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Search results for: dna mismatch enrichment
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Identification and molecular modeling of a novel lipase from an Antarctic soil metagenomic library.
PublicationIn this work, we present the construction of a metagenomic library in Escherichia coli using pUC19 vector and environmental DNA directly isolated from Antarctic topsoil and screened for lipolytic enzymes. The screening on agar supplemented with olive oil and rhodamine B revealed one clone with lipolytic activity (Lip1) out of 11,000 E. coli clones. This clone harbored a plasmid, pLip1, which has an insert of 4722 bp that has been...
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Morphological and cellular alternations of HepG2 cells overexpressing CYP3A4 after treatment with antitumor imidazoacridinone derivative C-1311
PublicationW pracy badano odpowiedź biologiczną komórek nowotworu wątroby HepG2 z nadekspresją izoenzymu CYP3A4 pod wpływem pochodnej imidazoakrydonu C-1311. Wyniki porównywano z odpowiedzią komórek HepG2 z tzw. wektorem zerowym.Izoeznym CYP3A4 jest jednym z izoenzymów cytochromu P450 odpowiedzialnych za przemiany metaboliczne pochodnej C-1311. Wykazano, że pochodna C-1311 indukuje w obu liniach komórkowych blok w fazie G2/M cyklu komórkowego,...
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An MTA-phosphorylase gene discovered in the metagenomic library derived from Antarctic top soil during screening for lipolytic active clones confers strong pink fluorescence in the presence of rhodamine B.
PublicationIn this work, we present the construction of a metagenomic library in Escherichiacoli using the pUC19 vector and environmental DNA directly isolated fromAntarctic topsoil and screened for lipolytic enzymes. Unexpectedly, the screeningon agar supplemented with olive oil and rhodamine B revealed one unusual pinkfluorescent clone (PINKuv) out of 85 000 clones. This clone harbored a plasmid,pPINKuv, which has an insert of 8317 bp that...
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A cryptic ribosome binding site, false signals in reporter systems and avoidance of protein translation chaos
PublicationThe expression of reporter gene may be induced by activation of cryptic signalling sequences, as we found while constructing the mutS-lacZ fusion gene. We cloned the Escherichia coli lacZ gene encoding beta-galactosidase into a plasmid vector carrying the Thermus thermophilus mutS gene. The clones expected to produce beta-galactosidase as the C-terminal fusion were selected for the complementation of beta-galactosidase activity...
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Chemical Aspects of Biological Activity of Isothiocyanates and Indoles, the Products of Glucosinolate Decomposition
PublicationThere is growing evidence that cancer chemoprevention employing natural, bioactive compounds may halt or at least slow down the different stages of carcinogenesis. A particularly advantageous effect is attributed to derivatives of sulfur-organic phytochemicals, such as glucosinolates (GLs) synthesized mainly in Brassicaceae plant family. GLs are hydrolysed enzymatically to bioactive isothiocyanates (ITC) and indoles, which exhibit strong...
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Anticancer and antimicrobial properties of novel η6-p-cymene ruthenium(ii) complexes containing a N,S-type ligand, their structural and theoretical characterization
PublicationRuthenium(II) complexes are lately of great scientific interest due to their chemotherapeutic potential asanticancer and antimicrobial agents. Here we present the synthesis of new pyrazole carbothioamidederivatives and their four arene–ruthenium complexes. The title compounds were characterized with theapplication of IR, NMR, mass spectrometry, elemental analysis and X-ray diffraction. Additionally, for newcomplexes DFT calculations...
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Manufacturing Data Analysis in Internet of Things/Internet of Data (IoT/IoD) Scenario
PublicationComputer integrated manufacturing (CIM) has enormous benefits as it increases the rate of production, reduces errors and production waste, and streamlines manufacturing sub-systems. However, there are some new challenges related to CIM operating in the Internet of Things/Internet of Data (IoT/IoD) scenarios associated with Industry 4.0 and cyber-physical systems. The main challenge is to deal with the massive volume of data flowing...
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Stable nanoconjugates of transferrin with alloyed quaternary nanocrystals Ag–In–Zn–S as a biological entity for tumor recognition
PublicationOne way to limit the negative effects of anti-tumor drugs on healthy cells is targeted therapy employing functionalized drug carriers. Here we present a biocompatible and stable nanoconjugate of transferrin anchored to Ag-In-Zn-S quantum dots modified with 11-mercaptoundecanoic acid (Tf-QD) as a drug carrier versus typical anticancer drug, doxorubicin. Detailed investigations of Tf-QD nanoconjugates without and with doxorubicin...
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Boron-Enhanced Growth of Micron-Scale Carbon-Based Nanowalls: A Route toward High Rates of Electrochemical Biosensing
PublicationIn this study, we have demonstrated the fabrication of novel materials called boron-doped carbon nanowalls (B:CNWs), which are characterized by remarkable electrochemical properties such as high standard rate constant (k°), low peak-to-peak separation value (ΔE) for the oxidation and reduction processes of the [Fe(CN)6]3–/4– redox system, and low surface resistivity. The B:CNW samples were deposited by the microwave plasma-assisted...
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A Semiautomatic Experience-Based Tool for Solving Product Innovation Problem
PublicationIn this paper we present the idea of Smart Innovation Engineering (SIE) System and its implementation methodology. The SIE system is semi-automatic system that helps in carrying the process of product innovation. It collects the experiential knowledge from the formal decisional events. This experiential knowledge is collected from the group of similar products having some common functions and features. The SIE system behaves like...
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Dimeric structure of the N-terminal domain of PriB protein from Thermoanaerobacter tengcongensis solved ab initio
PublicationPriB is one of the components of the bacterial primosome, which catalyzes the reactivation of stalled replication forks at sites of DNA damage. The N-terminal domain of the PriB protein from the thermophilic bacterium Thermoanaerobacter tengcongensis (TtePriB) was expressed and its crystal structure was solved at the atomic resolution of 1.09 Å by direct methods. The protein chain, which encompasses the first 104 residues of the...
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Ribosomal intergenic spacer analysis as a tool for monitoring methanogenic archaea changes in an anaerobic digester
PublicationThe applicability of a newly-designed PCR primer pair in examination of methanogenic Archaea in a digester treating plant biomass was evaluated by Ribosmal Intergenic Spacer Analysis (RISA). To find a suitable approach, three variants of RISA were tested: (1) standard, polyacrylamide gel-based, (2) automated, utilized capillary electrophoresis (GA-ARISA), and (3) automated microfluidics-based (MF-ARISA). All three techniques yielded...
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Antitumour imidazoacridone C-1311 induces cell death by mitotic catastrophe in human colon carcinoma cells
PublicationW przedstawionych badaniach określano mechanizm śmierci komórkowej indukowanej przez imidazoakrydon C-1311 (Symadex) w komórkach HT-29 ludzkiego raka jelita grubego, które wykazywały szczególną wrażliwość na ten związek w eksperymentalnych modelach in vitro i in vivo. Przy stężeniu odpowiadającemu dawce IC99, związek powodował zahamowanie progresji cyklu komórkowej w fazie S po czym następował blok w fazie G2. Po czasach 48-96...
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Effect of Ethanol Extracts of Propolis (EEPs) against Staphylococcal Biofilm—Microscopic Studies
PublicationStaphylococci growing in the form of biofilm exhibit high resistance to a plethora of antibiotics. The aim of the study was to assess the influence of ethanolic extract of propolis (EEPs) on S. epidermidis ATCC 35984 biofilm using fluorescent microscopy. Propidium iodide (PI) and SYTO 9 were used for differentiation of live and dead cells, and calcofluor white was used to stain the extracellular matrix, the self-produced extracellular...
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Detection of Toxoplasma gondii Infection in Small Ruminants: Old Problems, and Current Solutions
PublicationToxoplasmosis is a parasitic zoonosis of veterinary importance, with implications for public health. Toxoplasma gondii infection causes abortion or congenital disease in small ruminants. Moreover, the consumption of infected meat, cured meat products, or unpasteurized milk and dairy products can facilitate zoonotic transmission. Serological studies conducted in various European countries have shown the high seroprevalence of specific...
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Quinoline-based thiazolyl-hydrazones target cancer cells through autophagy inhibition
PublicationHeterocyclic pharmacophores such as thiazole and quinoline rings have a significant role in medicinal chemistry. They are considered privileged structures since they constitute several Food and Drug Administration (FDA)-approved drugs for cancer treatment. Herein, we report the synthesis, in silico evaluation of the ADMET profiles, and in vitro investigation of the anticancer activity of a series of novel thiazolyl-hydrazones based...
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Analytical methods for exhaustive characterization of Brassica plants and dietary products based on them
PublicationGlucosinolates (GLs), and particularly two classes of their degradation products - isothiocyanates (ITC) and indoles - released upon myrosinase catalyzed hydrolysis, belong to the most promising chemopreventive dietary components. Despite their wide use in plant research, studies on chemopreventive mechanisms and industrial utilization in the production of e.g. dietary supplements, the methods of reliable characterization of myrosinase-GLs...
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Modyfikacja β-cyklodekstryny w celu uzyskania pH czułego nośnika leków antracyklinowych
PublicationW 2012 roku 68% zgonów było spowodowanych przez choroby niezakaźne takie, jak nowotwory, choroby układu krążenia, przewlekłe choroby układu oddechowego [1]. Zgodnie z danymi Światowej Organizacji Zdrowia (ang. World Health Organization, WHO) w 2012 roku 32,6 miliona osób cierpiało z powodu chorób nowotworowych, a 8,2 miliona zmarło z ich powodu [2]. Szacowane jest, że z roku na rok odsetek osób chorujących na choroby nowotworowe...
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Systemy ekspresji genów - Wykład - 2021_22
e-Learning CoursesTematyka wykładów kursu przedstawia następujące treści: Ekspresja genów w organizmach żywych. Źródła informacji:gdy sekwencja genu jest znana, gdy sekwencja genu nie jest znana, bazy danych, biblioteki DNA genomowego, biblioteki cDNA, narzędzia on-line używane do analizy sekwencji DNA. System ekspresyjny genów - pojęcia podstawowe. Kryteria wyboru systemu ekspresyjnego do produkcji białek heterogenicznych w zależności od ich...
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Interactions between polyphenolic antioxidants quercetin and naringenin dictate the distinctive redox-related chemical and biological behaviour of their mixtures
PublicationFood synergy concept is suggested to explain observations that isolated antioxidants are less bioactive than real foods containing them. However, mechanisms behind this discrepancy were hardly studied. Here, we demonstrate the profound impact of interactions between two common food flavonoids (individual: aglycones quercetin—Q and naringenin—N− or their glycosides rutin—R and naringin—N+ vs. mixed: QN− and RN+) on their electrochemical...
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Akustyczne zobrazowanie morskich osadów dennych
PublicationPrzedstawiany temat rozprawy doktorskiej: „Akustyczne zobrazowanie morskich osadów dennych”, prezentuje metody zobrazowania struktury osadów dennych pozyskanych z sondowania akwenu echosondą parametryczną SES-2000 Standard oraz urządzeniami pomocniczym — echosondą wielowiązkową EM3002 i sonarem bocznym. Tezą jest wykazanie, że metody akustyczne dają możliwość bezinwazyjnej klasyfikacji osadów dennych. Hipoteza zakłada, że istnieje...
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Detection of Blastocystis hominis in unpreserved stool specimens byusing polymerase chain reaction
PublicationBlastocystis hominis jest pasożytem występującym na całym świecie. Patogenność tego pasożyta nie jest jeszcze w pełni udowodniona, aczkolwiek opisanych jest wiele przypadków, sugerujących, że B. hominis może wywoływać objawy żołądkowo-jelitowe. Wykrywanie tego pasożyta opiera się na bezpośredniej obserwacji mikroskopowej rozmazów i zagęszczonych próbek kału lub rozmazów utrwalonych, jednakże w pewnych przypadkach nie jest to możliwe.Celem...
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Extracting functional groups of ALLINI to design derivatives of FDA‐approved drugs: Inhibition of HIV‐1 integrase
PublicationHIV‐1 integrase (IN) is crucial for integration of viral DNA into the host genome and a promising target in development of antiretroviral inhibitors. In this work, six new compounds were designed by linking the structures of two different class of HIV‐1 IN inhibitors (active site binders and allosteric IN inhibitors (ALLINIs)). Among newly designed compounds, INRAT10b was found most potent HIV‐1 IN inhibitor considering different...
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Examination of epigenetic inhibitor zebularine in treatment of skin wounds in healthy and diabetic mice
PublicationDNA methyltransferase inhibitor zebularine was proven to induce regeneration in the ear pinna in mice. We utilized a dorsal skin wound model to further evaluate this epigenetic inhibitor in wound healing. Full-thickness excisional wounds were made on the dorsum of 2 and 10-month-old healthy BALB/c and 3 and 8-month-old diabetic (db/db) mice, followed by topical or intraperitoneal zebularine delivery. Depending on the strain, age,...
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Detection of the Plant Pathogen Pseudomonas Syringae pv. Lachrymans on Antibody-Modified Gold Electrodes by Electrochemical Impedance Spectroscopy
PublicationThe present work describes an impedimetric immunosensor for Pseudomonas syringae pv. lachrymans (Psl) detection. This pathogen infects many crop species causing considerable yield losses, thus fast and cheap detection method is in high demand. In the assay, the gold disc electrode was modified with 4-aminothiophenol (4-ATP), glutaraldehyde (GA), and anti-Psl antibodies, and free-sites were blocked with bovine serum albumin (BSA)....
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Squamous cell carcinoma, keratinizing, NOS - Unknown, 62 - Tissue image [3300730069381741]
Open Research DataThis is the histopathological image of FLOOR OF MOUTH tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format.
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Sialoadenitis - Unknown, 62 - Tissue image [3300730069385951]
Open Research DataThis is the histopathological image of OTHER AND UNSPECIFIED MAJOR SALIVARY GLANDS tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format.
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FLOOR OF MOUTH, Floor of mouth NOS - Unknown, 62 - Tissue image [3300730069387101]
Open Research DataThis is the histopathological image of FLOOR OF MOUTH tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format.
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Sialoadenitis - Unknown, 62 - Tissue image [330073006938141]
Open Research DataThis is the histopathological image of OTHER AND UNSPECIFIED MAJOR SALIVARY GLANDS tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format.
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Sialoadenitis - Unknown, 62 - Tissue image [330073006938591]
Open Research DataThis is the histopathological image of OTHER AND UNSPECIFIED MAJOR SALIVARY GLANDS tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format.
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Squamous cell carcinoma, keratinizing, NOS - Unknown, 62 - Tissue image [3300730069382581]
Open Research DataThis is the histopathological image of FLOOR OF MOUTH tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format.
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Squamous cell carcinoma, keratinizing, NOS - Unknown, 62 - Tissue image [330073006938211]
Open Research DataThis is the histopathological image of FLOOR OF MOUTH tissue sample obtained in Medical University Gdańsk and deposited in ZMDL-GUMED. The sample image was taken using: Pannoramic 250 3DHistech slide scanner (20x magnification) and saved to DICOM format.
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Startery oligonukleotydowe do reakcji amplifikacji DNA kodującego białko syntazy trehalozy Deinococcus geothermalis DSMZ 11300, sekwencja DNA wraz z miejscami rozpoznania dla enzymów restrykcyjnych Ndel i Xhol, wektor ekspresyjny i sposób jego otrzymywani
Inventions -
Antifungal Activity of Capridine β as a Consequence of Its Biotransformation into Metabolite Affecting Yeast Topoisomerase II Activity
PublicationIn the last few years,increasing importance is attached to problems caused by fungal pathogens. Current methods of preventing fungal infections remain unsatisfactory. There are several antifungal compounds whichare highly effective in some cases, however, they have limitations in usage: Nephrotoxicity and other adverse effects. In addition, the frequent use of available fungistatic drugs promotes drug resistance....
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Regenerative Drug Discovery Using Ear Pinna Punch Wound Model in Mice
PublicationThe ear pinna is a complex tissue consisting of the dermis, cartilage, muscles, vessels, and nerves. Ear pinna healing is a model of regeneration in mammals. In some mammals, including rabbits, punch wounds in the ear pinna close spontaneously; in common-use laboratory mice, they remain for life. Agents inducing ear pinna healing are potential regenerative drugs. We tested the effects of selected bioactive agents on 2 mm ear pinna...
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Multi-Technique Investigation of Grave Robes from 17th and 18th Century Crypts Using Combined Spectroscopic, Spectrometric Techniques, and New-Generation Sequencing
PublicationThe textile fragments of the funeral clothes found in the 17th and 18th century crypts were subjected to spectroscopic, spectrometric, and microbial investigation. The next-generation sequencing enabled DNA identification of microorganisms at the genus and in five cases to the species level. The soft hydrofluoric acid extraction method was optimized to isolate different classes of dyes from samples that had direct contact with...
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IFI16 Impacts Metabolic Reprogramming during Human Cytomegalovirus Infection
PublicationCellular lipid metabolism plays a pivotal role in human cytomegalovirus (HCMV) infection, as increased lipogenesis in HCMV-infected cells favors the envelopment of newly synthesized viral particles. As all cells are equipped with restriction factors (RFs) able to exert a protective effect against invading pathogens, we asked whether a similar defense mechanism would also be in place to preserve the metabolic compartment from HCMV...
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Effect of oxidation and in vitro intestinal hydrolysis on phospholipid toxicity towards HT29 cell line serving as a model of human intestinal epithelium
PublicationOxidation of food-derived phospholipids (PLs) can influence nutrient digestion and induce oxidative stress in gastrointestinal epithelium. In this study, hen egg yolk PL fraction was used to evaluate the effect of lipoxygenase (LOX)-induced PL oxidation on the rate of PL hydrolysis catalyzed by pancreatic phospholipase A2 (PLA2) in the presence of bile salts (BSs). Then, PL/BS solutions containing native or oxidized PLs were used...
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Discovery of small-molecule regenerative drugs using a model of complex tissue injury in mice. Transcriptomic responses of neurodevelopmental genes during pharmacologically induced regeneration
PublicationDespite significant development in regenerative medicine, there is a deficit of effective therapies for wound healing and tissue regeneration. Research performed using animal wound models allows for a better understanding of this complex process, searching for compounds with pro-regenerative properties, and assessing their efficacy and safety. Unfortunately, the lack of adequate preclinical models proves to be an issue as no animal...
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Evaluation of a PCR Melting Profile method for intra-species differentiation of Trichophyton rubrum and Trichophyton interdigitale
PublicationW celu identyfikacji źródła infekcji spowodowanych przez dermatofity, jak i drogi ich transmisji, istnieje potrzeba szukania nowych metod, które pozwolą na głębokie zróżnicowanie genetyczne szczepów w obrębie rodzaju. W pracy po raz pierwszy pokazano zastosowanie techniki PCR MP opartej o adaptory oligonukleotydowe i różnice w temperaturze topnienia fragmentów restrykcyjnych DNA w reakcji PCR do wewnątrzgatunkowego typowania dermatofitów....
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Rola polimorfizmu i zróżnicowanej ekspresji genów cytochromu P450 w metabolizmie ksenobiotyków.
PublicationZdolność do metabolizmu ksenobiotyków przez cytochromy P450 (CYP) określona jest przez polimorfizm i poziom ekspresji genów tych białek. Najwięcej, 40 odmian polimorficznych o zróżnicowanej aktywności enzymatycznej, poznano dla CYP2D6, natomiast tylko dwie w przypadku CYP2C9, których obecność powoduje zahamowanie metabolizmu wielu leków. Z kolei polimorfizm genu CYP3A4 nie miał istotnego wpływu na aktywność metaboliczną jego produktu...
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A nosocomial outbreak of Candida parapsilosis in southern Sweden verified by genotyping
PublicationIn a haematology ward, Candida parapsilosis was found in blood cultures from 4 patients within a month. As C. parapsilosis is known to have a restricted genetic diversity, a combined methodological approach was adopted to establish a possible epidemiological relationship among the isolates (n = 9). Multilocus sequence typing and random amplified polymorphic DNA analysis suggested a clonal origin of the isolates. The clonal origin...
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Thermodynamic, Anticoagulant, and Antiproliferative Properties of Thrombin Binding Aptamer Containing Novel UNA Derivative
PublicationThrombin is a serine protease that plays a crucial role in hemostasis, fibrinolysis, cell proliferation, and migration. Thrombin binding aptamer (TBA) is able to inhibit the activity of thrombin molecule via binding to its exosite I. This 15-nt DNA oligonucleotide forms an intramolecular, antiparallel G-quadruplex structure with a chair-like conformation. In this paper, we report on our investigations on the influence of certain...
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The structurally similar TRFH domain of TRF1 and TRF2 dimers shows distinct behaviour towards TIN2
PublicationThe telomere repeat binding-factor 1 and 2 (TRF1 and TRF2) proteins of the shelterin complex bind to duplex telomeric DNA as homodimers, and the homodimerization is mediated by their TRFH (TRF-homology) domains. We performed molecular dynamic (MD) simulations of the dimer forms of TRF1TRFH and TRF2TRFH in the presence/absence of the TIN2TBM (TIN2, TRF-interacting nuclear protein 2, TBM, TRF-binding motif) peptide. The MD results...
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Contextual Knowledge to Enhance Workplace Hazard Recognition and Interpretation in a Cognitive Vision Platform
PublicationThe combination of vision and sensor data together with the resulting necessity for formal representations builds a central component of an autonomous Cyber Physical System for detection and tracking of laborers in workplaces environments. This system must be adaptable and perceive the environment as automatically as possible, performing in a variety of plants and scenes without the necessity of recoding the application for each...
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Development of novel optoelectronic sensory structures utilising colour centres in nanodiamonds and their interactions with analytes
PublicationThe goal of this dissertation was to develop and assess surface modifications of fluorescent nanodiamonds (NDs) for optical sensing. Three modification routes were tested, each aimed at a different application. Modification with poly-L-lysine (pLys) was verified for optical sensing of pH via an interrelationship between electrically negative (NV¯) and neutral (NV0) nitrogen-vacancy centres. Immobilisation of Ochratoxin A (OTA),...
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Imunofan—RDKVYR Peptide—Stimulates Skin Cell Proliferation and Promotes Tissue Repair
PublicationRegeneration and wound healing are vital to tissue homeostasis and organism survival. One of the biggest challenges of today’s science and medicine is finding methods and factors to stimulate these processes in the human body. Effective solutions to promote regenerative responses will accelerate advances in tissue engineering, regenerative medicine, transplantology, and a number of other clinical specialties. In this study, we...
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Kinetics of molecular decomposition under irradiation of gold nanoparticles with nanosecond laser pulses—A 5-Bromouracil case study
PublicationABSTRACT Laser illuminated gold nanoparticles (AuNPs) efficiently absorb light and heat up the surrounding medium, leading to versatile applications ranging from plasmonic catalysis to cancer photothermal therapy. Therefore, an in-depth understanding of the thermal, optical, and electron induced reaction pathways is required. Here, the electrophilic DNA nucleobase analog 5-Bromouracil (BrU) has been used as a model compound to...
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Smart Virtual Product Development (SVPD) System to Support Product Inspection Planning in Industry 4.0
PublicationThis paper presents the idea of supporting product inspection planning process during the early stages of product life cycle for the experts working on product development. Aim of this research is to assist a collaborative product development process by using Smart Virtual Product Development (SVPD) system, which is based on Set of Experience Knowledge Structure (SOEKS) and Decisional DNA (DDNA). The proposed system is developed...
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Enzyme Conjugation - A Promising Tool for Bio-catalytic and Biotransformation Applications – A Review
PublicationEnzymes have revolutionized conventional industrial catalysts as more efficient, eco-friendly, and sustainable substitutes that can be used in different biotechnological processes, food, and pharmaceutical industries. Yet, the enzymes from nature are engineered to make them adapt and enhance their durability in the industrial environment. One promising approach involves the combined use of multiple enzymes that catalyze highly...