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Practical Approach to Large-Scale Electronic Structure Calculations in Electrolyte Solutions via Continuum-Embedded Linear-Scaling Density Functional Theory
PublikacjaWe present the implementation of a hybrid continuum-atomistic model for including the effects of a surrounding electrolyte in large-scale density functional theory (DFT) calculations within the Order-N Electronic Total Energy Package (ONETEP) linear-scaling DFT code, which allows the simulation of large complex systems such as electrochemical interfaces. The model represents the electrolyte ions as a scalar field and the solvent...
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Similarities and differences in d6 low-spin ruthenium, rhodium and iridium half-sandwich complexes: synthesis, structure, cytotoxicity and interaction with biological targets
PublikacjaIn this paper, we discussed the similarities and diferences in d6 low-spin half-sandwich ruthenium, rhodium and iridium complexes containing 2,2′-biimidazole (H2biim). Three new complexes, {[RuCl(H2biim)(η6 -p-cymene)]PF6}2·H2O (1), [(η5 - Cp)RhCl(H2biim)]PF6 (2), and [(η5 -Cp)IrCl(H2biim)]PF6 (3), were fully characterized by CHN, X-ray difraction analysis, UV–Vis, FTIR, and 1 H, 13C and 15N NMR spectroscopies. The complexes exhibit...
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A Novel [4+2] Cycloaddition Reaction Involving Lawesson’s Reagent. Structure and Specific Fragmentations of a New Cyclic 1,2-Thiaphosphinane-4-one
PublikacjaA crude morpholine enamine of acetone treated with Lawesson’s reagent unexpectedly yielded a six-membered thiaphosphinane-4-one. This compound is the first example of a new class of heterocycles. It has been proven that it is formed from 4-methyl-2-morpholino-1,3-pentadiene which is usually present in crude morpholine enamine batches. A mechanism of this regioselective reaction was postulated and a characteristic chair-like conformation...
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Small-Angle Neutron Scattering Study of the Structure of Mixed Micellar Solutions Based on Heptaethylene Glycol Monotetradecyl Ether and Cesium Dodecyl Sulfate
PublikacjaThe micellization in mixed aqueous systems based on a nonionic surfactant, heptaethylene glycol monotetradecyl ether (C14E7), and an anionic surfactant, cesium dodecyl sulfate, has been investigated by small-angle neutron scattering. Preliminary data on the behavior of the C14E7 aqueous solutions (with three concentrations, 0.17, 0.5, and 1%) mixed with a small amount of anionic surfactant, cesium dodecyl sulfate, are reported.
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Modification of quaternary structure of Candida albicans GlcN-6-P synthase and its desensitization to inhibition by UDP-GlcNAc by site-directed mutagenesis
PublikacjaSite-directed mutagenesis of the CaGFA1 gene encoding glucosamine-6-phosphate synthase from Candida albicans was performed. Desensitization of the enzyme to inhibition by UDPGlcNAc was achieved upon T487I and H492F substitutions at the UDP-GlcNAc binding site, exchange of D524, S525 and S527 for Ala at the dimer:dimer interface and construction of the tail-lock array (L434R and L460A) at the C-tail region. The first two sets if...
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Calculation of Resonance in Planar and Cylindrical Microstrip Structures Using a Hybrid Technique
PublikacjaA hybrid technique was employed for the analysis of the resonance frequency of thin planar and cylindrical microstrip structures with the patches of arbitrary geometry. The proposed technique utilizes a combination of Galerkin’s moment method and a finite-element method (FEM). In this approach, an FEM is adopted to calculate the patch surface current densities, and a method of moments is utilized to calculate the resonance frequencies...
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Molecular mechanism of retention in reversed-phase high-performance liquid chromatography and classification of modern stationary phases by using quantitative structure–retention relationships
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Quantitative structure—retention relationships of some steroid and phenanthrene derivatives on cyano-, reversed-phase, and normal-phase thin-layer chromatography stationary phases
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Least absolute shrinkage and selection operator and dimensionality reduction techniques in quantitative structure retention relationship modeling of retention in hydrophilic interaction liquid chromatography
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A DFT/TD DFT study of the structure and spectroscopic properties of 5-methyl-2-(8-quinolinyl)benzoxazole and its complexes with Zn(II) ion
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Parametrization of Backbone−Electrostatic and Multibody Contributions to the UNRES Force Field for Protein-Structure Prediction from Ab Initio Energy Surfaces of Model Systems
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Iminodiacetate complex of cobalt(II) – Structure, physicochemical characteristics, biological properties and catalytic activity for 2-chloro-2-propen-1-ol oligomerization
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Mosaic Structure of p1658/97, a 125-Kilobase Plasmid Harboring an Active Amplicon with the Extended-Spectrum β-Lactamase Gene bla SHV-5
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Exploring novel Cd(ii) complexes with 5-methyl-4-imidazolecarboxaldehyde: synthesis, structure, computational insights, and affinity to DNA through switchSense methodology
PublikacjaA series of four Cd(II) complexes with 5-methyl-4-imidazolecarboxaldehyde (L) with different inorganic anions within or outside the coordination sphere of general formula: [CdCl2 L2 ] (1), [CdBr2 L 2] (2), [CdI2L 2] (3), and [CdL4 ](PF6 )2 ·3H2 O (4) was synthesized through one-step and two-step reactions, respectively. All complexes were obtained as colorless crystals without the need for recrystallization and exhibited solubi- lity...
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Novel 2-alkythio-4-chloro-N-[imino(heteroaryl)methyl]benzenesulfonamide Derivatives: Synthesis, Molecular Structure, Anticancer Activity and Metabolic Stability
PublikacjaA series of novel 2-alkythio-4-chloro-N-[imino-(heteroaryl)methyl]benzenesulfonamide derivatives, 8–24, were synthesized in the reaction of the N-(benzenesulfonyl)cyanamide potassium salts 1–7 with the appropriate mercaptoheterocycles. All the synthesized compounds were evaluated for their anticancer activity in HeLa, HCT-116 and MCF-7 cell lines. The most promising compounds, 11–13, molecular hybrids containing benzenesulfonamide...
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The structure of dimethylsulfoxide-solvated magnesium and calcium ions in solution and the solid state, and overview of the coordination chemistry of hydrated and solvated alkaline earth metal ions
PublikacjaOznaczono strukturę w stanie stałym i ciekłym solwatowanych jonów magnezu i wapnia w dimetylosulfotlenku. Stwierdzono, ze jony te tworzą sześciokoordynacyjne solwaty ze średnią długością wiązań Mg-O i Ca-O 2.062(4) i 2.303(5)A. Przegląd literaturowy ukazał, że jony berylu i magnezu we wszystkich rozpuszczalnikach tworzą odpowiednio cztero- i sześciokoordynacyjne solwaty, podczas gdy jony wapnia i strontu istnieją jako ośmiokoordynacyjne...
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Tri-tert-butoxysilanethiolate complexes of manganese(II) with chelating heterocyclic bases - Structure of compounds with a MnN2O2S2 or MnN2OS2 kernel and MeOH within the coordination sphere
PublikacjaNieliczna, do tej pory, grupa tiolanowych kompleksów manganu (II) wzbogaciła się o układy wywodzące się z tri-tert-butoksysilanotiolu jako źródła liganda. Połączenia te można ustabilizować wprowadzając N-donorowe ligandy chelatujące takie jak 2,2'-bipirydyl (bipy), 1,10-fenantrolina (phen) czy też 2,9-dimetylo-1,10-fenantrolina (neo).Skład związków[(tBuO)3SiS]2Mn(bipy) (2), [(tBuO)3SiS]2Mn(phen)(MeOH)] (3), [(tBuO)3SiS]2Mn(phen)]...
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Synthesis and Structure of Novel Copper(II) Complexes with N,O- or N,N-Donors as Radical Scavengers and a Functional Model of the Active Sites in Metalloenzymes
PublikacjaToevaluatetheantioxidantactivityofpotentialsyntheticenzymemimetics,wepreparednewfivecopper(II)complexesviaaself‐assemblymethodandnamedthem[Cu(2‐(HOCH2)py)3](ClO4)2(1),[Cu(2‐(HOCH2)py)2(H2O)2]SiF6(2),[Cu2(2‐(HOCH2CH2)py)2(2‐(OCH2CH2)py)2](ClO4)2(3),[Cu(pyBIm)3](BF4)2∙1.5H2O(4)and[Cu(py2C(OH)2)2](ClO4)2(5).ThesyntheticprotocolinvolvedN,O‐ orN,N‐donors:2‐(hydroxymethyl)pyridine(2‐(HOCH2)py),2‐(hydroxyethyl)pyridine(2‐(HOCH2CH2)py),2‐(2‐pyridyl)benzimidazole(pyBIm),di(2‐pyridyl)ke‐tone(py2CO).TheobtainedCu(II)complexeswerefullycharacterisedbyelementalanalysis,FTIR,EPR,UV‐Vis,single‐crystalX‐raydiffractionandHirshfeldsurfaceanalysis.Crystallographicandspectroscopicanalysesconfirmedchromophoresofbothmonomeric({CuN3O3}(1),{CuN2O4}(2),{CuN6}(4),{CuN4O2}(5))anddimericcomplex({CuN2O3}(3)).Mostoftheobtainedspeciespos‐sessedadistortedoctahedralenvironment,exceptdimer3,whichconsistedoftwocoppercentreswithsquarepyramidalgeometries.Thewater‐solublecompounds(1,3and5)wereselectedforbiologicaltesting.Theresultsofthestudyrevealedthatcomplex1insolutionsdisplayedbetterradicalscavengingactivitythancomplexes3,5andfreeligands.Therefore,complex1hasbeenselectedforfurtherstudiestotestitsactivityasanenzymemimetic.Thechosencompoundwastestedontheerythrocytelysateoftwogroupsofpatientsafterundergoingchemotherapyandchemoradiotherapy.Theeffectofthetestedcompound(1)onenzymeactivitylevels(TAS,SODandCAT)suggeststhattheselectedcomplexcanbetreatedasafunctionalmimeticoftheenzymes.
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Discussion on “Dynamic soil-structure interaction: A three-dimensional numerical approach and its application to the Lotung case study”. Poor performance of the HSS model
PublikacjaThe Hardening Soil Small (HSS) is a constitutive model being extension to the well established Hardening Soil Model (HS) accounting for the nonlinearity of small strain stiffness. It is implemented in commercial finite element computer codes for geotechnical analyses and used widely in research and design. The article deals with a problem known as overshooting after very small load reversals. It induces much higher stiffness than...
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DMSO and TMAO—Differences in Interactions in Aqueous Solutions of the K-Peptide
PublikacjaInteractions between a solvent and their co-solute molecules in solutions of peptides are crucial for their stability and structure. The K-peptide is a synthetic fragment of a larger hen egg white lysozyme protein that is believed to be able to aggregate into amyloid structures. In this study, a complex experimental and theoretical approach is applied to study systems comprising the peptide, water, and two co-solutes: trimethylamide...
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A city is not a tree: a multi-city study on street network and urban life
PublikacjaChristopher Alexander, a British-American scholar, differentiated an old (natural) city from a new (planned) one by structure. The former resembles a “semilattice”, or a complex system encompassing many interconnected sub-systems. The latter is shaped in a graph-theoretical “tree”, which lacks the structural complexity as its sub-systems are compartmentalized into a single hierarchy. This structural distinction explains why, or...
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A Hierarchical Multiscale Approach to Protein Structure Prediction: Production of Low‐Resolution Packing Arrangements of Helices and Refinement of the Best Models with a United‐Residue Force Field
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EFFECTS OF DOPING ON STRUCTURE AND PHASE TRANSITION OF HIGH TEMPERATURE PROTON CONDUCTOR LaNb1-xMxO4-σ (M=As, Sb, V, Ta AND X=0,05 TO 0,3)
PublikacjaIn this work synthesis of lanthanum orthoniobate has been done. Doping by arsenic, antimony, vanadium or tantalum in 5% to 30% have been introduced. The relationship between doping type and percentage and structural properties of the material have been investigated.
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Structure, physicochemical and biological properties of new complex salt of aqua-(nitrilotriacetato-N,O,O′,O″)-oxidovanadium(IV) anion with 1,10-phenanthrolinium cation
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Synthesis and structure of selected quaternary N-(1,4-anhydro-5-deoxy-2,3-O-isopropylidene-D,L-ribitol-5-yl)ammonium salts.
PublikacjaOpracowano metody otrzymywania czwartorzędowych soli amoniowych, pochodnych rybitolu, zawierających reszty: pirydyny, 2-metylopirydyny, 3-karbamoilopirydyny, 4-(N,N-dimetyloamino)pirydyny, chinoliny oraz dwóch amin alifatycznych trimetyloaminy i trietyloaminy. Związki te powstają w reakcji 1,4-anhydro-2,3-O-izopropylideno-5-O-tozylo-D,L-rybitolu z odpowiednimi zasadami azotowymi.
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On the complex formation of iron(III) bromide in the space-demanding solvent N,N'-dimethylpropyleneurea and the structure of the trisbromoiron(III) complex i solution and crystalline state
PublikacjaPrzeprowadzono badania kalorymetryczne równowag kompleksów koordynacyjnych jonu żelaza(III) z jonami bromkowymi w DMPU. Stwierdzono, że w DMPU powstają trzy: mono-, di- i tribromkowe kompleksy żelaza(III) a ich powstawanie jest uwarunkowane zmianą entropii. Badania krystalograficzne dowiodły, że FeBr3 w roztworze DMPU ma konfigurację płaskiego trójkąta równobocznego, żadna cząsteczka rozpuszczalnika nie jest związana z jonem metalu,...
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A study of the structure of mixed micellar solutions based on heptaethylene glycol monotetradecyl ether and sodium (lithium) dodecyl sulfate by the small-angle neutron scattering method
PublikacjaZbadano micelizację w układach mieszanych bazujących na nowym surfaktancie niejonowym, heptaoksyetylenowanym alkoholu tetradecylowym (C14E7) i surfaktantach anionowych, dodecylosiarczanie sodu, decylosiarcznie sodu oraz dodecylosiarcznie litu za pomocą metody niskokątowego rozproszenia neutronów.Przedstawione zostały wstępne wyniki zachowania wodnych roztworów C14E7 (o dwóch stężeniach 0,17 i 0,50%) przy niewielkim udziale trzech...
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Gdańsk’s Cultural Heritage. The City Centre District and Municipal Historical Policy
PublikacjaThe current municipal historical policy of Gdańsk focuses on two major museum projects purported to be a unique embodiment of the city’s cultural heritage. Their underlying narrative, which is told from the European perspective, is based on two great events of the 20th century and seems to disregard the cultural heritage recorded in the urban structure of the city centre. However, it is precisely this urban structure that exerts...
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Modeling SARS‐CoV‐2 proteins in the CASP‐commons experiment
PublikacjaCritical 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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Ultra-Compact SIRC-Based Self-Triplexing Antenna with High Isolation
PublikacjaAn ultra-compact self-triplexing antenna realized on a substrate-integrated rectangular cavity (SIRC) is discussed in this study. The proposed structure employs two L-shaped slots and an in-verted U-shaped slot to radiate at three independent operating frequency bands. Three 50-ohm microstrip feed lines are used to excite the radiation in these slots. The operating frequency is individually tuned using the slot size. The slot placement...
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Crystal structure, DFT-study and NLO properties of the novel copper(I) nitrate π,σ-coordination compound based on 1-allyl-3-norbornan-thiourea
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Adjustable fractional-delay filters utilizing the Farrow structure and multirate techniques. [Przestrajalne filtry o opóźnieniu ułamkowym wykorzystujące strukturę Farrowa i techniki wieloszybkościowe]
PublikacjaDo efektywnej realizacji ułamkowo opóźniających, przestrajalnych filtrów FIR (o skończonej odpowiedzi impulsowej) można wykorzystywać strukturę Farrowa. Jednakże, niezależnie od efektywności w porównaniu z innymi strukturami, jej złożoność implementacyjna szybko rośnie ze wzrostem szerokości pasma filtru. Celem zredukowania złożoności numerycznej, zaproponowano podejście wieloszybkościowe. W tym podejściu sygnał wejściowy jest...
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Area-Averaged Surface Moisture Flux over Fragmented Sea Ice: Floe Size Distribution Effects and the Associated Convection Structure within the Atmospheric Boundary Layer
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Wpływ budowy chemicznej na zmiany właściwości mechanicznych i termomechanicznych elastomerów biopoliuretanowych = The influence of chemical structure on mechanical and thermomechanical properties of cast biopolyurethane elastomers
PublikacjaPrzedmiotem niniejszej pracy są elastomery biopoliuretanowe otrzymywane metodą dwuetapową, tzw. prepolimerową, z wykorzystaniem surowców bio-pochodnych. Zbadano wpływ różnych małocząsteczkowych przedłużaczy łańcucha prepolimerowego: 1,2-biopropanodiolu oraz 1,3-biopropanodiolu na strukturę chemiczną i właściwości mechaniczne (warunki statyczne i dynamiczne) elastomerów biopoliuretanowych. Ponadto, wykorzystano również inny surowiec...
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Impact of the Alkyl Side Chains of Cations and Anions on the Activity and Renaturation of Lysozyme: A Systematic Study Performed Using Six Amino‐Acid‐Based Ionic Liquids
PublikacjaThe impact of the structure of ionic liquid on the activity and renaturation of lysozyme from the hen egg white (HEWL) was investigated. A set of six ionic liquids based on morpholinium cation and N-acylated amino acids as anions were exploited. The matrix used was based on two homologous series: one with N-acetyl-L-valinate [Val] as a common anion and morpholinium cation with a different number of...
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Design of Compact and Wideband Groove Gap Waveguide-Based Directional Couplers
PublikacjaThis paper proposes a compact cross-shaped groove gap waveguide structure for creating wideband and compact directional couplers with different coupling levels. Groove gap waveguide technology is applied to overcome fabrication challenges of printed and hollow waveguide structures in high frequency bands. The validity of the novel concept is demonstrated through the design and evaluation of several compact broadband directional...
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Low-Dimensional Magnetic Semimetal Cr0.65Al1.35Se3
PublikacjaWhile exploring novel magnetic semiconductors, the new phase Cr0.65Al1.35Se3 was discovered and characterized by both structural and physical properties. Cr0.65Al1.35Se3 was found to crystallize into orthorhombic CrGeTe3-type structure with space group Pnma (no. 62). Vacancies and mixed occupancies were tested, and the results show that one of the 4c sites accommodates a mixture of Cr and Al atoms, while the other 4c site is fully...
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KOMPOZYTOWY MOST PIESZO - ROWEROWY
PublikacjaPaper presents the composite foot and cycle bridge developed in FOBRIDGE grant cofinanced by The National Centre for Research and Development and realized by consortium of Gdansk University of Technology (leader), Military University of Technology in Warsaw and ROMA Sp. z o.o. in Toruń. The purpose of the grant was to design a shell type single span foot and cycle bridge made of composite materials, with the assumption of manufacturing...
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A Comparative Quantitative Structure-Retention Relationships Study for Lipophilicity Determination of Compounds with a Phenanthrene Skeleton on Cyano-, Reversed Phase-, and Normal Phase-Thin Layer Chromatography Stationary Phases
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Application of multivariate mathematical-statistical methods to compare reversed-phase thin-layer and liquid chromatographic behaviour of tetrazolium salts in Quantitative Structure-Retention Relationships (QSRR) studies
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Implementation of Molecular Dynamics and Its Extensions with the Coarse-Grained UNRES Force Field on Massively Parallel Systems: Toward Millisecond-Scale Simulations of Protein Structure, Dynamics, and Thermodynamics
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Synthesis, the crystal structure, and high-resolution NMR spectroscopy of methyl 4-O-acetyl-3-azido-2,3,6-trideoxy-6-iodo-ŕ-D-arabino-hexopyranoside
PublikacjaW wyniku wieloetapowej syntezy otrzymano glikozyd metylowy 4-O-acetylo-3-azydo-2,3,6-trideoksy-6-jodo-ŕ-D-arabino-heksopyranozy. Związek wykazuje konformację 4C1, co wykazano na podstawie wysokorozdzielczej spektroskopii1H i 13C NMR oraz rentgenowskiej analizy strukturalnej monokryształu. W pracy scharakteryzowano również 7 nowych związków otrzymanych jako produkty pośrednie i uboczne.
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Synthesis, crystal structure, and high-resolution NMR spectroscopy of methyl 3-azido-2,3-dideoxy-4,6-di-O-p-tolylsulfonyl-α-D-xylo-hexopyranoside
PublikacjaOpisano syntezę 3-azydo-2,3-dideoksy-4,6-di-O-p-toluenosulfonylo- i 6-O-p-toluenosulfonylo-alfa-D-ksylo-heksopiranozydów. Dla obu związków i ich prekursorów wykonano wysokorozdzielczą spektroskopię 1H i 13C NMR. Strukturę tytułowego związku określono metodą rentgenowskiej analizy strukturalnej. W pracy dyskutuje się wpływ grup ochronnych przy atomach tlenu na przesunięcia chemiczne sąsiadujących atomów w węglowej i protonowej spektroskopii...
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Design and optimization of a novel compact broadband linearly/circularly polarized wide-slot antenna for WLAN and Wi-MAX applications
PublikacjaA novel topologically modified structure of a compact low profile wide-slot antenna for broadband applications is presented. The antenna comprises a modified E-shaped slot with unequal arm lengths in the ground plane, and a parasitic quasi-rectangular loop placed coplanar with the feedline. For exciting orthogonal modes with equal amplitude, a single-point feeding technique with an asymmetrical geometry of the coplanar waveguide...
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On the generalized model of shell structures with functional cross-sections
PublikacjaIn the present study, a single general formulation has been presented for the analysis of various shell-shaped structures. The proposed model is comprehensive and a variety of theories can be used based on it. The cross-section of the shell structure can be arbitrarily analyzed with the presented equations. In other words, various types of shell structures, including cylindrical, conical, spherical, elliptical, hyperbolic, parabolic,...
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Effective method for determining environmental loads on supporting structures for offshore wind turbines
PublikacjaThis paper presents a description of an effective method for determining loads due to waves, current and wind acting on the supporting structures of the offshore wind turbines. This method is dedicated to the structures consisting of the cylindrical or conical elements as well as (truncates) pyramids of polygon with a large number of sides (8 or more). The presented computational method is based on the Morison equation, which was...
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Effective method for determining environmental loads on supporting structures for offshore wind turbines
PublikacjaThis paper presents a description of an effective method for determining loads due to waves and current acting on the supporting structures of the offshore wind turbines. This method is dedicated to the structures consisting of the cylindrical or conical elements as well as (truncates) pyramids of polygon with a large number of sides (8 or more). The presented computational method is based on the Morison equation, which was originally...
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Developing Polycentricity to Shape Resilient Metropolitan Structures: The Case of the Gdansk–Gdynia–Sopot Metropolitan Area
PublikacjaMaking the metropolitan area resilient, in many cases, calls for amending its spatial structures. This may take various forms, including both reshaping the metropolitan core and redeveloping the entire regional network of cities and centres, making them part of a coherent structure. The latter strategy is associated with reinforcing secondary urban centres as well as shaping new connections between them. In this case, the term...
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Modification of Ruddlesden-Popper-type Nd2-xNi0.75Cu0.2M0.05O4±δ by the Nd-site cationic deficiency and doping with Sc, Ga or In: Crystal structure, oxygen content, transport properties and oxygen permeability
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The first manganese trialkoxysilanethiolates: formation, properties and structure of solvent ligated complexes - [Mn{SSi(OBut)3}2(MeCN)] and [Mn{SSi(OBut)3}2(MeOH)4]
PublikacjaW pracy przedstawiono otrzymywanie i strukturę pierwszych trialkoksysilanotiolanowych kompleksów manganu(II). Syntezy prowadzone były reakcji 2≡SiSH+ MnCl2 + 2Et3N = (≡SiS)2Mn + 2Et3N.HCl doprowadziły do otrzymania nowych kompleksów: [Mn{SSi(OBut)3}2(MeOH)4] (gdy jako rozpuszczalnik zastosowano MeOH) oraz [Mn{SSi(OBut)3}2(NCCH3)], gdy w badaniach posłużono się acetonitrylem.