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Search results for: casp
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Melatonin maintains mitochondrial membrane potential and attenuates activation of initiator (casp-9) and effector caspases (casp-3/casp-7) and PARP in UVR-exposed HaCaT keratinocytes
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Modeling SARS‐CoV‐2 proteins in the CASP‐commons experiment
PublicationCritical Assessment of Structure Prediction (CASP) is an organization aimed at advancing the state of the art in computing protein structure from sequence. In the spring of 2020, CASP launched a community project to compute the structures of the most structurally challenging proteins coded for in the SARS-CoV-2 genome. Forty-seven research groups submitted over 3000 three-dimensional models and 700 sets of accuracy estimates on...
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Analizy i Studia CASP
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An analysis and evaluation of the WeFold collaborative for protein structure prediction and its pipelines in CASP11 and CASP12
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Nonstationary Pharmacokinetics of Caspofungin in ICU Patients
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Caspase-11 promotes allergic airway inflammation
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Prediction of protein assemblies, the next frontier: The CASP14‐CAPRI experiment
PublicationWe present the results for CAPRI Round 50, the 4th joint CASP-CAPRI protein assembly prediction challenge. The Round comprised a total of 12 targets, including 6 dimers, 3 trimers, and 3 higher-order oligomers. Four of these were easy targets, for which good structural templates were available either for the full assembly, or for the main interfaces (of the higher-order oligomers). Eight were difficult targets for which only distantly...
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Impact of AlphaFold on structure prediction of protein complexes: The CASP15‐CAPRI experiment
PublicationWe present the results for CAPRI Round 54, the 5th joint CASP-CAPRI protein assembly prediction challenge. The Round offered 37 targets, including 14 homodimers, 3 homo-trimers, 13 heterodimers including 3 antibody–antigen complexes, and 7 large assemblies. On average 70 CASP and CAPRI predictor groups, including more than 20 automatics servers, submitted models for each target. A total of 21 941 models submitted by these groups...
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ISO/IEC 27001-Based Estimation of Cybersecurity Costs with Caspea
PublicationIn the contemporary, knowledge-based economy, enterprises are forced to bear the costs related to cybersecurity. While breaches negatively affect companies' budgets, accurate decisions on security investments result in visible savings. At the same time, cybersecurity cost assessment methods that support these decisions are lacking. Caspea addresses the gap by enabling the estimation of costs related to personnel activities involved...
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Lessons from application of the UNRES force field to predictions of structures of CASP10 targets
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Estimating the Cost of Cybersecurity Activities with CAsPeA: A Case Study and Comparative Analysis
PublicationContemporary approaches to the estimation of cybersecurity costs in organisations tend to focus on the cost of incidents or technological investments. However, there are other, less transparent costs related to cybersecurity management that need to be properly recognised in order to get a complete picture. These costs are associated with everyday activities and the time spent by employees on cybersecurity-related actions. Such...
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Assessment of chemical‐crosslink‐assisted protein structure modeling in CASP13
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Modeling protein structures with the coarse-grained UNRES force field in the CASP14 experiment
PublicationThe UNited RESidue (UNRES) force field was tested in the 14th Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction (CASP14), in which larger oligomeric and multimeric targets were present compared to previous editions. Three prediction modes were tested (i) ab initio (the UNRES group), (ii) contact-assisted (the UNRES- contact group), and (iii) template-assisted (the UNRES-template...
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Performance of protein-structure predictions with the physics-based UNRES force field in CASP11
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Blind prediction of homo‐ and hetero‐protein complexes: The CASP13‐CAPRI experiment
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Caspian Journal of Internal Medicine
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Caspian Journal of Environmental Sciences
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Caspian Journal of Neurological Sciences
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Improved Consensus-Fragment Selection in Template-Assisted Prediction of Protein Structures with the UNRES Force Field in CASP13
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Evaluation of the scale-consistent UNRES force field in template-free prediction of protein structures in the CASP13 experiment
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Use of the UNRES force field in template-assisted prediction of protein structures and the refinement of server models: Test with CASP12 targets
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Ceragenin CSA-13 as free molecules and attached to magnetic nanoparticle surfaces induce caspase-dependent apoptosis in human breast cancer cells via disruption of cell oxidative balance
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Detection of DNA Replication Intermediates after Two-Dimensional Agarose Gel Electrophoresis Using a Fluorescein-Labeled Probe
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Synthetic analogues of cyanobacterial alkaloid cylindrospermopsin and their toxicological activity
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Flow cytometry analysis of caspase 3/7 activation in A549, H460 and U2OS cells after exposure to TXT2 and TXT4
Open Research DataThe data contains flow cytometry analysis of caspase 3/7 activation in A549, H460 and U2OS cells after exposure to equitoxic concentrations of TXT2 and TXT4. DMSO and MTX were used as positive and negative controls, respectively. Caspase 3/7 activity was detected using CellEvent™ Caspase-3/7 Green Flow Cytometry Assay Kit (#C10427, Thermo Fisher Scientific)....
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Characteristics of blond and red star ruby jaffa graefruits (citrus paradisi):results of the studies in vitro, in vivo and on patients suffering from atherosclerosis
PublicationCelem projektu, którego wyniki opisano w pracy byly badania dwóch odmian (jasna i czerwona) owoców grejfruta (in vitro i in vivo) stosowanych jako suplement diety pacjentów cierpiących na arterioskleroze. Stwierdzono, że zawartość związków bioaktywnych a w szczególności zwiazakow fenolowych i lepsze właściwosci przeciwutelniajace wykazuja owoce jasnej odmiany grajfruta. Stosowanie diety z dodatkiem owoców czerownego grejfruta w...
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Multi-GPU-powered UNRES package for physics-based coarse-grained simulations of structure, dynamics, and thermodynamics of protein systems at biological size- and timescales
PublicationCoarse-grained models are nowadays extensively used in biomolecular simulations owing to the tremendous extension of size- and time-scale of simulations. The physics-based UNRES (UNited RESidue) model of proteins developed in our laboratory has only two interaction sites per amino-acid residue (united peptide groups and united side chains) and implicit solvent. However, owing to rigorous physics-based derivation, which enabled...