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Wyniki wyszukiwania dla: DNA–PROTEIN RECOGNITION
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Gentiana asclepiadea exerts antioxidant activity and enhances DNA repair of hydrogen peroxide- and silver nanoparticles-induced DNA damage
PublikacjaExposure to high levels of different environmental pollutants is known to be associated with induction of DNA damage in humans. Thus DNA repair is of great importance in preventing mutations and contributes crucially to the prevention of cancer. In our study we have focused on quantitative analysis of Gentiana asclepiadea aqueous or methanolic extracts obtained from flower and haulm, their antioxidant potency in ABTS post-column...
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The investigation of the effects of counterions in protein dynamics simulations
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Decisional DNA applied to digital TV
PublikacjaPrzedstawiono nowoczesną koncepcje integracji decyzyjnego DNA z telewizją cyfrową w celu pozyskiwania wiedzy o oglądalności poszczególnych programów.
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Construction and purification of his6-Thermus thermophilus MutS protein
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Role of cholesterol in substrate recognition by -secretase
Publikacja-Secretase is an enzyme known to cleave multiple substrates within their transmembrane domains, with the amyloid precursor protein of Alzheimer’s Disease among the most prominent examples. The activity of -secretase strictly depends on the membrane cholesterol content, yet the mechanistic role of cholesterol in the substrate binding and cleavage remains unclear. In this work, we used all-atom molecular dynamics simulations to examine...
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Testing the usability of decisional DNA in robotics
PublikacjaW pracy poddano dyskusji i nalizie obszary mozliwych zastowac reprezentacji wiedzy zwanej Decisional DNA w zagadnieniach zwiazanych z robotyka.
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Topology recognition and leader election in colored networks
PublikacjaTopology recognition and leader election are fundamental tasks in distributed computing in networks. The first of them requires each node to find a labeled isomorphic copy of the network, while the result of the second one consists in a single node adopting the label 1 (leader), with all other nodes adopting the label 0 and learning a path to the leader. We consider both these problems in networks whose nodes are equipped with...
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Preparation of DNA films for studies under vacuum conditions
PublikacjaExperiments were carried out to determine the optimum conditions required for the preparation of uniform films of supercoiled plasmid DNA to be used in irradiation experiments under high vacuum conditions. Investigations reveal that significant damage to the DNA molecules occurs due to the evacuation process when films were formed from DNA samples in ultra high purity water only. A variety of bases were tested for their possible...
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PROTEIN SCIENCE
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Phylogenetic trees of genus Oncidium Sw. based on analysis of DNA sequences
Dane BadawczeGenus Oncidium Sw. is widely regarded as a polyphiletic, and the taxonomic boundaries between him and such genera as Odontoglossum Kunth. or Miltonia Lindley remain blurred. The goal of the study was to determine the phylogenetic relationships within the genus Oncidium s.lato based on the DNA sequences analysis. The correlation between molecular data...
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Thermodynamics aspects of interactions between acridine derivatives and DNA
PublikacjaDNA is a molecular target for many anticancer and antiviral drugs. Therefore, a clear understanding of the interaction of small molecules with DNA is important in the rational design of ligands that can bind to DNA with high affinity and selectivity. There are several methods to investigate interactions between drug and DNA. Some of them measure changing into DNA structures, such as lengthening and untwisting of helix of DNA. Other...
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Early models of DNA damage formation
PublikacjaPrzeanalizowano jedne z pierwszych modeli opisujących uszkodzenia nici DNA. Przeanalizowano uszkodzenia powstające w pojedynczych i podwójnych niciach, pod wpływem czynników fizycznych i chemicznych.
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Isoform-specific inhibition of DNA topoisomerase II as the mechanism of action of novel anticancer agent C-1305
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Gesture recognition framework for multimedia content viewer controlling
PublikacjaIn the paper a system for controlling a multimedia content viewer by hand gestures is presented. First, selected methods used for gesture recognition are described. Two different application cases of the system, i.e. for multimedia presentation purposes and for multimedia content viewing are outlined. Moreover, a proposal of improvement of the system combining these approaches is also given. The system work cycle is reviewed. The...
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MP3vec: A Reusable Machine-Constructed Feature Representation for Protein Sequences
Publikacja—Machine Learning (ML) methods have been used with varying degrees of success on protein prediction tasks, with two inherent limitations. First, prediction performance often depends upon the features extracted from the proteins. Second, experimental data may be insufficient to construct reliable ML models. Here we introduce MP3vec, a transferable representation for protein sequences that is designed to be used specifically for sequence-to-sequence...
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Comparison of edge detection algorithms for electric wire recognition
PublikacjaEdge detection is the preliminary step in image processing for object detection and recognition procedure. It allows to remove useless information and reduce amount of data before further analysis. The paper contains the comparison of edge detection algorithms optimized for detection of horizontal edges. For comparison purposes the algorithms were implemented in the developed application dedicated to detection of electric line...
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Badanie i porównanie zdolności wybranych leków i związków przeciwnowotworowych do międzyłańcuchowego sieciowania DNA mitochondrialnego i jądrowego w komórkach nowotworowych
PublikacjaCelem pracy było zbadanie zdolności przeciwnowotworowych związków do indukowania międzyłańcuchowych wiązań sieciujących DNA mitochondrialne w ludzkich komórkach nowotworowych oraz porównanie ze zdolnością do sieciowania DNA jądrowego. Pochodna 4-metylo-1-nitroakrydyny C-1748, Ledakrin i mitomycyna C wykazują zdolność do sieciowania mtDNA i jDNA w komórkach raka okrężnicy HCT-8 w sposób zależny od dawki; C-1748 w komórkach raka...
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Toward Intelligent Recommendations Using the Neural Knowledge DNA
PublikacjaIn this paper we propose a novel recommendation approach using past news click data and the Neural Knowledge DNA (NK-DNA). The Neural Knowledge DNA is a novel knowledge representation method designed to support discovering, storing, reusing, improving, and sharing knowledge among machines and computing systems. We examine our approach for news recommendation tasks on the MIND benchmark dataset. By taking advantages of NK-DNA, deep...
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Paweł Sachadyn prof. dr hab. inż.
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An insight into the mixed quantum mechanical-molecular dynamics simulation of a ZnII-Curcumin complex with a chosen DNA sequence that supports experimental DNA binding investigations
PublikacjaAn important aspect of research pertaining to Curcumin (HCur) is the need to arrest its degradation in aqueous solution and in biological milieu. This may be achieved through complex formation with metal ions. For this reason, a complex of HCur was prepared with ZnII, that is not likely to be active in redox pathways, minimizing further complications. The complex is monomeric, tetrahedral, with one HCur, an acetate and a molecule...
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Optical recognition elements: macrocyclic imidazole chromoionophores entrapped in silica xerogel
PublikacjaMaterials containing new chromoionophores consisting of crown residue and azole moiety as partsof macrocycles were encapsulated by the sol-gel procedure in silica xerogel matrices and proposed aschemical recognition elements especially for such metal ions as Li+, Cs+ and Cu2+. Action of these recognition elements is in principle based on changes of reflectance. The recognition elements containing 21-membered chromogenic...
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The Decisional DNA-Based Smart Bike for Internet of Things
PublikacjaIn this paper, we introduce a novel application of the Internet of Things, the Decisional DNAbased Smart Bike. The Decisional DNA is a domain-independent, flexible and standard knowledge representation structure; it allows its domains to acquire and store experiential knowledge and formal decision events in an explicit way. By using Decisional DNA, the sensor-equipped bicycle is able to learn its user’s weight, riding habits, etc....
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Analysis of induction of DNA DSBs on telomeres in A549 cells
Dane BadawczeData consist of an analysis of DNA DSBs on telomeres. A549 were treated with compounds (TXT4, MTX, DMSO) at IC90 concentration for the indicated time. Images were acquired with an LSM 800 inverted laser scanning confocal microscope (Carl Zeiss; Dresden, Germany) equipped with an Airyscan detector using a ×63 1.4 NA Plan Apochromat objective (Carl Zeiss)....
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Measuring the density of DNA films using ultraviolet-visible interferometry
PublikacjaIn order to determine a proper value for the density of dry DNA films we have used a method based upon the measurement of interference effects in transmission spectra of thin DNA layers. Our results show that the methodology is effective and the density of DNA in this state, 1.407 g/cm3, is much lower than the commonly used 1.7 g/cm3. Obtaining accurate values for the DNA film density will allow the optical constants for DNA to...
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Acceleration of decision making in sound event recognition employing supercomputing cluster
PublikacjaParallel processing of audio data streams is introduced to shorten the decision making time in hazardous sound event recognition. A supercomputing cluster environment with a framework dedicated to processing multimedia data streams in real time is used. The sound event recognition algorithms employed are based on detecting foreground events, calculating their features in short time frames, and classifying the events with Support...
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Gesture Recognition With the Linear Optical Sensor and Recurrent Neural Networks
PublikacjaIn this paper, the optical linear sensor, a representative of low-resolution sensors, was investigated in the multiclass recognition of near-field hand gestures. The recurrent neural network (RNN) with a gated recurrent unit (GRU) memory cell was utilized as a gestures classifier. A set of 27 gestures was collected from a group of volunteers. The 27 000 sequences obtained were divided into training, validation, and test subsets....
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Modified Peptide Molecules As Potential Modulators of Shelterin Protein Functions; TRF1
PublikacjaIn this work, we present studies on relatively new and still not well-explored potential anticancer targets which are shelterin proteins, in particular the TRF1 protein can be blocked by in silico designed "peptidomimetic" molecules. TRF1 interacts directly with the TIN2 protein, and this protein-protein interaction is crucial for the proper functioning of telomere, which could be blocked by our novel modified peptide molecules....
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Digits Recognition with Quadrant Photodiode and Convolutional Neural Network
PublikacjaIn this paper we have investigated the capabilities of a quadrant photodiode based gesture sensor in the recognition of digits drawn in the air. The sensor consisting of 4 active elements, 4 LEDs and a pinhole was considered as input interface for both discrete and continuous gestures. Index finger and a round pointer were used as navigating mediums for the sensor. Experiments performed with 5 volunteers...
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Beata Krawczyk dr hab.
Osobydr hab. Beata Krawczyk, prof. uczelni Stopnie naukowe, wykształcenie, kwalifikacje Beata Krawczyk uzyskała tytuł magistra biologii na Wydziale Biologii (wówczas: Wydział Biologii i Nauk o Ziemi), Uniwersytetu Gdańskiego w 1986 roku, a doktorat z biologii molekularnej na Wydziale Biologii (wówczas: Wydział Biologii, Geografii i Oceanologii) Uniwersytetu Gdańskiego w 1996 roku. Stopień doktora habilitowanego w zakresie nauk biologicznych...
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General Mechanism of Osmolytes’ Influence on Protein Stability Irrespective of the Type of Osmolyte Cosolvent
PublikacjaThe stability of proteins in an aqueous solution can be modified by the presence of osmolytes. The hydration sphere of stabilizing osmolytes is strikingly similar to the enhanced hydration sphere of a protein. This similarity leads to an increase in the protein stability. Moreover, the hydration sphere of destabilizing osmolytes is significantly different. These solutes generate in their surroundings so-called “structurally different...
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Camera angle invariant shape recognition in surveillance systems
PublikacjaA method for human action recognition in surveillance systems is described. Problems within this task are discussed and a solution based on 3D object models is proposed. The idea is shown and some of its limitations are talked over. Shape description methods are introduced along with their main features. Utilized parameterization algorithm is presented. Classification problem, restricted to bi-nary cases is discussed. Support vector...
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Protein overproduction alters exosome secretion in Chinese hamster ovary cells
PublikacjaDespite the abundance of available cell lines, nearly 70% of all recombinant therapeutic proteins today are produced in Chi-nese hamster ovary (CHO) cells. The impact of protein overproduction on the secretion of exosomes by CHO cells has been investigated here. Increased secretion of extracellular vesicles (EVs) by protein overexpressing CHO cells was demonstrated with protein content assay, nanoparticle tracking analysis, and...
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A case study of constructing decisional DNA on finanse
PublikacjaPrzedstawiono koncepcję i rozwiązanie analityczne opisu rynku finansowego przy pomocy reprezentacji wiedzy zwanej ''decyzyjne DNA''.
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ADVANCES IN PROTEIN CHEMISTRY
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JOURNAL OF PROTEIN CHEMISTRY
Czasopisma -
Problem of aggregation in dye-DNA interaction, calorimetry studies
PublikacjaNucleic acids are the biological target for many antimicrobial, antitumor and antiviral drugs. Ligand-DNA interactions can be classified into two major categories: 1. covalent binding, which can provide to intermolecular adducts, 2. physico-chemical interactions, which can be divided into intercalation (e.g. adriamycin) or groove binding (e.g. dystamycin). There are several methods to investigate interactions between drug and DNA....
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Scoreboard Architectural Pattern and Integration of Emotion Recognition Results
PublikacjaThis paper proposes a new design pattern, named Scoreboard , dedicated for applications solving complex, multi-stage, non-deterministic problems. The pattern provides a computational framework for the design and implementation of systems that integrate a large number of diverse specialized modules that may vary in accuracy, solution level, and modality. The Scoreboard is an extension of Blackboard design pattern and comes under...
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Termodynamika niekowalencyjnego oddziaływania małocząsteczkowych ligandów z dna
PublikacjaKwasy nukleinowe są jednym z głównych celów biologicznych dla wielu antybiotyków oraz leków przeciwnowotworowych i przeciwwirusowych. Podczas tworzenia nowych farmaceutyków ważna jest dokładna wiedza na temat sposobu wiązania się leku do DNA. Oddziaływanie ligand-DNA można podzielić na dwie grupy: 1. wiązanie kowalencyjne, które często prowadzi do utworzenie trwałych wiązań pomiędzy nićmi DNA, 2. fizykochemiczne wiązanie, które...
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System for automatic singing voice recognition
PublikacjaW artykule przedstawiono system automatycznego rozpoznawania jakości i typu głosu śpiewaczego. Przedstawiono bazę danych oraz zaimplementowane parametry. Algorytmem decyzyjnym jest algorytm sztucznych sieci neuronowych. Wytrenowany system decyzyjny osiąga skuteczność ok. 90% w obydwu kategoriach rozpoznawania. Dodatkowo wykazano przy pomocy metod statystycznych, że wyniki działania systemu automatycznej oceny jakości technicznej...
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Influence of accelerometer signal pre-processing and classification method on human activity recognition
PublikacjaA study of data pre-processing influence on accelerometer-based human activity recognition algorithms is presented. The frequency band used to filter-out the accelerometer signals and the number of accelerometers involved were considered in terms of their influence on the recognition accuracy. In the test four methods of classification were used: support vector machine, decision trees, neural network, k-nearest neighbor.
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Flow cytometry analysis of DNA DSBs in telomerase positive and negative cell lines after treatment with TXT2 and TXT4
Dane BadawczeFlow cytometry analysis of DNA DSBs in telomerase positive (A549, H460) and negative (NHBE2594, U2OS) cell lines after treatment with equitoxic concentrations of TXT2 and TXT4. MTX and DMSO were used as positive and negative controls, respectively.
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Molecular targets for antifungals in amino acid and protein biosynthetic pathways
PublikacjaFungi cause death of over 1.5 million people every year, while cutaneous mycoses are among the most common infections in the world. Mycoses vary greatly in severity, there are long-term skin (ringworm), nail or hair infections (tinea capitis), recurrent like vaginal candidiasis or severe, life-threatening systemic, multiorgan infections. In the last few years, increasing importance is attached to the health and economic problems...
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Pose classification in the gesture recognition using the linear optical sensor
PublikacjaGesture sensors for mobile devices, which have a capability of distinguishing hand poses, require efficient and accurate classifiers in order to recognize gestures based on the sequences of primitives. Two methods of poses recognition for the optical linear sensor were proposed and validated. The Gaussian distribution fitting and Artificial Neural Network based methods represent two kinds of classification approaches. Three types...
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Decisional DNA and Optimization Problem
PublikacjaMany researchers have proved that Decisional DNA (DDNA) and Set of Experience Knowledge Structure (SOEKS or SOE) is a technology capable of gathering information and converting it into knowledge to help decision-makers to make precise decisions in many ways. These techniques have a feature to combine with different tools, such as data mining techniques and web crawlers, helping organization collect information from different sources...
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Decisional DNA: the concept and its implementation platforms
PublikacjaOmowiono kopncepcje zarzadzania wiedza oparta na decyzyjnym DNA gdzie wiedza jest reprezentowana poprzez zbiory doswiadczen. Przedstawiono obecne oraz przyszle zastosowania omawianej koncepcji.
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Metylacja DNA w rozwoju, diagnostyce i terapii nowotworów
PublikacjaDotychczas kowalencyjna modyfikacja DNA, jaką jest zarówno naturalna metylacja DNA, jak i addukty DNA egzogennych niskocząsteczkowych związków chemicznych, były ropatrywane z punktu widzenia genomu. W świetle obecnej wiedzy dotyczącej epigenomu można sądzić, że stosunkowo niewielkie modyfikacje czy to w postaci metylacji cytozyny, czy adduktu DNA mogą mieć znaczący wpływ na działanie komórki, a co za tym idzie także jej transformację...
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Automatic Emotion Recognition in Children with Autism: A Systematic Literature Review
PublikacjaThe automatic emotion recognition domain brings new methods and technologies that might be used to enhance therapy of children with autism. The paper aims at the exploration of methods and tools used to recognize emotions in children. It presents a literature review study that was performed using a systematic approach and PRISMA methodology for reporting quantitative and qualitative results. Diverse observation channels and modalities...
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Acquisition and indexing of RGB-D recordings for facial expressions and emotion recognition
PublikacjaIn this paper KinectRecorder comprehensive tool is described which provides for convenient and fast acquisition, indexing and storing of RGB-D video streams from Microsoft Kinect sensor. The application is especially useful as a supporting tool for creation of fully indexed databases of facial expressions and emotions that can be further used for learning and testing of emotion recognition algorithms for affect-aware applications....
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On practical application of Shannon theory to character recognition and more
PublikacjaLet us consider an optical character recognition system, which in particular can be used for identifying objects that were assigned strings of some length. The system is not perfect, for example, it sometimes recognizes wrongly the characters "Y" and "V". What is the largest set of strings of given length for the system under consideration, which can be mutually correctly recognized, and the corresponding objects correctly identified?...
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Therapeutic intervention by the simultaneous inhibition of DNA repair and type I or type II DNA topoisomerases: one strategy, many outcomes
PublikacjaMany anticancer drugs reduce the integrity of DNA, forming strand breaks. This can cause mutations and cancer or cell death if the lesions are not repaired. Interestingly, DNA repair-deficient cancer cells (e.g., those with BRCA1/2 mutations) have been shown to exhibit increased sensitivity to chemotherapy. Based on this observation, a new therapeutic approach termed 'synthetic lethality' has been developed, in which radiation...