, FEM., Zanini, VIP., Ortiz, JHM., Katz, NE., Ostatna, V., Borsarelli, CD. (2016), Interaction of singlet oxygen with bovine serum albumin and the role of the protein nano-compartmentalization, FREE RADICAL BIOLOGY AND MEDICINE 94, 99-109

Dudova, Z., Spacek, J., Havran, L., Pivonkova, H., Fojta, M. (2016), Interactions of fluorescent dye SYBR Green I with natural and 7-deazaguanine-modified DNA studied by fluorescence and electrochemical methods, MONATSHEFTE FUR CHEMIE 147, 13-20

Vrana, O., Novohradsky, V., Medrikova, Z., Burdikova, J., Stuchlikova, O., Kasparkova, J., Brabec, V. (2016), Internalization of Ineffective Platinum Complex in Nanocapsules Renders It Cytotoxic, CHEMISTRY-A EUROPEAN JOURNAL 22, 2728-2735

Matyasek, R., Dobesova, E., Huska, D., Jezkova, I., Soltis, PS., Soltis, DE., Kovarik, A. (2016), Interpopulation hybridization generates meiotically stable rDNA epigenetic variants in allotetraploid Tragopogon mirus, PLANT JOURNAL 85, 362-377

Malina, J., Hannon, MJ., Brabec, V. (2016), Iron(II) supramolecular helicates interfere with the HIV-1 Tat-TAR RNA interaction critical for viral replication, SCIENTIFIC REPORTS 6

Palecek, E. (2016), Label-free electrochemical analysis of chitosan and glucosamine-containing oligosaccharides, ELECTROCHIMICA ACTA 187, 375-380

Vargova, V., Gimenez, RE., Cernocka, H., Trujillo, DC., Tulli, F., Zanini, VIP., Palecek, E., Borsarelli, CD., Ostatna, V. (2016), Label-free electrochemical detection of singlet oxygen protein damage, ELECTROCHIMICA ACTA 187, 662-669

Legartova, S., Sehnalova, P., Malyskova, B., Kuntziger, T., Collas, P., Cmarko, D., Raska, I., Sorokin, DV., Kozubek, S., Bartova, E. (2016), Localized Movement and Levels of 53BP1 Protein Are Changed by gamma-irradiation in PML Deficient Cells, JOURNAL OF CELLULAR BIOCHEMISTRY 117, 2583-2596

Kremserova, S., Perecko, T., Soucek, K., Klinke, A., Baldus, S., Eiserich, JP., Kubala, L. (2016), Lung Neutrophilia in Myeloperoxidase Deficient Mice during the Course of Acute Pulmonary Inflammation, OXIDATIVE MEDICINE AND CELLULAR LONGEVITY

Rebic, M., Laaksonen, A., Sponer, J., Ulicny, J., Mocci, F. (2016), Molecular Dynamics Simulation Study of Parallel Telomeric DNA Quadruplexes at Different Ionic Strengths: Evaluation of Water and Ion Models, JOURNAL OF PHYSICAL CHEMISTRY B 120, 7380-7391

Rudolph, TK., Ravekes, T., Klinke, A., Friedrichs, K., Mollenhauer, M., Pekarova, M., Ambrozova, G., Martiskova, H., Kaur, JJ., Matthes, B., Schwoerer, A., Woodcock, SR., Kubala, L., Freeman, BA., Baldus, S., Rudolph, V. (2016), Nitrated fatty acids suppress angiotensin II-mediated fibrotic remodelling and atrial fibrillation, CARDIOVASCULAR RESEARCH 109, 174-184

Ambrozova, G., Fidlerova, T., Verescakova, H., Koudelka, A., Rudolph, TK., Woodcock, SR., Freeman, BA., Kubala, L., Pekarova, M. (2016), Nitro-oleic acid inhibits vascular endothelial inflammatory responses and the endothelial-mesenchymal transition, BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS 1860, 2428-2437

Ambrozova, G., Martiskova, H., Koudelka, A., Ravekes, T., Rudolph, TK., Klinke, A., Rudolph, V., Freeman, BA., Woodcock, SR., Kubala, L., Pekarova, M. (2016), Nitro-oleic acid modulates classical and regulatory activation of macrophages and their involvement in pro-fibrotic responses, FREE RADICAL BIOLOGY AND MEDICINE 90, 252-260

Drsata, T., Zgarbova, M., Jurecka, P., Sponer, J., Lankas, F. (2016), On the Use of Molecular Dynamics Simulations for Probing Allostery through DNA, BIOPHYSICAL JOURNAL 110, 874-876

Brazda, V., Kolomaznik, J., Lysek, J., Haronikova, L., Coufal, J., St'astny, J. (2016), Palindrome analyser - A new web-based server for predicting and evaluating inverted repeats in nucleotide sequences, BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS 478, 1739-1745

Huska, D., Leitch, IJ., de Carvalho, JF., Leitch, AR., Salmon, A., Ainouche, M., Kovarik, A. (2016), Persistence, dispersal and genetic evolution of recently formed Spartina homoploid hybrids and allopolyploids in Southern England, BIOLOGICAL INVASIONS 18, 2137-2151

Brabec, V., Pracharova, J., Stepankova, J., Sadler, PJ., Kasparkova, J. (2016), Photo-induced DNA cleavage and cytotoxicity of a ruthenium(II) arene anticancer complex, JOURNAL OF INORGANIC BIOCHEMISTRY 160, 149-155

Johnova, P., Skalak, J., Saiz-Fernandez, I., Brzobohaty, B. (2016), Plant responses to ambient temperature fluctuations and water-limiting conditions: A proteome-wide perspective, BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 1864, 916-931

Zajac, J., Kostrhunova, H., Novohradsky, V., Vrana, O., Raveendran, R., Gibson, D., Kasparkova, J., Brabec, V. (2016), Potentiation of mitochondrial dysfunction in tumor cells by conjugates of metabolic modulator dichloroacetate with a Pt(IV) derivative of oxaliplatin, JOURNAL OF INORGANIC BIOCHEMISTRY 156, 89-97

Sponer, JE., Szabla, R., Gora, RW., Saitta, AM., Pietrucci, F., Saija, F., Di Mauro, E., Saladino, R., Ferus, M., Civis, S., Sponer, J. (2016), Prebiotic synthesis of nucleic acids and their building blocks at the atomic level - merging models and mechanisms from advanced computations and experiments, PHYSICAL CHEMISTRY CHEMICAL PHYSICS 18, 20047-20066

Raveendran, R., Braude, JP., Wexselblatt, E., Novohradsky, V., Stuchlikova, O., Brabec, V., Gandin, V., Gibson, D. (2016), Pt(IV) derivatives of cisplatin and oxaliplatin with phenylbutyrate axial ligands are potent cytotoxic agents that act by several mechanisms of action, CHEMICAL SCIENCE 7, 2381-2391

Brenerova, P., Hamers, T., Kamstra, JH., Vondracek, J., Strapacova, S., Andersson, PL., Machala, M. (2016), Pure non-dioxin-like PCB congeners suppress induction of AhR-dependent endpoints in rat liver cells, ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH 23, 2099-2107

Fojta, M., Danhel, A., Havran, L., Vyskocil, V. (2016), Recent progress in electrochemical sensors and assays for DNA damage and repair, TRAC-TRENDS IN ANALYTICAL CHEMISTRY 79, 160-167

Cerny, M., Novak, J., Habanova, H., Cerna, H., Brzobohaty, B. (2016), Role of the proteome in phytohormonal signaling, BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 1864, 1003-1015

Brazda, V., Haronikova, L., Liao, JCC., Fridrichova, H., Jagelska, EB. (2016), Strong preference of BRCA1 protein to topologically constrained non-B DNA structures, BMC MOLECULAR BIOLOGY 17

Krepl, M., Clery, A., Blatter, M., Allain, FHT., Sponer, J. (2016), Synergy between NMR measurements and MD simulations of protein/RNA complexes: application to the RRMs, the most common RNA recognition motifs, NUCLEIC ACIDS RESEARCH 44, 6452-6470

Kruspig, B., Valter, K., Skender, B., Zhivotovsky, B., Gogvadze, V. (2016), Targeting succinate:ubiquinone reductase potentiates the efficacy of anticancer therapy, BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH 1863, 2065-2071

Schrumpfova, PP., Vychodilova, I., Hapala, J., Schorova, S., Dvoracek, V., Fajkus, J. (2016), Telomere binding protein TRB1 is associated with promoters of translation machinery genes in vivo, PLANT MOLECULAR BIOLOGY 90, 189-206

Schrumpfova, PP., Schorova, S., Fajkus, J. (2016), Telomere- and Telomerase-Associated Proteins and Their Functions in the Plant Cell, FRONTIERS IN PLANT SCIENCE 7

Simkova, D., Kharaishvili, G., Korinkova, G., Ozdian, T., Suchankova-Kleplova, T., Soukup, T., Krupka, M., Galandakova, A., Dzubak, P., Janikova, M., Navratil, J., Kahounova, Z., Soucek, K., Bouchal, J. (2016), The dual role of asporin in breast cancer progression, ONCOTARGET 7, 52045-52060

Rodriguez JL, Valledor L, Hasbun R, Sanchez P, Rodriguez R, Canal MJ (2016), The effects of hormone treatment on epigenetic marks during organogenesis in Pinus radiata D. Don embryos, JOURNAL OF PLANT GROWTH REGULATION

Bartova, E., Vecera, J., Krejci, J., Legartova, S., Pachernik, J., Kozubek, S. (2016), The level and distribution pattern of HP1 beta in the embryonic brain correspond to those of H3K9me1/me2 but not of H3K9me3, HISTOCHEMISTRY AND CELL BIOLOGY 145, 447-461

Fulnecek, J., Matyasek, R. (2016), The origin of exon 3 skipping of paternal GLOBOSA pre-mRNA in some Nicotiana tabacum lines correlates with a point mutation of the very last nucleotide of the exon, MOLECULAR GENETICS AND GENOMICS 291, 801-818

Bino, L., Kucera, J., Stefkova, K., Sindlerova, LS., Lanova, M., Kudova, J., Kubala, L., Pachernik, J. (2016), The stabilization of hypoxia inducible factor modulates differentiation status and inhibits the proliferation of mouse embryonic stem cells, CHEMICO-BIOLOGICAL INTERACTIONS 244, 204-214

Civis, S., Szabla, R., Szyja, BM., Smykowski, D., Ivanek, O., Knizek, A., Kubelik, P., Sponer, J., Ferus, M., Sponer, JE. (2016), TiO2-catalyzed synthesis of sugars from formaldehyde in extraterrestrial impacts on the early Earth, SCIENTIFIC REPORTS 6

Fulneckova, J., Sevcikova, T., Lukesova, A., Sykorova, E. (2016), Transitions between the Arabidopsis-type and the human-type telomere sequence in green algae (clade Caudivolvoxa, Chlamydomonadales), CHROMOSOMA 125, 437-451

Hofer, M., Falk, M., Komurkova, D., Falkova, I., Bacikova, A., Klejdus, B., Pagacova, E., Stefancikova, L., Weiterova, L., Angelis, KJ., Kozubek, S., Dusek, L., Galbavy, S. (2016), Two New Faces of Amifostine: Protector from DNA Damage in Normal Cells and Inhibitor of DNA Repair in Cancer Cells, JOURNAL OF MEDICINAL CHEMISTRY 59, 3003-3017

Szabla, R., Gora, RW., Sponer, J. (2016), Ultrafast excited-state dynamics of isocytosine, PHYSICAL CHEMISTRY CHEMICAL PHYSICS 18, 20208-20218

Danhel, A., Trosanova, Z., Balintova, J., Havran, L., Hocek, M., Barek, J., Fojta, M. (2016), Voltammetric analysis of 5-(4-Azidophenyl)-2 '-deoxycytidine nucleoside and azidophenyl-labelled single- and double-stranded DNAs, ELECTROCHIMICA ACTA 215, 72-83

Parajdi-Losonczi, PL., Benyei, AC., Kovats, E., Timari, I., Muchova, TR., Novohradsky, V., Kasparkova, J., Buglyo, P. (2016), [(eta(6)-p-cymene)Ru(H2O)(3)](2+) binding capability of aminohydroxamates - A solution and solid state study, JOURNAL OF INORGANIC BIOCHEMISTRY 160, 236-245

Adamik, M., Kejnovska, I., Bazantova, P., Petr, M., Renciuk, D., Vorlickova, M., Brazdova, M. (2016), p53 binds human telomeric G-quadruplex in vitro, BIOCHIMIE 128, 83-91