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4. Association of selected adipokines with vitamin D deficiency in children with inflammatory bowel disease

Author

Milos Geryk, Veronika Kucerova, Maria Velganova-Veghova, Hana Foltenova, Katerina Bouchalova, David Karasek, Martin Radvansky Jr., and Eva Karaskova

Subjects
Inflammatory bowel disease, Adiponectin, Resistin, Retinol-binding protein 4, Adipocyte fatty acid binding protein, Nesfatin-1, Pediatrics, RJ1-570
Abstract

Abstract Background Adipose tissue is significantly involved in inflammatory bowel disease (IBD). Vitamin D can affect both adipogenesis and inflammation. The aim of this study was to compare the production of selected adipokines, potentially involved in the pathogenesis of IBD - adiponectin, resistin, retinol binding protein 4 (RBP-4), adipocyte fatty acid binding protein and nesfatin-1 in children with IBD according to the presence of 25-hydroxyvitamin D (25(OH)D) deficiency. Methods The study was conducted as a case-control study in pediatric patients with IBD and healthy children of the same sex and age. In addition to adipokines and 25(OH)D, anthropometric parameters, markers of inflammation and disease activity were assessed in all participants. Results Children with IBD had significantly higher resistin levels regardless of 25(OH)D levels. IBD patients with 25(OH)D deficiency only had significantly lower RBP-4 compared to healthy controls and also compared to IBD patients without 25(OH)D deficiency. No other significant differences in adipokines were found in children with IBD with or without 25(OH)D deficiency. 25(OH)D levels in IBD patients corelated with RBP-4 only, and did not correlate with other adipokines. Conclusions Whether the lower RBP-4 levels in the 25(OH)D-deficient group of IBD patients directly reflect vitamin D deficiency remains uncertain. The production of other adipokines does not appear to be directly related to vitamin D deficiency.

Published
2024
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6. Safety of tartrazine in the food industry and potential protective factors

Author

Petra Amchova, Filip Siska, and Jana Ruda-Kucerova

Subjects
Toxicity, Food color, Food dye, Safety, Protective factors, Tartrazine, Science (General), Q1-390, Social sciences (General), H1-99
Abstract

Tartrazine belongs to the colors raising significant concerns regarding consumer safety at low doses relevant for real-life human exposure. Scientific literature continues to grow after the European Food Safety Authority (EFSA) re-evaluation in 2009 and the Joint FAO/WHO Expert Committee on Food Additives (JECFA) in 2016. Therefore, this review aims to collect recent knowledge on the toxicity issues of tartrazine, namely its genotoxicity, cytotoxicity, carcinogenicity, reproductive, developmental, and neurotoxicity, alterations of blood biochemical parameters, and hematotoxicity. The second part of the review covers the potential protective factors against the toxic effects of tartrazine based on the hypothesis of mitigation of oxidative stress induced by the color. The reviewed protective factors are crocin, royal jelly, fish oil, honey, acetylsalicylic acid, black caraway, blackthorn, turmeric, vitamin E, and riboflavin. This review concludes that tartrazine seems safe under the current acceptable daily intake (ADI) and the evidence on the potential protective factors is insufficient to reach any conclusion regarding their use.

Published
2024
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7. HIKE, High Intensity Kaon Experiments at the CERN SPS

Author

Gil, E. Cortina, Jerhot, J., Lurkin, N., Numao, T., Velghe, B., Wong, V. W. S., Bryman, D., Bician, L., Hives, Z., Husek, T., Kampf, K., Koval, M., Akmete, A. T., Aliberti, R., Büscher, V., Di Lella, L., Doble, N., Peruzzo, L., Schott, M., Wahl, H., Wanke, R., Döbrich, B., Montalto, L., Rinaldi, D., Dettori, F., Cardini, A., Lai, A., Bomben, L., Carsi, S., Prest, M., Selmi, A., Lezzani, G., Monti-Guarnieri, P., Perna, L., Dalpiaz, P., Guidi, V., Mazzolari, A., Neri, I., Petrucci, F., Soldani, M., Bandiera, L., Ramusino, A. Cotta, Gianoli, A., Romagnoni, M., Sytov, A., Lenti, M., Panichi, I., Ruggiero, G., Bizzeti, A., Bucci, F., Antonelli, A., Di Meco, E., Lanfranchi, G., Martellotti, S., Martini, M., Moulson, M., Paesani, D., Sarra, I., Spadaro, T., Tinti, G., Vallazza, E., Ambrosino, F., Giordano, R., Massarotti, P., Napolitano, M., Saracino, G., Di Donato, C., D'Ambrosio, G., D'Errico, M., Mirra, M., Neshatpour, S., Fiorenza, R., Rosa, I., De Salvador, D., Sgarbossa, F., Anzivino, G., Germani, S., Volpe, R., Cenci, P., Cutini, S., Duk, V., Lubrano, P., Pepe, M., Piccini, M., Costantini, F., Donati, S., Giorgi, M., Giudici, S., Lamanna, G., Pedreschi, E., Pinzino, J., Sozzi, M., Fantechi, R., Giusti, V., Spinella, F., Mannelli, I., Raggi, M., Biagioni, A., Cretaro, P., Frezza, O., Cicero, F. Lo, Lonardo, A., Turisini, M., Vicini, P., Ammendola, R., Bonaiuto, V., Fucci, A., Salamon, A., Sargeni, F., Arcidiacono, R., Bloch-Devaux, B., Menichetti, E., Migliore, E., Biino, C., Marchetto, F., Baigarashev, D., Kambar, Y., Kereibay, D., Mukhamejanov, Y., Sakhiyev, S., Olvera, A. Briano, Engelfried, J., Estrada-Tristan, N., Piandani, R., Santos, M. A. Reyes, Rivera, K. A. Rodriguez, Boboc, P. C., Bragadireanu, A. M., Ghinescu, S. A., Hutanu, O. E., Blazek, T., Cerny, V., Kleimenova, A., Kucerova, Z., Santos, D. Martinez, Prouve, C., Boretto, M., Brizioli, F., Ceccucci, A., Corvino, M., Danielsson, H., Duval, F., Gamberini, E., Guida, R., Holzer, E. B., Jenninger, B., Miotto, G. Lehmann, Lichard, P., Massri, K., Minucci, E., Perrin-Terrin, M., Ryjov, V., Swallow, J., Van Dijk, M., Zamkovsky, M., Marchevski, R., Gerbershagen, A., Fry, J. R., Gonnella, F., Goudzovski, E., Henshaw, J., Kenworthy, C., Lazzeroni, C., Parkinson, C., Romano, A., Sanders, J., Shaikhiev, A., Tomczak, A., Heath, H., Britton, D., Norton, A., Protopopescu, D., Dainton, J. B., Jones, R. W. L., De Santo, A., Salvatore, F., Cooper, P., Coward, D., and Rubin, P.

Subjects
High Energy Physics - Experiment, Physics - Instrumentation and Detectors
Abstract

A timely and long-term programme of kaon decay measurements at a new level of precision is presented, leveraging the capabilities of the CERN Super Proton Synchrotron (SPS). The proposed programme is firmly anchored on the experience built up studying kaon decays at the SPS over the past four decades, and includes rare processes, CP violation, dark sectors, symmetry tests and other tests of the Standard Model. The experimental programme is based on a staged approach involving experiments with charged and neutral kaon beams, as well as operation in beam-dump mode. The various phases will rely on a common infrastructure and set of detectors., Comment: Letter of Intent submitted to CERN SPSC. Address all correspondence to hike-eb@cern.ch

Published
2022

8. Chronic citalopram effects on the brain neurochemical profile and perfusion in a rat model of depression detected by the NMR techniques – spectroscopy and perfusion

Author

Iveta Harastova-Pavlova, Eva Drazanova, Lucie Kratka, Petra Amchova, Maria Hrickova, Ondrej Macicek, Jiri Vitous, Radovan Jirik, and Jana Ruda-Kucerova

Subjects
Citalopram, Depression, Brain metabolites, Olfactory bulbectomy, Cerebral perfusion, Rats, Therapeutics. Pharmacology, RM1-950
Abstract

Background: Major depressive disorder (MDD) is a mental illness with a high worldwide prevalence and suboptimal pharmacological treatment, which necessitates the development of novel, more efficacious MDD medication. Nuclear magnetic resonance (NMR) can non-invasively provide insight into the neurochemical state of the brain using proton magnetic resonance spectroscopy (1H MRS), and an assessment of regional cerebral blood flow (rCBF) by perfusion imaging. These methods may provide valuable in vivo markers of the pathological processes underlying MDD. Methods: This study examined the effects of the chronic antidepressant medication, citalopram, in a well-validated MDD model induced by bilateral olfactory bulbectomy (OB) in rats. 1H MRS was utilized to assess key metabolite ratios in the dorsal hippocampus and sensorimotor cortex bilaterally, and arterial spin labelling was employed to estimate rCBF in several additional brain regions. Results: The 1H MRS data results suggest lower hippocampal Cho/tCr and lower cortical NAA/tCr levels as a characteristic of the OB phenotype. Spectroscopy revealed lower hippocampal Tau/tCr in citalopram-treated rats, indicating a potentially deleterious effect of the drug. However, the significant OB model–citalopram treatment interaction was observed using 1H MRS in hippocampal mI/tCr, Glx/tCr and Gln/tCr, indicating differential treatment effects in the OB and control groups. The perfusion data revealed higher rCBF in the whole brain, hippocampus and thalamus in the OB rats, while citalopram appeared to normalise it without affecting the control group. Conclusion: Collectively, 1H MRS and rCBF approaches demonstrated their capacity to capture an OB-induced phenotype and chronic antidepressant treatment effect in multiple brain regions.

Published
2024
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9. Potent synergistic effects of dulaglutide and food restriction in prevention of olanzapine-induced metabolic adverse effects in a rodent model

Author

Katerina Horska, Jan Kucera, Eva Drazanova, Gabriela Kuzminova, Petra Amchova, Maria Hrickova, Jana Ruda-Kucerova, and Silje Skrede

Subjects
Antipsychotic, Olanzapine, metabolic adverse effects, GLP-1 receptor agonist, Schizophrenia, Therapeutics. Pharmacology, RM1-950
Abstract

Background: Antipsychotics are indispensable in the treatment of severe mental illneses, however adverse metabolic effects including diabetes, weight gain, dyslipidemia, and related cardiovascular morbidity are common, and current pharmacological strategies for their management are unsatisfactory. Glucagon-like 1 peptide receptor agonists (GLP-1 RAs) are approved for the treatment of type 2 diabetes and obesity hold promise for the management of antipsychotic-associated adverse metabolic effects. Methods: To characterize the molecular effects and identify biomarkers for GLP-1 RA preventive treatment, Sprague-Dawley female rats were treated with long-acting formulations of the antipsychotic olanzapine and the GLP-1 RA dulaglutide for 8 days. A pair-feeding protocol evaluated the combined effects of dulaglutide and food restriction on an olanzapine-induced metabolic phenotype. Body weight and food consumption were recorded. Biochemical analysis included a lipid profile, a spectrum of gastrointestinal and adipose tissue-derived hormones, and fibroblast growth factor 21 serum levels. Results: Olanzapine induced hyperphagia, weight gain, increased serum triglycerides and HDL cholesterol. Food restriction affected the OLA-induced phenotype but not serum markers. Dulaglutide led to a modest decrease in food intake, with no effect on weight gain, and did not reverse the OLA-induced changes in serum lipid parameters. Concomitant dulaglutide and food restriction resulted in weight loss, decreased feed efficiency, and lower total and HDL cholesterol. Conclusions: A combined strategy of dulaglutide and food restriction manifested a massive synergistic benefit. GLP-1RAs represent a promising strategy and deserve thorough future research. Our findings underline the potential importance of lifestyle intervention in addition to GLP-1 RA treatment.

Published
2024
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10. Identification of the Cohesive Parameters for Modelling of Bonded Joints between Flat Composite Adherends with Thick Layer of Adhesive

Author

Petr Bernardin, Frantisek Sedlacek, Josef Kozak, Ludmila Kucerova, and Vaclava Lasova

Subjects
bonded joint, composite, finite element, Scotch-Weld DP490, damage modeling, identification, Technology, Electrical engineering. Electronics. Nuclear engineering, TK1-9971, Engineering (General). Civil engineering (General), TA1-2040, Microscopy, QH201-278.5, Descriptive and experimental mechanics, QC120-168.85
Abstract

The failure of bonded composite materials is accompanied by specific failure modes. These are specifically Mode I, Mode II, Mode III, and their combination (so-called mixed mode). These modes depend on the direction and type of loading. The mechanical properties describing the damage initiation and the damage evolution are unique according to the type of adhesive and present mode of failure. However, a few research studies have focused on an adhesive thicknesses greater than 0.2 mm. The main objective of this research is to investigate the mechanical properties of a bonded joint with large adhesive thickness loaded according to Modes I and II. The observed failure parameters, the cohesive and damage parameters, are identified by minimizing the difference between the force–displacement diagram obtained from the experimental data for both Mode I and Mode II. The finite element model is confronted with these parameters and is evaluated based on their agreement. Compared to other studies with a small adhesive layer thickness, the values of failure parameters are lower. The results show that the adhesive thickness has an influence on the values of cohesive and damage parameters and that these parameter values decrease significantly compared to a small adhesive thickness. The obtained parameters can be further used to predict the fracture toughness of other bonded joints loaded in any direction.

Published
2024
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13. Measurement of the K+ → π+γγ decay

Author

E. Cortina Gil, A. Kleimenova, E. Minucci, S. Padolski, P. Petrov, A. Shaikhiev, R. Volpe, T. Numao, Y. Petrov, B. Velghe, V.W.S. Wong, D. Bryman, J. Fu, Z. Hives, T. Husek, J. Jerhot, K. Kampf, M. Zamkovsky, B. De Martino, M. Perrin-Terrin, B. Döbrich, S. Lezki, A.T. Akmete, R. Aliberti, G. Khoriauli, J. Kunze, D. Lomidze, L. Peruzzo, M. Vormstein, R. Wanke, P. Dalpiaz, M. Fiorini, A. Mazzolari, I. Neri, A. Norton, F. Petrucci, M. Soldani, H. Wahl, L. Bandiera, A. Cotta Ramusino, A. Gianoli, M. Romagnoni, A. Sytov, E. Iacopini, G. Latino, M. Lenti, P. Lo Chiatto, I. Panichi, A. Parenti, A. Bizzeti, F. Bucci, A. Antonelli, G. Georgiev, V. Kozhuharov, G. Lanfranchi, S. Martellotti, M. Moulson, T. Spadaro, G. Tinti, F. Ambrosino, T. Capussela, M. Corvino, M. D'Errico, D. Di Filippo, R. Fiorenza, R. Giordano, P. Massarotti, M. Mirra, M. Napolitano, I. Rosa, G. Saracino, G. Anzivino, F. Brizioli, E. Imbergamo, R. Lollini, R. Piandani, C. Santoni, M. Barbanera, P. Cenci, B. Checcucci, P. Lubrano, M. Lupi, M. Pepe, M. Piccini, F. Costantini, L. Di Lella, N. Doble, M. Giorgi, S. Giudici, G. Lamanna, E. Lari, E. Pedreschi, M. Sozzi, C. Cerri, R. Fantechi, L. Pontisso, F. Spinella, I. Mannelli, G. D'Agostini, M. Raggi, A. Biagioni, P. Cretaro, O. Frezza, E. Leonardi, A. Lonardo, M. Turisini, P. Valente, P. Vicini, R. Ammendola, V. Bonaiuto, A. Fucci, A. Salamon, F. Sargeni, R. Arcidiacono, B. Bloch-Devaux, M. Boretto, E. Menichetti, E. Migliore, D. Soldi, C. Biino, A. Filippi, F. Marchetto, A. Briano Olvera, J. Engelfried, N. Estrada-Tristan, M.A. Reyes Santos, K.A. Rodriguez Rivera, P. Boboc, A.M. Bragadireanu, S.A. Ghinescu, O.E. Hutanu, L. Bician, T. Blazek, V. Cerny, Z. Kucerova, J. Bernhard, A. Ceccucci, M. Ceoletta, H. Danielsson, N. De Simone, F. Duval, L. Federici, E. Gamberini, L. Gatignon, R. Guida, F. Hahn, E.B. Holzer, B. Jenninger, M. Koval, P. Laycock, G. Lehmann Miotto, P. Lichard, A. Mapelli, R. Marchevski, K. Massri, M. Noy, V. Palladino, J. Pinzino, V. Ryjov, S. Schuchmann, S. Venditti, T. Bache, M.B. Brunetti, V. Duk, V. Fascianelli, J.R. Fry, F. Gonnella, E. Goudzovski, J. Henshaw, L. Iacobuzio, C. Kenworthy, C. Lazzeroni, N. Lurkin, F. Newson, C. Parkinson, A. Romano, J. Sanders, A. Sergi, A. Sturgess, J. Swallow, A. Tomczak, H. Heath, R. Page, S. Trilov, B. Angelucci, D. Britton, C. Graham, D. Protopopescu, J. Carmignani, J.B. Dainton, R.W.L. Jones, G. Ruggiero, L. Fulton, D. Hutchcroft, E. Maurice, B. Wrona, A. Conovaloff, P. Cooper, D. Coward, P. Rubin, A. Baeva, D. Baigarashev, D. Emelyanov, T. Enik, V. Falaleev, S. Fedotov, K. Gorshanov, E. Gushchin, V. Kekelidze, D. Kereibay, S. Kholodenko, A. Khotyantsev, A. Korotkova, Y. Kudenko, V. Kurochka, V. Kurshetsov, L. Litov, D. Madigozhin, M. Medvedeva, A. Mefodev, M. Misheva, N. Molokanova, S. Movchan, V. Obraztsov, A. Okhotnikov, A. Ostankov, I. Polenkevich, Yu. Potrebenikov, A. Sadovskiy, V. Semenov, S. Shkarovskiy, V. Sugonyaev, O. Yushchenko, and A. Zinchenko

Subjects
Physics, QC1-999
Abstract

A sample of 3984 candidates of the K+→π+γγ decay, with an estimated background of 291±14 events, was collected by the NA62 experiment at CERN during 2017–2018. In order to describe the observed di-photon mass spectrum, the next-to-leading order contribution in chiral perturbation theory was found to be necessary. The decay branching ratio in the full kinematic range is measured to be (9.61±0.17)×10−7. The first search for production and prompt decay of an axion-like particle with gluon coupling in the process K+→π+a, a→γγ is also reported.

Published
2024
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14. Improved calorimetric particle identification in NA62 using machine learning techniques

Author

The NA62 collaboration, E. Cortina Gil, A. Kleimenova, E. Minucci, S. Padolski, P. Petrov, A. Shaikhiev, R. Volpe, W. Fedorko, T. Numao, Y. Petrov, B. Velghe, V. W. S. Wong, M. Yu, D. Bryman, J. Fu, Z. Hives, T. Husek, J. Jerhot, K. Kampf, M. Zamkovsky, B. De Martino, M. Perrin-Terrin, A. T. Akmete, R. Aliberti, G. Khoriauli, J. Kunze, D. Lomidze, L. Peruzzo, M. Vormstein, R. Wanke, P. Dalpiaz, M. Fiorini, A. Mazzolari, I. Neri, A. Norton, F. Petrucci, M. Soldani, H. Wahl, L. Bandiera, A. Cotta Ramusino, A. Gianoli, M. Romagnoni, A. Sytov, E. Iacopini, G. Latino, M. Lenti, P. Lo Chiatto, I. Panichi, A. Parenti, A. Bizzeti, F. Bucci, A. Antonelli, G. Georgiev, V. Kozhuharov, G. Lanfranchi, S. Martellotti, M. Moulson, T. Spadaro, G. Tinti, F. Ambrosino, T. Capussela, M. Corvino, M. D’Errico, D. Di Filippo, R. Fiorenza, R. Giordano, P. Massarotti, M. Mirra, M. Napolitano, I. Rosa, G. Saracino, G. Anzivino, F. Brizioli, E. Imbergamo, R. Lollini, R. Piandani, C. Santoni, M. Barbanera, P. Cenci, B. Checcucci, P. Lubrano, M. Lupi, M. Pepe, M. Piccini, F. Costantini, L. Di Lella, N. Doble, M. Giorgi, S. Giudici, G. Lamanna, E. Lari, E. Pedreschi, M. Sozzi, C. Cerri, R. Fantechi, L. Pontisso, F. Spinella, I. Mannelli, G. D’Agostini, M. Raggi, A. Biagioni, P. Cretaro, O. Frezza, E. Leonardi, A. Lonardo, M. Turisini, P. Valente, P. Vicini, R. Ammendola, V. Bonaiuto, A. Fucci, A. Salamon, F. Sargeni, R. Arcidiacono, B. Bloch-Devaux, M. Boretto, E. Menichetti, E. Migliore, D. Soldi, C. Biino, A. Filippi, F. Marchetto, A. Briano Olvera, J. Engelfried, N. Estrada-Tristan, M. A. Reyes Santos, P. Boboc, A. M. Bragadireanu, S. A. Ghinescu, O. E. Hutanu, L. Bician, T. Blazek, V. Cerny, Z. Kucerova, J. Bernhard, A. Ceccucci, M. Ceoletta, H. Danielsson, N. De Simone, F. Duval, B. Döbrich, L. Federici, E. Gamberini, L. Gatignon, R. Guida, F. Hahn, E. B. Holzer, B. Jenninger, M. Koval, P. Laycock, G. Lehmann Miotto, P. Lichard, A. Mapelli, R. Marchevski, K. Massri, M. Noy, V. Palladino, J. Pinzino, V. Ryjov, S. Schuchmann, S. Venditti, T. Bache, M. B. Brunetti, V. Duk, V. Fascianelli, J. R. Fry, F. Gonnella, E. Goudzovski, J. Henshaw, L. Iacobuzio, C. Kenworthy, C. Lazzeroni, N. Lurkin, F. Newson, C. Parkinson, A. Romano, J. Sanders, A. Sergi, A. Sturgess, J. Swallow, A. Tomczak, H. Heath, R. Page, S. Trilov, B. Angelucci, D. Britton, C. Graham, D. Protopopescu, J. Carmignani, J. B. Dainton, R. W. L. Jones, G. Ruggiero, L. Fulton, D. Hutchcroft, E. Maurice, B. Wrona, A. Conovaloff, P. Cooper, D. Coward, P. Rubin, A. Baeva, D. Baigarashev, D. Emelyanov, T. Enik, V. Falaleev, S. Fedotov, K. Gorshanov, E. Gushchin, V. Kekelidze, D. Kereibay, S. Kholodenko, A. Khotyantsev, A. Korotkova, Y. Kudenko, V. Kurochka, V. Kurshetsov, L. Litov, D. Madigozhin, M. Medvedeva, A. Mefodev, M. Misheva, N. Molokanova, S. Movchan, V. Obraztsov, A. Okhotnikov, A. Ostankov, I. Polenkevich, Yu. Potrebenikov, A. Sadovskiy, V. Semenov, S. Shkarovskiy, V. Sugonyaev, O. Yushchenko, and A. Zinchenko

Subjects
Fixed Target Experiments, Branching fraction, Rare Decay, Flavour Physics, Nuclear and particle physics. Atomic energy. Radioactivity, QC770-798
Abstract

Abstract Measurement of the ultra-rare K + → π + ν ν ¯ $$ {K}^{+}\to {\pi}^{+}\nu \overline{\nu} $$ decay at the NA62 experiment at CERN requires high-performance particle identification to distinguish muons from pions. Calorimetric identification currently in use, based on a boosted decision tree algorithm, achieves a muon misidentification probability of 1.2 × 10 −5 for a pion identification efficiency of 75% in the momentum range of 15–40 GeV/c. In this work, calorimetric identification performance is improved by developing an algorithm based on a convolutional neural network classifier augmented by a filter. Muon misidentification probability is reduced by a factor of six with respect to the current value for a fixed pion-identification efficiency of 75%. Alternatively, pion identification efficiency is improved from 72% to 91% for a fixed muon misidentification probability of 10 −5.

Published
2023
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15. Food Safety and Health Concerns of Synthetic Food Colors: An Update

Author

Petra Amchova, Filip Siska, and Jana Ruda-Kucerova

Subjects
toxicity, food dye, color, safety, ADI, Chemical technology, TP1-1185
Abstract

The toxicity of food additives is widely studied and concerns many consumers worldwide. Synthetic food colors are often considered an unnecessary risk to consumer health. Since the European Food Safety Authority’s (EFSA) re-evaluation between 2009 and 2014, the body of scientific literature on food colors has grown, and new evaluations are being published by the Joint FAO/WHO Expert Committee on Food Additives (JECFA). Therefore, this narrative review aims to review the toxicological data that have become available since 2014. The reviewed colors are Quinoline Yellow, Sunset Yellow, Azorubine, Amaranth, Ponceau 4R, Erythrosine, Allura Red, Patent Blue, Indigo Carmine, Brilliant Blue FCF, Green S, Brilliant Black, Brown HT, and Lithol Rubine BK. Tartrazine was not included in this paper; the overwhelming amount of recent data on Tartrazine toxicity requires more space than this review can provide. The issues regarding the toxicity of synthetic food colors and real population exposures are being regularly examined and reviewed by relevant authorities, such as the EFSA and JECFA. The current ADI limits set by the authorities are mostly in agreement, and they seem safe. However, the EFSA and JECFA assessments of some of the colors are more than a decade old, and new evidence will soon be required.

Published
2024
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16. The effect of CNQX on self-administration: present in nicotine, absent in methamphetamine model

Author

Maria Hrickova, Petra Amchova, and Jana Ruda-Kucerova

Subjects
AMPA/kainate receptor, CNQX, nicotine, methamphetamine, self-administration, relapse, Neurosciences. Biological psychiatry. Neuropsychiatry, RC321-571
Abstract

ObjectiveAddiction is a chronic disease with limited pharmacological options for intervention. Focusing on reducing glutamate levels in the brain seems to be a promising strategy in addiction treatment research. Our research aimed to evaluate the effects of CNQX, an antagonist that targets AMPA and kainate glutamatergic receptors while also exhibiting affinity for the NMDA receptor, especially by modulating its glycine site. We conducted this assessment on the self-administration of nicotine and methamphetamine via intravenous (IV) administration in rats.MethodsAn operant IV self-administration model was used in male Wistar rats. When animals maintained a stable intake of nicotine or methamphetamine, we administered a single injection of CNQX (in the dose of 3 or 6 mg/kg IV) to evaluate its effect on drug intake. Subsequently, the rats were forced to abstain by staying in their home cages for 2 weeks. The period of abstinence was followed by a context-induced relapse-like session before which animals were pretreated with the injection of CNQX (3 or 6 mg/kg IV) to evaluate its effect on drug seeking.ResultsCNQX significantly reduced nicotine intake during the maintenance phase, but no effect was revealed on nicotine seeking after forced abstinence. CNQX did not affect methamphetamine taking or seeking.ConclusionThe effect of reducing nicotine taking but not seeking could be explained by different involvement of glutamatergic receptors in various stages of nicotine dependence.

Published
2024
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17. Improved calorimetric particle identification in NA62 using machine learning techniques

Author

Cortina Gil, E., Kleimenova, A., Minucci, E., Padolski, S., Petrov, P., Shaikhiev, A., Volpe, R., Fedorko, W., Numao, T., Petrov, Y., Velghe, B., Wong, V. W. S., Yu, M., Bryman, D., Fu, J., Hives, Z., Husek, T., Jerhot, J., Kampf, K., Zamkovsky, M., De Martino, B., Perrin-Terrin, M., Akmete, A. T., Aliberti, R., Khoriauli, G., Kunze, J., Lomidze, D., Peruzzo, L., Vormstein, M., Wanke, R., Dalpiaz, P., Fiorini, M., Mazzolari, A., Neri, I., Norton, A., Petrucci, F., Soldani, M., Wahl, H., Bandiera, L., Cotta Ramusino, A., Gianoli, A., Romagnoni, M., Sytov, A., Iacopini, E., Latino, G., Lenti, M., Lo Chiatto, P., Panichi, I., Parenti, A., Bizzeti, A., Bucci, F., Antonelli, A., Georgiev, G., Kozhuharov, V., Lanfranchi, G., Martellotti, S., Moulson, M., Spadaro, T., Tinti, G., Ambrosino, F., Capussela, T., Corvino, M., D’Errico, M., Di Filippo, D., Fiorenza, R., Giordano, R., Massarotti, P., Mirra, M., Napolitano, M., Rosa, I., Saracino, G., Anzivino, G., Brizioli, F., Imbergamo, E., Lollini, R., Piandani, R., Santoni, C., Barbanera, M., Cenci, P., Checcucci, B., Lubrano, P., Lupi, M., Pepe, M., Piccini, M., Costantini, F., Di Lella, L., Doble, N., Giorgi, M., Giudici, S., Lamanna, G., Lari, E., Pedreschi, E., Sozzi, M., Cerri, C., Fantechi, R., Pontisso, L., Spinella, F., Mannelli, I., D’Agostini, G., Raggi, M., Biagioni, A., Cretaro, P., Frezza, O., Leonardi, E., Lonardo, A., Turisini, M., Valente, P., Vicini, P., Ammendola, R., Bonaiuto, V., Fucci, A., Salamon, A., Sargeni, F., Arcidiacono, R., Bloch-Devaux, B., Boretto, M., Menichetti, E., Migliore, E., Soldi, D., Biino, C., Filippi, A., Marchetto, F., Briano Olvera, A., Engelfried, J., Estrada-Tristan, N., Reyes Santos, M. A., Boboc, P., Bragadireanu, A. M., Ghinescu, S. A., Hutanu, O. E., Bician, L., Blazek, T., Cerny, V., Kucerova, Z., Bernhard, J., Ceccucci, A., Ceoletta, M., Danielsson, H., De Simone, N., Duval, F., Döbrich, B., Federici, L., Gamberini, E., Gatignon, L., Guida, R., Hahn, F., Holzer, E. B., Jenninger, B., Koval, M., Laycock, P., Lehmann Miotto, G., Lichard, P., Mapelli, A., Marchevski, R., Massri, K., Noy, M., Palladino, V., Pinzino, J., Ryjov, V., Schuchmann, S., Venditti, S., Bache, T., Brunetti, M. B., Duk, V., Fascianelli, V., Fry, J. R., Gonnella, F., Goudzovski, E., Henshaw, J., Iacobuzio, L., Kenworthy, C., Lazzeroni, C., Lurkin, N., Newson, F., Parkinson, C., Romano, A., Sanders, J., Sergi, A., Sturgess, A., Swallow, J., Tomczak, A., Heath, H., Page, R., Trilov, S., Angelucci, B., Britton, D., Graham, C., Protopopescu, D., Carmignani, J., Dainton, J. B., Jones, R. W. L., Ruggiero, G., Fulton, L., Hutchcroft, D., Maurice, E., Wrona, B., Conovaloff, A., Cooper, P., Coward, D., Rubin, P., Baeva, A., Baigarashev, D., Emelyanov, D., Enik, T., Falaleev, V., Fedotov, S., Gorshanov, K., Gushchin, E., Kekelidze, V., Kereibay, D., Kholodenko, S., Khotyantsev, A., Korotkova, A., Kudenko, Y., Kurochka, V., Kurshetsov, V., Litov, L., Madigozhin, D., Medvedeva, M., Mefodev, A., Misheva, M., Molokanova, N., Movchan, S., Obraztsov, V., Okhotnikov, A., Ostankov, A., Polenkevich, I., Potrebenikov, Yu., Sadovskiy, A., Semenov, V., Shkarovskiy, S., Sugonyaev, V., Yushchenko, O., and Zinchenko, A.

Published
2023
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18. A study of the K+→ π0e+νγ decay

Author

Cortina Gil, E., Kleimenova, A., Minucci, E., Padolski, S., Petrov, P., Shaikhiev, A., Volpe, R., Numao, T., Petrov, Y., Velghe, B., Wong, V. W. S., Bryman, D., Fu, J., Hives, Z., Husek, T., Jerhot, J., Kampf, K., Zamkovsky, M., De Martino, B., Perrin-Terrin, M., Akmete, A. T., Aliberti, R., Khoriauli, G., Kunze, J., Lomidze, D., Peruzzo, L., Vormstein, M., Wanke, R., Dalpiaz, P., Fiorini, M., Mazzolari, A., Neri, I., Norton, A., Petrucci, F., Soldani, M., Wahl, H., Bandiera, L., Cotta Ramusino, A., Gianoli, A., Romagnoni, M., Sytov, A., Iacopini, E., Latino, G., Lenti, M., Lo Chiatto, P., Panichi, I., Parenti, A., Bizzeti, A., Bucci, F., Antonelli, A., Georgiev, G., Kozhuharov, V., Lanfranchi, G., Martellotti, S., Moulson, M., Spadaro, T., Tinti, G., Ambrosino, F., Capussela, T., Corvino, M., D’Errico, M., Di Filippo, D., Fiorenza, R., Giordano, R., Massarotti, P., Mirra, M., Napolitano, M., Rosa, I., Saracino, G., Anzivino, G., Brizioli, F., Imbergamo, E., Lollini, R., Piandani, R., Santoni, C., Barbanera, M., Cenci, P., Checcucci, B., Lubrano, P., Lupi, M., Pepe, M., Piccini, M., Costantini, F., Di Lella, L., Doble, N., Giorgi, M., Giudici, S., Lamanna, G., Lari, E., Pedreschi, E., Sozzi, M., Cerri, C., Fantechi, R., Pontisso, L., Spinella, F., Mannelli, I., D’Agostini, G., Raggi, M., Biagioni, A., Cretaro, P., Frezza, O., Leonardi, E., Lonardo, A., Turisini, M., Valente, P., Vicini, P., Ammendola, R., Bonaiuto, V., Fucci, A., Salamon, A., Sargeni, F., Arcidiacono, R., Bloch-Devaux, B., Boretto, M., Menichetti, E., Migliore, E., Soldi, D., Biino, C., Filippi, A., Marchetto, F., Briano Olvera, A., Engelfried, J., Estrada-Tristan, N., Reyes Santos, M. A., Boboc, P., Bragadireanu, A. M., Ghinescu, S. A., Hutanu, O. E., Bician, L., Blazek, T., Cerny, V., Kucerova, Z., Bernhard, J., Ceccucci, A., Ceoletta, M., Danielsson, H., De Simone, N., Duval, F., Döbrich, B., Federici, L., Gamberini, E., Gatignon, L., Guida, R., Hahn, F., Holzer, E. B., Jenninger, B., Koval, M., Laycock, P., Lehmann Miotto, G., Lichard, P., Mapelli, A., Marchevski, R., Massri, K., Noy, M., Palladino, V., Pinzino, J., Ryjov, V., Schuchmann, S., Venditti, S., Bache, T., Brunetti, M. B., Duk, V., Fascianelli, V., Fry, J. R., Gonnella, F., Goudzovski, E., Henshaw, J., Iacobuzio, L., Kenworthy, C., Lazzeroni, C., Lurkin, N., Newson, F., Parkinson, C., Romano, A., Sanders, J., Sergi, A., Sturgess, A., Swallow, J., Tomczak, A., Heath, H., Page, R., Trilov, S., Angelucci, B., Britton, D., Graham, C., Protopopescu, D., Carmignani, J., Dainton, J. B., Jones, R. W. L., Ruggiero, G., Fulton, L., Hutchcroft, D., Maurice, E., Wrona, B., Conovaloff, A., Cooper, P., Coward, D., Rubin, P., Baeva, A., Baigarashev, D., Emelyanov, D., Enik, T., Falaleev, V., Fedotov, S., Gorshanov, K., Gushchin, E., Kekelidze, V., Kereibay, D., Kholodenko, S., Khotyantsev, A., Korotkova, A., Kudenko, Y., Kurochka, V., Kurshetsov, V., Litov, L., Madigozhin, D., Medvedeva, M., Mefodev, A., Misheva, M., Molokanova, N., Movchan, S., Obraztsov, V., Okhotnikov, A., Ostankov, A., Polenkevich, I., Potrebenikov, Yu., Sadovskiy, A., Semenov, V., Shkarovskiy, S., Sugonyaev, V., Yushchenko, O., and Zinchenko, A.

Published
2023
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19. Search for dark photon decays to μ+μ− at NA62

Author

Cortina Gil, E., Jerhot, J., Kleimenova, A., Lurkin, N., Zamkovsky, M., Numao, T., Velghe, B., Wong, V. W. S., Bryman, D., Hives, Z., Husek, T., Kampf, K., Koval, M., De Martino, B., Perrin-Terrin, M., Akmete, A. T., Aliberti, R., Di Lella, L., Doble, N., Peruzzo, L., Schuchmann, S., Wahl, H., Wanke, R., Dalpiaz, P., Mazzolari, A., Neri, I., Petrucci, F., Soldani, M., Bandiera, L., Cotta Ramusino, A., Gianoli, A., Romagnoni, M., Sytov, A., Lenti, M., Lo Chiatto, P., Marchevski, R., Panichi, I., Ruggiero, G., Bizzeti, A., Bucci, F., Antonelli, A., Kozhuharov, V., Lanfranchi, G., Martellotti, S., Moulson, M., Spadaro, T., Tinti, G., Ambrosino, F., D’Errico, M., Fiorenza, R., Giordano, R., Massarotti, P., Mirra, M., Napolitano, M., Rosa, I., Saracino, G., Anzivino, G., Brizioli, F., Cenci, P., Duk, V., Lollini, R., Lubrano, P., Pepe, M., Piccini, M., Costantini, F., Giorgi, M., Giudici, S., Lamanna, G., Lari, E., Pedreschi, E., Pinzino, J., Sozzi, M., Fantechi, R., Spinella, F., Mannelli, I., Raggi, M., Biagioni, A., Cretaro, P., Frezza, O., Lonardo, A., Turisini, M., Vicini, P., Ammendola, R., Bonaiuto, V., Fucci, A., Salamon, A., Sargeni, F., Arcidiacono, R., Bloch-Devaux, B., Menichetti, E., Migliore, E., Biino, C., Filippi, A., Marchetto, F., Soldi, D., Briano Olvera, A., Engelfried, J., Estrada-Tristan, N., Piandani, R., Reyes Santos, M. A., Boboc, P., Bragadireanu, A. M., Ghinescu, S. A., Hutanu, O. E., Blazek, T., Cerny, V., Kucerova, Z., Volpe, R., Bernhard, J., Bician, L., Boretto, M., Ceccucci, A., Ceoletta, M., Corvino, M., Danielsson, H., Duval, F., Döbrich, B., Federici, L., Gamberini, E., Guida, R., Holzer, E. B., Jenninger, B., Lehmann Miotto, G., Lichard, P., Massri, K., Minucci, E., Noy, M., Ryjov, V., Swallow, J., Fry, J. R., Gonnella, F., Goudzovski, E., Henshaw, J., Kenworthy, C., Lazzeroni, C., Parkinson, C., Romano, A., Sanders, J., Sergi, A., Shaikhiev, A., Tomczak, A., Heath, H., Britton, D., Norton, A., Protopopescu, D., Dainton, J. B., Gatignon, L., Jones, R. W. L., Cooper, P., Coward, D., Rubin, P., Baeva, A., Baigarashev, D., Emelyanov, D., Enik, T., Falaleev, V., Fedotov, S., Gorshanov, K., Gushchin, E., Kekelidze, V., Kereibay, D., Kholodenko, S., Khotyantsev, A., Korotkova, A., Kudenko, Y., Kurochka, V., Kurshetsov, V., Litov, L., Madigozhin, D., Mefodev, A., Misheva, M., Molokanova, N., Obraztsov, V., Okhotnikov, A., Polenkevich, I., Potrebenikov, Yu., Sadovskiy, A., Shkarovskiy, S., Sugonyaev, V., and Yushchenko, O.

Published
2023
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20. Rapid identification of enteric bacteria from whole genome sequences using average nucleotide identity metrics

Author

Rebecca L. Lindsey, Lori M. Gladney, Andrew D. Huang, Taylor Griswold, Lee S. Katz, Blake A. Dinsmore, Monica S. Im, Zuzana Kucerova, Peyton A. Smith, Charlotte Lane, and Heather A. Carleton

Subjects
average nucleotide identity, ANI, species identification, enteric bacteria, WGS, Microbiology, QR1-502
Abstract

Identification of enteric bacteria species by whole genome sequence (WGS) analysis requires a rapid and an easily standardized approach. We leveraged the principles of average nucleotide identity using MUMmer (ANIm) software, which calculates the percent bases aligned between two bacterial genomes and their corresponding ANI values, to set threshold values for determining species consistent with the conventional identification methods of known species. The performance of species identification was evaluated using two datasets: the Reference Genome Dataset v2 (RGDv2), consisting of 43 enteric genome assemblies representing 32 species, and the Test Genome Dataset (TGDv1), comprising 454 genome assemblies which is designed to represent all species needed to query for identification, as well as rare and closely related species. The RGDv2 contains six Campylobacter spp., three Escherichia/Shigella spp., one Grimontia hollisae, six Listeria spp., one Photobacterium damselae, two Salmonella spp., and thirteen Vibrio spp., while the TGDv1 contains 454 enteric bacterial genomes representing 42 different species. The analysis showed that, when a standard minimum of 70% genome bases alignment existed, the ANI threshold values determined for these species were ≥95 for Escherichia/Shigella and Vibrio species, ≥93% for Salmonella species, and ≥92% for Campylobacter and Listeria species. Using these metrics, the RGDv2 accurately classified all validation strains in TGDv1 at the species level, which is consistent with the classification based on previous gold standard methods.

Published
2023
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21. Endurance Training Provokes Arrhythmogenic Right Ventricular Cardiomyopathy Phenotype in Heterozygous Desmoglein-2 Mutants: Alleviation by Preload Reduction

Author

Larissa Fabritz, Lisa Fortmueller, Katja Gehmlich, Sebastian Kant, Marcel Kemper, Dana Kucerova, Fahima Syeda, Cornelius Faber, Rudolf E. Leube, Paulus Kirchhof, and Claudia A. Krusche

Subjects
desmoglein 2, preload-reducing therapy, arrhythmogenic right ventricular cardiomyopathy (ARVC), mouse model, arrhythmogenic cardiomyopathy, endurance exercise, Biology (General), QH301-705.5
Abstract

Desmoglein-2 mutations are detected in 5–10% of patients with arrhythmogenic right ventricular cardiomyopathy (ARVC). Endurance training accelerates the development of the ARVC phenotype, leading to earlier arrhythmic events. Homozygous Dsg2 mutant mice develop a severe ARVC-like phenotype. The phenotype of heterozygous mutant (Dsg2mt/wt) or haploinsufficient (Dsg20/wt) mice is still not well understood. To assess the effects of age and endurance swim training, we studied cardiac morphology and function in sedentary one-year-old Dsg2mt/wt and Dsg20/wt mice and in young Dsg2mt/wt mice exposed to endurance swim training. Cardiac structure was only occasionally affected in aged Dsg20/wt and Dsg2mt/wt mice manifesting as small fibrotic foci and displacement of Connexin 43. Endurance swim training increased the right ventricular (RV) diameter and decreased RV function in Dsg2mt/wt mice but not in wild types. Dsg2mt/wt hearts showed increased ventricular activation times and pacing-induced ventricular arrhythmia without obvious fibrosis or inflammation. Preload-reducing therapy during training prevented RV enlargement and alleviated the electrophysiological phenotype. Taken together, endurance swim training induced features of ARVC in young adult Dsg2mt/wt mice. Prolonged ventricular activation times in the hearts of trained Dsg2mt/wt mice are therefore a potential mechanism for increased arrhythmia risk. Preload-reducing therapy prevented training-induced ARVC phenotype pointing to beneficial treatment options in human patients.

Published
2024
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22. Addendum to: A measurement of the K+→ π+μ+μ− decay

Author

Cortina Gil, E., Kleimenova, A., Minucci, E., Padolski, S., Petrov, P., Shaikhiev, A., Volpe, R., Numao, T., Petrov, Y., Velghe, B., Wong, V. W. S., Bryman, D., Fu, J., Husek, T., Jerhot, J., Kampf, K., Zamkovsky, M., Aliberti, R., Khoriauli, G., Kunze, J., Lomidze, D., Peruzzo, L., Vormstein, M., Wanke, R., Dalpiaz, P., Fiorini, M., Neri, I., Norton, A., Petrucci, F., Wahl, H., Cotta Ramusino, A., Gianoli, A., Iacopini, E., Latino, G., Lenti, M., Parenti, A., Bizzeti, A., Bucci, F., Antonelli, A., Georgiev, G., Kozhuharov, V., Lanfranchi, G., Martellotti, S., Moulson, M., Spadaro, T., Tinti, G., Ambrosino, F., Capussela, T., Corvino, M., Di Filippo, D., Fiorenza, R., Massarotti, P., Mirra, M., Napolitano, M., Saracino, G., Anzivino, G., Brizioli, F., Imbergamo, E., Lollini, R., Piandani, R., Santoni, C., Barbanera, M., Cenci, P., Checcucci, B., Lubrano, P., Lupi, M., Pepe, M., Piccini, M., Costantini, F., Di Lella, L., Doble, N., Giorgi, M., Giudici, S., Lamanna, G., Lari, E., Pedreschi, E., Sozzi, M., Cerri, C., Fantechi, R., Pontisso, L., Spinella, F., Mannelli, I., D’Agostini, G., Raggi, M., Biagioni, A., Cretaro, P., Frezza, O., Leonardi, E., Lonardo, A., Turisini, M., Valente, P., Vicini, P., Ammendola, R., Bonaiuto, V., Fucci, A., Salamon, A., Sargeni, F., Arcidiacono, R., Bloch-Devaux, B., Boretto, M., Menichetti, E., Migliore, E., Soldi, D., Biino, C., Filippi, A., Marchetto, F., Engelfried, J., Estrada-Tristan, N., Bragadireanu, A. M., Ghinescu, S. A., Hutanu, O. E., Baeva, A., Baigarashev, D., Emelyanov, D., Enik, T., Falaleev, V., Kekelidze, V., Korotkova, A., Litov, L., Madigozhin, D., Misheva, M., Molokanova, N., Movchan, S., Polenkevich, I., Potrebenikov, Yu., Shkarovskiy, S., Zinchenko, A., Fedotov, S., Gushchin, E., Khotyantsev, A., Kudenko, Y., Kurochka, V., Medvedeva, M., Mefodev, A., Kholodenko, S., Kurshetsov, V., Obraztsov, V., Ostankov, A., Semenov, V., Sugonyaev, V., Yushchenko, O., Bician, L., Blazek, T., Cerny, V., Kucerova, Z., Bernhard, J., Ceccucci, A., Danielsson, H., De Simone, N., Duval, F., Döbrich, B., Federici, L., Gamberini, E., Gatignon, L., Guida, R., Hahn, F., Holzer, E. B., Jenninger, B., Koval, M., Laycock, P., Lehmann Miotto, G., Lichard, P., Mapelli, A., Marchevski, R., Massri, K., Noy, M., Palladino, V., Perrin-Terrin, M., Pinzino, J., Ryjov, V., Schuchmann, S., Venditti, S., Bache, T., Brunetti, M. B., Duk, V., Fascianelli, V., Fry, J. R., Gonnella, F., Goudzovski, E., Henshaw, J., Iacobuzio, L., Lazzeroni, C., Lurkin, N., Newson, F., Parkinson, C., Romano, A., Sergi, A., Sturgess, A., Swallow, J., Tomczak, A., Heath, H., Page, R., Trilov, S., Angelucci, B., Britton, D., Graham, C., Protopopescu, D., Carmignani, J., Dainton, J. B., Jones, R. W. L., Ruggiero, G., Fulton, L., Hutchcroft, D., Maurice, E., Wrona, B., Conovaloff, A., Cooper, P., Coward, D., and Rubin, P.

Published
2023
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23. Performance of the NA62 trigger system

Author

Cortina Gil, E., Kleimenova, A., Minucci, E., Padolski, S., Petrov, P., Shaikhiev, A., Volpe, R., Numao, T., Petrov, Y., Velghe, B., Wong, V. W. S., Bryman, D., Fu, J., Husek, T., Jerhot, J., Kampf, K., Zamkovsky, M., Aliberti, R., Khoriauli, G., Kunze, J., Lomidze, D., Peruzzo, L., Vormstein, M., Wanke, R., Dalpiaz, P., Fiorini, M., Neri, I., Norton, A., Petrucci, F., Wahl, H., Cotta Ramusino, A., Gianoli, A., Iacopini, E., Latino, G., Lenti, M., Parenti, A., Bizzeti, A., Bucci, F., Antonelli, A., Georgiev, G., Kozhuharov, V., Lanfranchi, G., Martellotti, S., Moulson, M., Spadaro, T., Tinti, G., Ambrosino, F., Capussela, T., Corvino, M., Di Filippo, D., Fiorenza, R., Massarotti, P., Mirra, M., Napolitano, M., Saracino, G., Anzivino, G., Brizioli, F., Imbergamo, E., Lollini, R., Piandani, R., Santoni, C., Barbanera, M., Cenci, P., Checcucci, B., Lubrano, P., Lupi, M., Pepe, M., Piccini, M., Costantini, F., Di Lella, L., Doble, N., Giorgi, M., Giudici, S., Lamanna, G., Lari, E., Pedreschi, E., Sozzi, M., Cerri, C., Fantechi, R., Pontisso, L., Spinella, F., Mannelli, I., D’Agostini, G., Raggi, M., Biagioni, A., Cretaro, P., Frezza, O., Leonardi, E., Lonardo, A., Turisini, M., Valente, P., Vicini, P., Ammendola, R., Bonaiuto, V., Fucci, A., Salamon, A., Sargeni, F., Arcidiacono, R., Bloch-Devaux, B., Boretto, M., Menichetti, E., Migliore, E., Soldi, D., Biino, C., Filippi, A., Marchetto, F., Engelfried, J., Estrada-Tristan, N., Bragadireanu, A. M., Ghinescu, S. A., Hutanu, O. E., Baeva, A., Baigarashev, D., Emelyanov, D., Enik, T., Falaleev, V., Kekelidze, V., Korotkova, A., Litov, L., Madigozhin, D., Misheva, M., Molokanova, N., Movchan, S., Polenkevich, I., Potrebenikov, Yu., Shkarovskiy, S., Zinchenko, A., Fedotov, S., Gushchin, E., Khotyantsev, A., Kudenko, Y., Kurochka, V., Medvedeva, M., Mefodev, A., Kholodenko, S., Kurshetsov, V., Obraztsov, V., Ostankov, A., Semenov, V., Sugonyaev, V., Yushchenko, O., Bician, L., Blazek, T., Cerny, V., Kucerova, Z., Bernhard, J., Ceccucci, A., Danielsson, H., De Simone, N., Duval, F., Döbrich, B., Federici, L., Gamberini, E., Gatignon, L., Guida, R., Hahn, F., Holzer, E. B., Jenninger, B., Koval, M., Laycock, P., Lehmann Miotto, G., Lichard, P., Mapelli, A., Marchevski, R., Massri, K., Noy, M., Palladino, V., Perrin-Terrin, M., Pinzino, J., Ryjov, V., Schuchmann, S., Venditti, S., Bache, T., Brunetti, M. B., Duk, V., Fascianelli, V., Fry, J. R., Gonnella, F., Goudzovski, E., Henshaw, J., Iacobuzio, L., Lazzeroni, C., Lurkin, N., Newson, F., Parkinson, C., Romano, A., Sergi, A., Sturgess, A., Swallow, J., Tomczak, A., Heath, H., Page, R., Trilov, S., Angelucci, B., Britton, D., Graham, C., Protopopescu, D., Carmignani, J., Dainton, J. B., Jones, R. W. L., Ruggiero, G., Fulton, L., Hutchcroft, D., Maurice, E., Wrona, B., Conovaloff, A., Cooper, P., Coward, D., and Rubin, P.

Published
2023
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24. Use of physical pretreatment and biodegradation for the removal of antidepressants and psychiatrically active substances from wastewater

Author

Drahoradova Nikola, Ujhazy Martina, Kucerova Radmila, and Sezima Tomas

Subjects
Environmental sciences, GE1-350
Abstract

The occurrence of pharmaceutically active compounds in wastewater is very problematic, especially due to the high persistence of some substances in relation to standard treatment technologies. These substances can further contaminate the environment through receiving water or sewage sludge. The occurrence of antidepressants and psychiatrically active substances in wastewater has increased significantly in recent years. This study focuses on the possibility of removing selected antidepressants and psychiatrically active substances from wastewater. Specifically, citalopram, venlafaxine, lamotrigine, carbamazepine and its metabolite carbamazepine 10,11-epoxide using physical-biological methods. Samples were collected from three wastewater treatment plants in the Moravian- Silesian Region. The patented equipment EP2388068 at the T.G. Masaryk water research institute in Ostrava was used for physical pretreatment. The samples were exposed to an electrostatic field and a mixed bacterial culture of the genus Rhodococcus, namely Rhodococcus erythropolis, Rhodococcus rhodochrous and Rhodococcus degradans, was used for subsequent biodegradation. The presence of drugs and their quantity was verified by HPLC/MS/MS analysis.

Published
2024
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25. Analysis of Firewater Samples from Simulated Fires in Illegal Waste Dumps

Author

Radmila Kucerova, Michal Zavoral, Jaroslav Mudrunka, David Takac, and Lucie Marcalikova

Subjects
illegal waste dump, fire, extinguishing, environment, danger, Engineering machinery, tools, and implements, TA213-215
Abstract

The aim of the work was to simulate a fire in the illegal waste dumps and to find out whether the used firewater represents a potential danger to the environment after its runoff into the surrounding area. Laboratory analysis confirmed the presence of heavy metals and other chemical compounds (nitrates, sulphates and chlorides). Given the results of the above analysis, we can state that the used firewater contains hazardous substances, which confirms the release of these substances into the water during extinguishing of waste-dump material. This thesis does not aim to criticize the tactical procedures of firefighters in extinguishing such fires, as their main goal is to eliminate waste-dump fires and eliminate the further spread of fire.

Published
2023
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26. Search for $K^{+}\rightarrow\pi^{+}\nu\overline{\nu}$ at NA62

Author

NA62 Collaboration, Rinella, G. Aglieri, Aliberti, R., Ambrosino, F., Ammendola, R., Angelucci, B., Antonelli, A., Anzivino, G., Arcidiacono, R., Azhinenko, I., Balev, S., Barbanera, M., Bendotti, J., Biagioni, A., Bician, L., Biino, C., Bizzeti, A., Blazek, T., Blik, A., Bloch-Devaux, B., Bolotov, V., Bonaiuto, V., Boretto, M., Bragadireanu, M., Britton, D., Britvich, G., Brunetti, M. B., Bryman, D., Bucci, F., Butin, F., Calvo, J., Capitolo, E., Capoccia, C., Capussela, T., Cassese, A., Catinaccio, A., Cecchetti, A., Ceccucci, A., Cenci, P., Cerny, V., Cerri, C., Checcucci, B., Chikilev, O., Chiozzi, S., Ciaranfi, R., Collazuol, G., Conovaloff, A., Cooke, P., Cooper, P., Corradi, G., Gil, E. Cortina, Costantini, F., Cotorobai, F., Ramusino, A. Cotta, Coward, D., D'Agostini, G., Dainton, J., Dalpiaz, P., Danielsson, H., Degrange, J., De Simone, N., Di Filippo, D., Di Lella, L., Di Lorenzo, S., Dixon, N., Doble, N., Dobrich, B., Duk, V., Elsha, V., Engelfried, J., Enik, T., Estrada, N., Falaleev, V., Fantechi, R., Fascianelli, V., Federici, L., Fedotov, S., Filippi, A., Fiorini, M., Fry, J., Fu, J., Fucci, A., Fulton, L., Gallorini, S., Galeotti, S., Gamberini, E., Gatignon, L., Georgiev, G., Ghinescu, S., Gianoli, A., Giorgi, M., Giudici, S., Glonti, L., Martins, A. Goncalves, Gonnella, F., Goudzovski, E., Guida, R., Gushchin, E., Hahn, F., Hallgren, B., Heath, H., Herman, F., Husek, T., Hutanu, O., Hutchcroft, D., Iacobuzio, L., Iacopini, E., Imbergamo, E., Jamet, O., Jarron, P., Jones, E., Kampf, T. Jones K., Kaplon, J., Kekelidze, V., Kholodenko, S., Khoriauli, G., Khotyantsev, A., Khudyakov, A., Kiryushin, Yu., Kleimenova, A., Kleinknecht, K., Kluge, A., Koval, M., Kozhuharov, V., Krivda, M., Kucerova, Z., Kudenko, Yu., Kunze, J., Lamanna, G., Latino, G., Lazzeroni, C., Lehmann-Miotto, G., Lenci, R., Lenti, M., Leonardi, E., Lichard, P., Lietava, R., Likhacheva, V., Litov, L., Lollini, R., Lomidze, D., Lonardo, A., Lupi, M., Lurkin, N., McCormick, K., Madigozhin, D., Maire, G., Mandeiro, C., Mannelli, I., Mannocchi, G., Mapelli, A., Marchetto, F., Marchevski, R., Martellotti, S., Massarotti, P., Massri, K., Matak, P., Maurice, E., Medvedeva, M., Mefodev, A., Menichetti, E., Migliore, E., Minucci, E., Mirra, M., Misheva, M., Molokanova, N., Morant, J., Morel, M., Moulson, M., Movchan, S., Munday, D., Napolitano, M., Neri, I., Newson, F., Noël, J., Norton, A., Noy, M., Nuessle, G., Numao, T., Obraztsov, V., Ostankov, A., Padolski, S., Page, R., Palladino, V., Paoluzzi, G., Parkinson, C., Pedreschi, E., Pepe, M., Gomez, F. Perez, Perrin-Terrin, M., Peruzzo, L., Petrov, P., Petrucci, F., Piandani, R., Piccini, M., Pietreanu, D., Pinzino, J., Polenkevich, I., Pontisso, L., Potrebenikov, Yu., Protopopescu, D., Raffaelli, F., Raggi, M., Riedler, P., Romano, A., Rubin, P., Ruggiero, G., Russo, V., Ryjov, V., Salamon, A., Salina, G., Samsonov, V., Santoni, C., Saracino, G., Sargeni, F., Semenov, V., Sergi, A., Serra, M., Shaikhiev, A., Shkarovskiy, S., Skillicorn, I., Soldi, D., Sotnikov, A., Sugonyaev, V., Sozzi, M., Spadaro, T., Spinella, F., Staley, R., Sturgess, A., Sutcliffe, P., Szilasi, N., Tagnani, D., Trilov, S., Valdata-Nappi, M., Valente, P., Vasile, M., Vassilieva, T., Velghe, B., Veltri, M., Venditti, S., Vicini, P., Volpe, R., Vormstein, M., Wahl, H., Wanke, R., Wertelaers, P., Winhart, A., Winston, R., Wrona, B., Yushchenko, O., Zamkovsky, M., and Zinchenko, A.

Subjects
High Energy Physics - Experiment, Physics - Instrumentation and Detectors
Abstract

$K^{+}\rightarrow\pi^{+}\nu\overline{\nu}$ is one of the theoretically cleanest meson decay where to look for indirect effects of new physics complementary to LHC searches. The NA62 experiment at CERN SPS is designed to measure the branching ratio of this decay with 10\% precision. NA62 took data in pilot runs in 2014 and 2015 reaching the final designed beam intensity. The quality of 2015 data acquired, in view of the final measurement, will be presented., Comment: proceeding of the conference New Trends in High-Energy Physics 2016

Published
2018

27. Fibroblast growth factor receptor influences primary cilium length through an interaction with intestinal cell kinase

Author

Kunova Bosakova, Michaela, Nita, Alexandru, Gregor, Tomas, Varecha, Miroslav, Gudernova, Iva, Fafilek, Bohumil, Barta, Tomas, Basheer, Neha, Abraham, Sara P, Balek, Lukas, Tomanova, Marketa, Fialova Kucerova, Jana, Bosak, Juraj, Potesil, David, Zieba, Jennifer, Song, Jieun, Konik, Peter, Park, Sohyun, Duran, Ivan, Zdrahal, Zbynek, Smajs, David, Jansen, Gert, Fu, Zheng, Ko, Hyuk Wan, Hampl, Ales, Trantirek, Lukas, Krakow, Deborah, and Krejci, Pavel

Subjects
Aetiology, 2.1 Biological and endogenous factors, Animals, CRISPR-Cas Systems, Cilia, Fibroblast Growth Factors, HEK293 Cells, Hedgehog Proteins, Humans, Mice, Mice, Knockout, Models, Animal, Molecular Docking Simulation, NIH 3T3 Cells, Phosphorylation, Protein Interaction Domains and Motifs, Protein Serine-Threonine Kinases, Proteomics, Receptor, Fibroblast Growth Factor, Type 1, Receptor, Fibroblast Growth Factor, Type 3, Receptor, Fibroblast Growth Factor, Type 4, Receptors, Fibroblast Growth Factor, Signal Transduction, fibroblast growth factor, FGFR, intestinal cell kinase, ICK, cilia length
Abstract

Vertebrate primary cilium is a Hedgehog signaling center but the extent of its involvement in other signaling systems is less well understood. This report delineates a mechanism by which fibroblast growth factor (FGF) controls primary cilia. Employing proteomic approaches to characterize proteins associated with the FGF-receptor, FGFR3, we identified the serine/threonine kinase intestinal cell kinase (ICK) as an FGFR interactor. ICK is involved in ciliogenesis and participates in control of ciliary length. FGF signaling partially abolished ICK's kinase activity, through FGFR-mediated ICK phosphorylation at conserved residue Tyr15, which interfered with optimal ATP binding. Activation of the FGF signaling pathway affected both primary cilia length and function in a manner consistent with cilia effects caused by inhibition of ICK activity. Moreover, knockdown and knockout of ICK rescued the FGF-mediated effect on cilia. We provide conclusive evidence that FGF signaling controls cilia via interaction with ICK.

Published
2019

29. Dysfunction of peripheral somatic and autonomic nervous system in patients with severe forms of Crohn's disease on biological therapy with TNFα inhibitors-A single center study.

Author

Martin Wasserbauer, Sarka Mala, Katerina Stechova, Stepan Hlava, Pavlina Cernikova, Jan Stovicek, Jiri Drabek, Jan Broz, Dita Pichlerova, Barbora Kucerova, Petra Liskova, Jan Kral, Lucia Bartuskova, and Radan Keil

Subjects
Medicine, Science
Abstract

ObjectiveCrohn's disease (CD) can be associated with a wide range of extraintestinal manifestations (EIMs), including neurological ones. Published studies differ in their conclusions about the epidemiology and etiopathogenesis of neurological EIMs. The aims of this study were to demonstrate the presence and find risk factors of peripheral (somatic and autonomic) neuropathy patients with severe CD on anti-TNFα biological therapy.Material and methodsA clinical examination focusing on detection of peripheral sensor-motor nervous dysfunction (including Sudoscan) and examination of autonomic nervous system dysfunction (using Ewing´s battery tests and spectral analysis) together with laboratory tests and collection of demographic data followed by administration of questionnaires were performed on a total of 30 neurologically asymptomatic outpatients with severe CD on anti-TNFα biological therapy.ResultsPeripheral sensor-motor nervous function via clinical neurological examination was pathological in 36.7% and Sudoscan in 33.3% of cases. Statistically significant associations between vibration perception test and age, CD and biological therapy duration, body mass index and Crohn's Disease Activity Index were proved while statistically significant associations between temperature perception test and age and BMI were proved as well. Additionally, a decrease of total protein in a patient´s serum below the physiological cut-off in the 6 months prior to measurement was associated with a pathological result of a Sudoscan. Cardiovascular autonomic neuropathy based on Ewing´s battery tests was present in 56.7% of patients, no statistically significant risk factors were found. Our peripheral neuropathy questionnaire correlated with the results of the Sudoscan test and some tests of the clinical examination of peripheral sensor-motor nervous function (discriminatory contact perception test, temperature perception test).ConclusionsThis study demonstrated a relatively high prevalence of peripheral (especially autonomic) neuropathy and verified some risk factors for the development of peripheral somatic neuropathy in asymptomatic patients with severe form of CD on anti-TNFα biological therapy.

Published
2023
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30. A measurement of the K+→ π+μ+μ− decay

Author

Cortina Gil, E., Kleimenova, A., Minucci, E., Padolski, S., Petrov, P., Shaikhiev, A., Volpe, R., Numao, T., Petrov, Y., Velghe, B., Wong, V. W. S., Bryman, D., Fu, J., Husek, T., Jerhot, J., Kampf, K., Zamkovsky, M., Aliberti, R., Khoriauli, G., Kunze, J., Lomidze, D., Peruzzo, L., Vormstein, M., Wanke, R., Dalpiaz, P., Fiorini, M., Neri, I., Norton, A., Petrucci, F., Wahl, H., Cotta Ramusino, A., Gianoli, A., Iacopini, E., Latino, G., Lenti, M., Parenti, A., Bizzeti, A., Bucci, F., Antonelli, A., Georgiev, G., Kozhuharov, V., Lanfranchi, G., Martellotti, S., Moulson, M., Spadaro, T., Tinti, G., Ambrosino, F., Capussela, T., Corvino, M., Di Filippo, D., Fiorenza, R., Massarotti, P., Mirra, M., Napolitano, M., Saracino, G., Anzivino, G., Brizioli, F., Imbergamo, E., Lollini, R., Piandani, R., Santoni, C., Barbanera, M., Cenci, P., Checcucci, B., Lubrano, P., Lupi, M., Pepe, M., Piccini, M., Costantini, F., Di Lella, L., Doble, N., Giorgi, M., Giudici, S., Lamanna, G., Lari, E., Pedreschi, E., Sozzi, M., Cerri, C., Fantechi, R., Pontisso, L., Spinella, F., Mannelli, I., D’Agostini, G., Raggi, M., Biagioni, A., Cretaro, P., Frezza, O., Leonardi, E., Lonardo, A., Turisini, M., Valente, P., Vicini, P., Ammendola, R., Bonaiuto, V., Fucci, A., Salamon, A., Sargeni, F., Arcidiacono, R., Bloch-Devaux, B., Boretto, M., Menichetti, E., Migliore, E., Soldi, D., Biino, C., Filippi, A., Marchetto, F., Engelfried, J., Estrada-Tristan, N., Bragadireanu, A. M., Ghinescu, S. A., Hutanu, O. E., Baeva, A., Baigarashev, D., Emelyanov, D., Enik, T., Falaleev, V., Kekelidze, V., Korotkova, A., Litov, L., Madigozhin, D., Misheva, M., Molokanova, N., Movchan, S., Polenkevich, I., Potrebenikov, Yu., Shkarovskiy, S., Zinchenko, A., Fedotov, S., Gushchin, E., Khotyantsev, A., Kudenko, Y., Kurochka, V., Medvedeva, M., Mefodev, A., Kholodenko, S., Kurshetsov, V., Obraztsov, V., Ostankov, A., Semenov, V., Sugonyaev, V., Yushchenko, O., Bician, L., Blazek, T., Cerny, V., Kucerova, Z., Bernhard, J., Ceccucci, A., Danielsson, H., De Simone, N., Duval, F., Döbrich, B., Federici, L., Gamberini, E., Gatignon, L., Guida, R., Hahn, F., Holzer, E. B., Jenninger, B., Koval, M., Laycock, P., Lehmann Miotto, G., Lichard, P., Mapelli, A., Marchevski, R., Massri, K., Noy, M., Palladino, V., Perrin-Terrin, M., Pinzino, J., Ryjov, V., Schuchmann, S., Venditti, S., Bache, T., Brunetti, M. B., Duk, V., Fascianelli, V., Fry, J. R., Gonnella, F., Goudzovski, E., Henshaw, J., Iacobuzio, L., Lazzeroni, C., Lurkin, N., Newson, F., Parkinson, C., Romano, A., Sergi, A., Sturgess, A., Swallow, J., Tomczak, A., Heath, H., Page, R., Trilov, S., Angelucci, B., Britton, D., Graham, C., Protopopescu, D., Carmignani, J., Dainton, J. B., Jones, R. W. L., Ruggiero, G., Fulton, L., Hutchcroft, D., Maurice, E., Wrona, B., Conovaloff, A., Cooper, P., Coward, D., and Rubin, P.

Published
2022
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31. Compression and Reconstruction of Random Microstructures using Accelerated Lineal Path Function

Author

Havelka, Jan, Kučerová, Anna, and Sýkora, Jan

Subjects
Condensed Matter - Materials Science, Physics - Computational Physics
Abstract

Microstructure reconstruction and compression techniques are designed to find a microstructure with desired properties. While the microstructure reconstruction searches for a microstructure with prescribed statistical properties, the microstructure compression focuses on efficient representation of material morphology for a purpose of multiscale modelling. Successful application of those techniques, nevertheless, requires proper understanding of underlying statistical descriptors quantifying material morphology. In this paper we focus on the lineal path function designed to capture namely short-range effects and phase connectedness, which can be hardly handled by the commonly used two-point probability function. The usage of the lineal path function is, however, significantly limited by huge computational requirements. So as to examine the properties of the lineal path function within the computationally exhaustive compression and reconstruction processes, we start with the acceleration of the lineal path evaluation, namely by porting part of its code to the graphics processing unit using the CUDA (Compute Unified Device Architecture) programming environment. This allows us to present a unique comparison of the entire lineal path function with the commonly used rough approximation based on the Monte Carlo and/or sampling template. Moreover, the accelerated version of the lineal path function is then compared with the two-point probability function within the compression and reconstruction of two-phase morphologies. Their significant features are thoroughly discussed and illustrated on a set of artificial periodic as well as real-world random microstructures., Comment: 37 pages, 18 figures, submitted for publication

Published
2016

32. Mutation in Drosophila concentrative nucleoside transporter 1 alters spermatid maturation and mating behavior

Author

Houda Ouns Maaroufi, Lucie Pauchova, Yu-Hsien Lin, Bulah Chia-Hsiang Wu, Lenka Rouhova, Lucie Kucerova, Ligia Cota Vieira, Marek Renner, Hana Sehadova, Miluse Hradilova, and Michal Zurovec

Subjects
cnt1, gamete, spermatogenesis, testis, adenosine, copulation, Biology (General), QH301-705.5
Abstract

Concentrative nucleoside transporters (Cnts) are unidirectional carriers that mediate the energy-costly influx of nucleosides driven by the transmembrane sodium gradient. Cnts are transmembrane proteins that share a common structural organization and are found in all phyla. Although there have been studies on Cnts from a biochemical perspective, no deep research has examined their role at the organismal level. Here, we investigated the role of the Drosophila melanogaster cnt1 gene, which is specifically expressed in the testes. We used the CRISPR/Cas9 system to generate a mutation in the cnt1 gene. The cnt1 mutants exhibited defects in the duration of copulation and spermatid maturation, which significantly impaired male fertility. The most striking effect of the cnt1 mutation in spermatid maturation was an abnormal structure of the sperm tail, in which the formation of major and minor mitochondrial derivatives was disrupted. Our results demonstrate the importance of cnt1 in male fertility and suggest that the observed defects in mating behavior and spermatogenesis are due to alterations in nucleoside transport and associated metabolic pathways.

Published
2022
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33. Searches for lepton number violating K+ → π−(π0)e+e+ decays

Author

E. Cortina Gil, A. Kleimenova, E. Minucci, S. Padolski, P. Petrov, A. Shaikhiev, R. Volpe, T. Numao, Y. Petrov, B. Velghe, V.W.S. Wong, D. Bryman, J. Fu, T. Husek, J. Jerhot, K. Kampf, M. Zamkovsky, R. Aliberti, G. Khoriauli, J. Kunze, D. Lomidze, L. Peruzzo, M. Vormstein, R. Wanke, P. Dalpiaz, M. Fiorini, I. Neri, A. Norton, F. Petrucci, H. Wahl, A. Cotta Ramusino, A. Gianoli, E. Iacopini, G. Latino, M. Lenti, A. Parenti, A. Bizzeti, F. Bucci, A. Antonelli, G. Georgiev, V. Kozhuharov, G. Lanfranchi, S. Martellotti, M. Moulson, T. Spadaro, G. Tinti, F. Ambrosino, T. Capussela, M. Corvino, D. Di Filippo, R. Fiorenza, P. Massarotti, M. Mirra, M. Napolitano, G. Saracino, G. Anzivino, F. Brizioli, E. Imbergamo, R. Lollini, R. Piandani, C. Santoni, M. Barbanera, P. Cenci, B. Checcucci, P. Lubrano, M. Lupi, M. Pepe, M. Piccini, F. Costantini, L. Di Lella, N. Doble, M. Giorgi, S. Giudici, G. Lamanna, E. Lari, E. Pedreschi, M. Sozzi, C. Cerri, R. Fantechi, L. Pontisso, F. Spinella, I. Mannelli, G. D'Agostini, M. Raggi, A. Biagioni, P. Cretaro, O. Frezza, E. Leonardi, A. Lonardo, M. Turisini, P. Valente, P. Vicini, R. Ammendola, V. Bonaiuto, A. Fucci, A. Salamon, F. Sargeni, R. Arcidiacono, B. Bloch-Devaux, M. Boretto, E. Menichetti, E. Migliore, D. Soldi, C. Biino, A. Filippi, F. Marchetto, J. Engelfried, N. Estrada-Tristan, A.M. Bragadireanu, S.A. Ghinescu, O.E. Hutanu, A. Baeva, D. Baigarashev, D. Emelyanov, T. Enik, V. Falaleev, V. Kekelidze, A. Korotkova, L. Litov, D. Madigozhin, M. Misheva, N. Molokanova, S. Movchan, I. Polenkevich, Yu. Potrebenikov, S. Shkarovskiy, A. Zinchenko, S. Fedotov, E. Gushchin, A. Khotyantsev, Y. Kudenko, V. Kurochka, M. Medvedeva, A. Mefodev, S. Kholodenko, V. Kurshetsov, V. Obraztsov, A. Ostankov, V. Semenov, V. Sugonyaev, O. Yushchenko, L. Bician, T. Blazek, V. Cerny, Z. Kucerova, J. Bernhard, A. Ceccucci, H. Danielsson, N. De Simone, F. Duval, B. Döbrich, L. Federici, E. Gamberini, L. Gatignon, R. Guida, F. Hahn, E.B. Holzer, B. Jenninger, M. Koval, P. Laycock, G. Lehmann Miotto, P. Lichard, A. Mapelli, R. Marchevski, K. Massri, M. Noy, V. Palladino, M. Perrin-Terrin, J. Pinzino, V. Ryjov, S. Schuchmann, S. Venditti, T. Bache, M.B. Brunetti, V. Duk, V. Fascianelli, J.R. Fry, F. Gonnella, E. Goudzovski, J. Henshaw, L. Iacobuzio, C. Lazzeroni, N. Lurkin, F. Newson, C. Parkinson, A. Romano, A. Sergi, A. Sturgess, J. Swallow, A. Tomczak, H. Heath, R. Page, S. Trilov, B. Angelucci, D. Britton, C. Graham, D. Protopopescu, J. Carmignani, J.B. Dainton, R.W.L. Jones, G. Ruggiero, L. Fulton, D. Hutchcroft, E. Maurice, B. Wrona, A. Conovaloff, P. Cooper, D. Coward, and P. Rubin

Subjects
Physics, QC1-999
Abstract

Searches for lepton number violating K+→π−e+e+ and K+→π−π0e+e+ decays have been performed using the complete dataset collected by the NA62 experiment at CERN in 2016–2018. Upper limits of 5.3×10−11 and 8.5×10−10 are obtained on the decay branching fractions at 90% confidence level. The former result improves by a factor of four over the previous best limit, while the latter result represents the first limit on the K+→π−π0e+e+ decay rate.

Published
2022
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34. Artificial neural networks in calibration of nonlinear mechanical models

Author

Mareš, Tomáš, Janouchová, Eliška, and Kučerová, Anna

Subjects
Computer Science - Neural and Evolutionary Computing, Computer Science - Computational Engineering, Finance, and Science
Abstract

Rapid development in numerical modelling of materials and the complexity of new models increases quickly together with their computational demands. Despite the growing performance of modern computers and clusters, calibration of such models from noisy experimental data remains a nontrivial and often computationally exhaustive task. The layered neural networks thus represent a robust and efficient technique to overcome the time-consuming simulations of a calibrated model. The potential of neural networks consists in simple implementation and high versatility in approximating nonlinear relationships. Therefore, there were several approaches proposed to accelerate the calibration of nonlinear models by neural networks. This contribution reviews and compares three possible strategies based on approximating (i) model response, (ii) inverse relationship between the model response and its parameters and (iii) error function quantifying how well the model fits the data. The advantages and drawbacks of particular strategies are demonstrated on the calibration of four parameters of the affinity hydration model from simulated data as well as from experimental measurements. This model is highly nonlinear, but computationally cheap thus allowing its calibration without any approximation and better quantification of results obtained by the examined calibration strategies. The paper can be thus viewed as a guide intended for the engineers to help them select an appropriate strategy in their particular calibration problems., Comment: 26 pages, 8 figures, 11 tables, accepted for publication in Advances in Engineering Software

Published
2015
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35. Adipocytokines in Graves’ orbitopathy and the effect of high-dose corticosteroids

Author

Jan Schovanek, Michal Krupka, Lubica Cibickova, Marta Karhanova, Sunaina Reddy, Veronika Kucerova, Zdenek Frysak, and David Karasek

Subjects
graves’ orbitopathy, methylprednisolone, adipokines, Diseases of the endocrine glands. Clinical endocrinology, RC648-665, Cytology, QH573-671, Physiology, QP1-981
Abstract

Graves’ orbitopathy (GO) is a serious, progressive eye condition seen in patients with autoimmune thyroid disease. GO is characterized by inflammation and swelling of soft orbital tissues. Adipose tissue produces cytokine mediators called adipokines. The present study focuses on the relationship between serum levels of selected adipokines in patients with GO, comparing them with the control group, and uniquely describes the effect of high-dose systemic corticosteroids (HDSC) on their levels. For the purposes of this study, we collected blood samples before and after the treatment with HDSC from 60 GO patients and 34 control subjects and measured serum levels of adiponectin, AIF-1, A-FABP and FGF-21. Levels of adiponectin significantly differed among the three study groups (ANOVA p = 0.03). AIF-1 levels were also significantly different among the study groups (ANOVA p

Published
2021
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36. Decitabine potentiates efficacy of doxorubicin in a preclinical trastuzumab-resistant HER2-positive breast cancer models

Author

Verona Buocikova, Eleonora Marta Longhin, Eleftherios Pilalis, Chara Mastrokalou, Svetlana Miklikova, Marina Cihova, Alexandra Poturnayova, Katarina Mackova, Andrea Babelova, Lenka Trnkova, Naouale El Yamani, Congying Zheng, Ivan Rios-Mondragon, Martina Labudova, Lucia Csaderova, Kristina Mikus Kuracinova, Peter Makovicky, Lucia Kucerova, Miroslava Matuskova, Mihaela Roxana Cimpan, Maria Dusinska, Pavel Babal, Aristotelis Chatziioannou, Alena Gabelova, Elise Rundén-Pran, and Bozena Smolkova

Subjects
Breast cancer, Epigenetic drugs, Combination therapy, Decitabine, Doxorubicin, DNA methylation, Therapeutics. Pharmacology, RM1-950
Abstract

Acquired drug resistance and metastasis in breast cancer (BC) are coupled with epigenetic deregulation of gene expression. Epigenetic drugs, aiming to reverse these aberrant transcriptional patterns and sensitize cancer cells to other therapies, provide a new treatment strategy for drug-resistant tumors. Here we investigated the ability of DNA methyltransferase (DNMT) inhibitor decitabine (DAC) to increase the sensitivity of BC cells to anthracycline antibiotic doxorubicin (DOX). Three cell lines representing different molecular BC subtypes, JIMT-1, MDA-MB-231 and T-47D, were used to evaluate the synergy of sequential DAC + DOX treatment in vitro. The cytotoxicity, genotoxicity, apoptosis, and migration capacity were tested in 2D and 3D cultures. Moreover, genome-wide DNA methylation and transcriptomic analyses were employed to understand the differences underlying DAC responsiveness. The ability of DAC to sensitize trastuzumab-resistant HER2-positive JIMT-1 cells to DOX was examined in vivo in an orthotopic xenograft mouse model. DAC and DOX synergistic effect was identified in all tested cell lines, with JIMT-1 cells being most sensitive to DAC. Based on the whole-genome data, we assume that the aggressive behavior of JIMT-1 cells can be related to the enrichment of epithelial-to-mesenchymal transition and stemness-associated pathways in this cell line. The four-week DAC + DOX sequential administration significantly reduced the tumor growth, DNMT1 expression, and global DNA methylation in xenograft tissues. The efficacy of combination therapy was comparable to effect of pegylated liposomal DOX, used exclusively for the treatment of metastatic BC. This work demonstrates the potential of epigenetic drugs to modulate cancer cells' sensitivity to other forms of anticancer therapy.

Published
2022
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37. Uncertainty Propagation in Elasto-Plastic Material

Author

Sýkora, Jan and Kučerová, Anna

Subjects
Computer Science - Computational Engineering, Finance, and Science
Abstract

Macroscopically heterogeneous materials, characterised mostly by comparable heterogeneity lengthscale and structural sizes, can no longer be modelled by deterministic approach instead. It is convenient to introduce stochastic approach with uncertain material parameters quantified as random fields and/or random variables. The present contribution is devoted to propagation of these uncertainties in mechanical modelling of inelastic behaviour. In such case the Monte Carlo method is the traditional approach for solving the proposed problem. Nevertheless, convergence rate is relatively slow, thus new methods (e.g. stochastic Galerkin method, stochastic collocation approach, etc.) have been recently developed to offer fast convergence for sufficiently smooth solution in the probability space. Our goal is to accelerate the uncertainty propagation using a polynomial chaos expansion based on stochastic collocation method. The whole concept is demonstrated on a simple numerical example of uniaxial test at a material point where interesting phenomena can be clearly understood.

Published
2014

38. Assessment of blood–brain barrier penetration of miltefosine used to treat a fatal case of granulomatous amebic encephalitis possibly caused by an unusual Balamuthia mandrillaris strain

Author

Roy, Sharon L, Atkins, Jane T, Gennuso, Rosemaria, Kofos, Danny, Sriram, Rama R, Dorlo, Thomas PC, Hayes, Teresa, Qvarnstrom, Yvonne, Kucerova, Zuzana, Guglielmo, B Joseph, and Visvesvara, Govinda S

Subjects
Biomedical and Clinical Sciences, Clinical Sciences, Orphan Drug, Clinical Research, Rare Diseases, Neurosciences, Development of treatments and therapeutic interventions, 5.1 Pharmaceuticals, Infection, Good Health and Well Being, Amebiasis, Amebicides, Balamuthia mandrillaris, Blood-Brain Barrier, Brain, Child, Encephalitis, Fatal Outcome, Humans, Male, Phosphorylcholine, Balamuthia, Granulomatous, Miltefosine, Microbiology, Veterinary Sciences, Medical Microbiology, Mycology & Parasitology, Veterinary sciences, Medical microbiology
Abstract

Balamuthia mandrillaris, a free-living ameba, causes rare but frequently fatal granulomatous amebic encephalitis (GAE). Few patients have survived after receiving experimental drug combinations, with or without brain lesion excisions. Some GAE survivors have been treated with a multi-drug regimen including miltefosine, an investigational anti-leishmanial agent with in vitro amebacidal activity. Miltefosine dosing for GAE has been based on leishmaniasis dosing because no data exist in humans concerning its pharmacologic distribution in the central nervous system. We describe results of limited cerebrospinal fluid (CSF) and serum drug level testing performed during clinical management of a child with fatal GAE who was treated with a multiple drug regimen including miltefosine. Brain biopsy specimens, CSF, and sera were tested for B. mandrillaris using multiple techniques, including culture, real-time polymerase chain reaction, immunohistochemical techniques, and serology. CSF and serum miltefosine levels were determined using a liquid chromatography method coupled to tandem mass spectrometry. The CSF miltefosine concentration on hospital admission day 12 was 0.4 μg/mL. The serum miltefosine concentration on day 37, about 80 h post-miltefosine treatment, was 15.3 μg/mL. These are the first results confirming some blood-brain barrier penetration by miltefosine in a human, although with low-level CSF accumulation. Further evaluation of brain parenchyma penetration is required to determine optimal miltefosine dosing for Balamuthia GAE, balanced with the drug's toxicity profile. Additionally, the Balamuthia isolate was evaluated by real-time polymerase chain reaction (PCR), demonstrating genetic variability in 18S ribosomal RNA (18S rRNA) sequences and possibly signaling the first identification of multiple Balamuthia strains with varying pathogenicities.

Published
2015

39. An investigation of the very rare K + → π + ν ν ¯ $$ {K}^{+}\to {\pi}^{+}\nu \overline{\nu} $$ decay

Author

The NA62 collaboration, E. Cortina Gil, A. Kleimenova, E. Minucci, S. Padolski, P. Petrov, A. Shaikhiev, R. Volpe, T. Numao, B. Velghe, D. Bryman, J. Fu, T. Husek, J. Jerhot, K. Kampf, M. Zamkovsky, R. Aliberti, G. Khoriauli, J. Kunze, D. Lomidze, R. Marchevski, L. Peruzzo, M. Vormstein, R. Wanke, P. Dalpiaz, M. Fiorini, I. Neri, A. Norton, F. Petrucci, H. Wahl, A. Cotta Ramusino, A. Gianoli, E. Iacopini, G. Latino, M. Lenti, A. Parenti, A. Bizzeti, F. Bucci, A. Antonelli, G. Georgiev, V. Kozhuharov, G. Lanfranchi, S. Martellotti, M. Moulson, T. Spadaro, F. Ambrosino, T. Capussela, M. Corvino, D. Di Filippo, P. Massarotti, M. Mirra, M. Napolitano, G. Saracino, G. Anzivino, F. Brizioli, E. Imbergamo, R. Lollini, R. Piandani, C. Santoni, M. Barbanera, P. Cenci, B. Checcucci, P. Lubrano, M. Lupi, M. Pepe, M. Piccini, F. Costantini, L. Di Lella, N. Doble, M. Giorgi, S. Giudici, G. Lamanna, E. Lari, E. Pedreschi, M. Sozzi, C. Cerri, R. Fantechi, L. Pontisso, F. Spinella, I. Mannelli, G. D’Agostini, M. Raggi, A. Biagioni, E. Leonardi, A. Lonardo, P. Valente, P. Vicini, R. Ammendola, V. Bonaiuto, A. Fucci, A. Salamon, F. Sargeni, R. Arcidiacono, B. Bloch-Devaux, M. Boretto, E. Menichetti, E. Migliore, D. Soldi, C. Biino, A. Filippi, F. Marchetto, J. Engelfried, N. Estrada-Tristan, A. M. Bragadireanu, S. A. Ghinescu, O. E. Hutanu, A. Baeva, D. Baigarashev, D. Emelyanov, T. Enik, V. Falaleev, V. Kekelidze, A. Korotkova, L. Litov, D. Madigozhin, M. Misheva, N. Molokanova, S. Movchan, I. Polenkevich, Yu. Potrebenikov, S. Shkarovskiy, A. Zinchenko, S. Fedotov, E. Gushchin, A. Khotyantsev, Y. Kudenko, V. Kurochka, M. Medvedeva, A. Mefodev, S. Kholodenko, V. Kurshetsov, V. Obraztsov, A. Ostankov, V. Semenov, V. Sugonyaev, O. Yushchenko, L. Bician, T. Blazek, V. Cerny, Z. Kucerova, J. Bernhard, A. Ceccucci, H. Danielsson, N. De Simone, F. Duval, B. Döbrich, L. Federici, E. Gamberini, L. Gatignon, R. Guida, F. Hahn, E. B. Holzer, B. Jenninger, M. Koval, P. Laycock, G. Lehmann Miotto, P. Lichard, A. Mapelli, K. Massri, M. Noy, V. Palladino, M. Perrin-Terrin, J. Pinzino, V. Ryjov, S. Schuchmann, S. Venditti, T. Bache, M. B. Brunetti, V. Duk, V. Fascianelli, J. R. Fry, F. Gonnella, E. Goudzovski, L. Iacobuzio, C. Lazzeroni, N. Lurkin, F. Newson, C. Parkinson, A. Romano, A. Sergi, A. Sturgess, J. Swallow, H. Heath, R. Page, S. Trilov, B. Angelucci, D. Britton, C. Graham, D. Protopopescu, J. Carmignani, J. B. Dainton, R. W. L. Jones, G. Ruggiero, L. Fulton, D. Hutchcroft, E. Maurice, B. Wrona, A. Conovaloff, P. Cooper, D. Coward, and P. Rubin

Subjects
Fixed target experiments, Flavor physics, Flavour Changing Neutral Currents, Rare decay, Nuclear and particle physics. Atomic energy. Radioactivity, QC770-798
Abstract

Abstract The NA62 experiment reports an investigation of the K + → π + ν ν ¯ $$ {K}^{+}\to {\pi}^{+}\nu \overline{\nu} $$ mode from a sample of K + decays collected in 2017 at the CERN SPS. The experiment has achieved a single event sensitivity of (0.389 ± 0.024) × 10 −10, corresponding to 2.2 events assuming the Standard Model branching ratio of (8.4 ± 1.0) × 10 −11. Two signal candidates are observed with an expected background of 1.5 events. Combined with the result of a similar analysis conducted by NA62 on a smaller data set recorded in 2016, the collaboration now reports an upper limit of 1.78 × 10 −10 for the K + → π + ν ν ¯ $$ {K}^{+}\to {\pi}^{+}\nu \overline{\nu} $$ branching ratio at 90% CL. This, together with the corresponding 68% CL measurement of ( 0.48 − 0.48 + 0.72 $$ {0.48}_{-0.48}^{+0.72} $$ ) × 10 −10, are currently the most precise results worldwide, and are able to constrain some New Physics models that predict large enhancements still allowed by previous measurements.

Published
2020
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40. Napabucasin overcomes cisplatin resistance in ovarian germ cell tumor-derived cell line by inhibiting cancer stemness

Author

Silvia Schmidtova, Lambert C. J. Dorssers, Katarina Kalavska, Ad J. M. Gillis, J. Wolter Oosterhuis, Hans Stoop, Svetlana Miklikova, Zuzana Kozovska, Monika Burikova, Katarina Gercakova, Erika Durinikova, Michal Chovanec, Michal Mego, Lucia Kucerova, and Leendert H. J. Looijenga

Subjects
Yolk sac tumor, Cisplatin, Aldehyde dehydrogenase, Cancer stem cells, Neoplasms. Tumors. Oncology. Including cancer and carcinogens, RC254-282, Cytology, QH573-671
Abstract

Abstract Background Cisplatin resistance of ovarian yolk sac tumors (oYST) is a clinical challenge due to dismal patient prognosis, even though the disease is extremely rare. We investigated potential association between cisplatin resistance and cancer stem cell (CSC) markers in chemoresistant oYST cells and targeting strategies to overcome resistance in oYST. Methods Chemoresistant cells were derived from chemosensitive human oYST cells by cultivation in cisplatin in vitro. Derivative cells were characterized by chemoresistance, functional assays, flow cytometry, gene expression and protein arrays focused on CSC markers. RNAseq, methylation and microRNA profiling were performed. Quail chorioallantoic membranes (CAM) with implanted oYST cells were used to analyze the micro-tumor extent and interconnection with the CAM. Tumorigenicity in vivo was determined on immunodeficient mouse model. Chemoresistant cells were treated by inhibitors intefering with the CSC properties to examine the chemosensitization to cisplatin. Results Long-term cisplatin exposure resulted in seven-fold higher IC50 value in resistant cells, cross-resistance to oxaliplatin and carboplatin, and increased migratory capacity, invasiveness and tumorigenicity, associated with hypomethylation of differentially methylated genes/promotors. Resistant cells exhibited increased expression of prominin-1 (CD133), ATP binding cassette subfamily G member 2 (ABCG2), aldehyde dehydrogenase 3 isoform A1 (ALDH3A1), correlating with reduced gene and promoter methylation, as well as increased expression of ALDH1A3 and higher overall ALDH enzymatic activity, rendering them cross-resistant to DEAB, disulfiram and napabucasin. Salinomycin and tunicamycin were significantly more toxic to resistant cells. Pretreatment with napabucasin resensitized the cells to cisplatin and reduced their tumorigenicity in vivo. Conclusions The novel chemoresistant cells represent unique model of refractory oYST. CSC markers are associated with cisplatin resistance being possible targets in chemorefractory oYST.

Published
2020
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41. Adalimumab biosimilars in the therapy of Crohn´s disease and ulcerative colitis: Prospective multicentric clinical monitoring.

Author

Martin Wasserbauer, Stepan Hlava, Jiri Drabek, Jan Stovicek, Petra Minarikova, Lenka Nedbalova, Tomas Drasar, Zdena Zadorova, Jiri Dolina, Stefan Konecny, Vladimír Kojecky, Jana Kozeluhova, Pavlina Cernikova, Dita Pichlerova, Barbora Kucerova, Stepan Coufal, and Radan Keil

Subjects
Medicine, Science
Abstract

ObjectiveThe adalimumab biosimilars FKB327 and GP2017 were approved for the therapy of patients with inflammatory bowel disease (IBD). Relatively few prospective studies with biosimilar adalimumab in patients with IBD have been published. The aim of this prospective observational study was to evaluate the effectiveness and safety of the biosimilar adalimumab.Material and methodsAdalimumab biosimilars FKB327 (Hulio®) and GP2017 (Hyrimoz®) were indicated to 50 naive patients in terms of biological therapy with Crohn's disease (CD) or ulcerative colitis (UC). Effectiveness of therapy was evaluated via the Crohn's Disease Activity Index [CDAI] or the Mayo Scoring System [MSS] in patients with CD or UC, respectively, before and after 12 weeks. Additional goals were to evaluate weight changes, laboratory tests and complications or adverse events of this therapy.ResultsIn CD patients, remission (CDAI ConclusionsThis prospective observational study proved the effectiveness of the adalimumab biosimilars FKB327 and GP2017 in IBD.

Published
2022
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42. Efficacy and safety of SARS-CoV-2 vaccination in patients with inflammatory bowel disease on immunosuppressive and biological therapy: Prospective observational study.

Author

Martin Wasserbauer, Stepan Hlava, Milan Trojanek, Jan Stovicek, Tomas Milota, Jiri Drabek, Petra Koptová, Andrea Cupkova, Dita Pichlerová, Barbora Kucerova, Stepan Coufal, and Radan Keil

Subjects
Medicine, Science
Abstract

Background and aimsSARS-CoV-2 is a worldwide serious health problem and vaccination seems to have a crucial role in managing the COVID-19 pandemic. The aim of this prospective observational study was to monitor the trend of antibodies against SARS-CoV-2 after vaccination with BNT162b2 (COMIRNATY) in patients with inflammatory bowel disease treated by immunosuppressive and/or biological therapy, demonstrate whether any type of this therapy is associated with poorer production of antibodies against COVID-19 and evaluate the safety of vaccination against COVID-19 in these patients.MethodsEighty-seven eligible patients from one tertiary gastroenterological center with inflammatory bowel disease (60 with CD, 27 with UC) treated by immunosuppressive and/or biological therapy from the antiTNFα group were indicated to vaccination against SARS-CoV-2. Effectiveness of vaccination was evaluated by the values of antibodies before and 4 weeks after 2nd dose of vaccine. Additional goal was to evaluate adverse events of vaccination.ResultsBefore the 2nd dose of vaccine, geometric mean of SARS-CoV-2 IgG antibodies were 40.7 U/ml in the biological therapy group, 34.8 U/ml in the azathioprine group and 44.8 U/ml in the combination therapy group of patients. The geometric means were 676.5.7 U/ml in the biological therapy group, 614.4 U/ml in the azathioprine group and 500.1 U/ml in the combination therapy group of patients four weeks after 2nd dose. Statistically significant differences between these groups were not proved. Several non-severe local and general adverse events were present in our patients with a majority of these events on the day of vaccine administration and the day after, no anaphylactic reactions were present.ConclusionsOur measurements proved the efficacy and safety of vaccination against SARS-CoV-2 in patients with inflammatory bowel disease treated by immunosuppressive and/or biological therapy. Statistically significant differences between our groups of patients were not proved.

Published
2022
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45. Soft computing-based calibration of microplane M4 model parameters: Methodology and validation

Author

Kucerova, A. and Leps, M.

Subjects
Computer Science - Computational Engineering, Finance, and Science
Abstract

Constitutive models for concrete based on the microplane concept have repeatedly proven their ability to well-reproduce its non-linear response on material as well as structural scales. The major obstacle to a routine application of this class of models is, however, the calibration of microplane-related constants from macroscopic data. The goal of this paper is two-fold: (i) to introduce the basic ingredients of a robust inverse procedure for the determination of dominant parameters of the M4 model proposed by Bazant and co-workers based on cascade Artificial Neural Networks trained by Evolutionary Algorithm and (ii) to validate the proposed methodology against a representative set of experimental data. The obtained results demonstrate that the soft computing-based method is capable of delivering the searched response with an accuracy comparable to the values obtained by expert users., Comment: 24 pages, 12 figures, 14 tables, submitted to Advances in Engineering Software, corrected and extended after the first review

Published
2013
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46. Time-dependent spectral-feature variations of stars displaying the B[e] phenomenon; I. V2028 Cyg

Author

Polster, J., Korcakova, D., Votruba, V., Skoda, P., Slechta, M., Kucerova, B., and Kubat, J.

Subjects
Astrophysics - Solar and Stellar Astrophysics
Abstract

We present results of nearly six years of spectroscopic observations of the B[e] star V2028 Cyg. The presence of the cold-type absorption lines combined with a hot-type spectrum indicate the binarity of this object. Since B[e] stars are embedded in an extended envelope, the usage of common stellar atmosphere models for the analysis is quite inappropriate. Therefore, we focus on the analysis of the long-term spectral line variations in order to determine the nature of this object. We present the time dependences of the equivalent width and radial velocities of the H alpha line, [O I] 6300 A, Fe II 6427, 6433, and 6456 A lines. The bisector variations and line intensities are shown for the H alpha line. The radial velocities are also measured for the absorption lines of the K component. No periodic variation is found. The observed data show correlations between the measured quantities, which can be used in future modelling.

Published
2012
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47. Compressing Random Microstructures via Stochastic Wang Tilings

Author

Novák, Jan, Kučerová, Anna, and Zeman, Jan

Subjects
Condensed Matter - Materials Science
Abstract

This paper presents a stochastic Wang tiling based technique to compress or reconstruct disordered microstructures on the basis of given spatial statistics. Unlike the existing approaches based on a single unit cell, it utilizes a finite set of tiles assembled by a stochastic tiling algorithm, thereby allowing to accurately reproduce long-range orientation orders in a computationally efficient manner. Although the basic features of the method are demonstrated for a two-dimensional particulate suspension, the present framework is fully extensible to generic multi-dimensional media., Comment: 4 pages, 6 figures, v2: minor changes as suggested by reviewers, v3: corrected two typos in the revised version

Published
2012
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48. Parameter Identification in a Probabilistic Setting

Author

Rosić, Bojana V., Kučerová, Anna, Sýkora, Jan, Pajonk, Oliver, Litvinenko, Alexander, and Matthies, Hermann G.

Subjects
Computer Science - Numerical Analysis, Computer Science - Computational Engineering, Finance, and Science
Abstract

Parameter identification problems are formulated in a probabilistic language, where the randomness reflects the uncertainty about the knowledge of the true values. This setting allows conceptually easily to incorporate new information, e.g. through a measurement, by connecting it to Bayes's theorem. The unknown quantity is modelled as a (may be high-dimensional) random variable. Such a description has two constituents, the measurable function and the measure. One group of methods is identified as updating the measure, the other group changes the measurable function. We connect both groups with the relatively recent methods of functional approximation of stochastic problems, and introduce especially in combination with the second group of methods a new procedure which does not need any sampling, hence works completely deterministically. It also seems to be the fastest and more reliable when compared with other methods. We show by example that it also works for highly nonlinear non-smooth problems with non-Gaussian measures., Comment: 29 pages, 16 figures

Published
2012
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49. Competitive Comparison of Optimal Designs of Experiments for Sampling-based Sensitivity Analysis

Author

Janouchova, Eliska and Kucerova, Anna

Subjects
Computer Science - Computational Engineering, Finance, and Science, Computer Science - Numerical Analysis, Statistics - Methodology
Abstract

Nowadays, the numerical models of real-world structures are more precise, more complex and, of course, more time-consuming. Despite the growth of a computational effort, the exploration of model behaviour remains a complex task. The sensitivity analysis is a basic tool for investigating the sensitivity of the model to its inputs. One widely used strategy to assess the sensitivity is based on a finite set of simulations for a given sets of input parameters, i.e. points in the design space. An estimate of the sensitivity can be then obtained by computing correlations between the input parameters and the chosen response of the model. The accuracy of the sensitivity prediction depends on the choice of design points called the design of experiments. The aim of the presented paper is to review and compare available criteria determining the quality of the design of experiments suitable for sampling-based sensitivity analysis., Comment: 18 pages, 15 figures, 4 tables, CSC2011 special issue, corrected and extended after the first review

Published
2012
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50. Microstructural enrichment functions based on stochastic Wang tilings

Author

Novák, J., Kučerová, A., and Zeman, J.

Subjects
Condensed Matter - Materials Science
Abstract

This paper presents an approach to constructing microstructural enrichment functions to local fields in non-periodic heterogeneous materials with applications in Partition of Unity and Hybrid Finite Element schemes. It is based on a concept of aperiodic tilings by the Wang tiles, designed to produce microstructures morphologically similar to original media and enrichment functions that satisfy the underlying governing equations. An appealing feature of this approach is that the enrichment functions are defined only on a small set of square tiles and extended to larger domains by an inexpensive stochastic tiling algorithm in a non-periodic manner. Feasibility of the proposed methodology is demonstrated on constructions of stress enrichment functions for two-dimensional mono-disperse particulate media., Comment: 27 pages, 12 figures; v2: completely re-written after the first review

Published
2011
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