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Search results for: MAXIMUM-LENGTH SEQUENCE
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Application of Maximum-Length Sequences to impulse response measurement of hydroacoustic communications systems
PublicationThere is a growing interest in digital transmission of telemetry data on ultrasonic waves. The dependence of signal attenuation on squared frequency, specific to the hy-droacoustic systems, induces problems that do not exist in monochromatic, narrowband radio communications systems. For adapting the transmission parameters to current propagation conditions, a precise knowledge of instantaneous changes of channel performances is...
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Application of Maximum Lenght Sequence in Silent Sonar
PublicationSilent sonars are designed to reduce the distance over which their sounding pulses can be detected by intercept sonars. In order to meet this objective, we can use periodical sounding signals that have low power, a very long duration and wide spectrum. If used in the silent sonar's receiver, matched filtration ensures very good detection of motionless or slow moving targets. However, it is more difficult to detect echo signals...
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Allelic length of a CA dinucleotide repeat in theegfr gene correlates with the frequency of amplifications of this sequence—first results of an inter-ethnic breast cancer study
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Optimal edge-coloring with edge rate constraints
PublicationWe consider the problem of covering the edges of a graph by a sequence of matchings subject to the constraint that each edge e appears in at least a given fraction r(e) of the matchings. Although it can be determined in polynomial time whether such a sequence of matchings exists or not [Grötschel et al., Combinatorica (1981), 169–197], we show that several questions about the length of the sequence are computationally intractable....
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The accuracy of pulse rate estimation from the sequence of face images
PublicationThe goal of this paper is to analyze the accuracy of pulse rate estimation from the sequence of face images. Simulated and real signals were used to evaluate two pulse rate estimators; one for frequency domain and the second one for time domain using the autocorrelation function. The results show that the mean difference between the reference measurements and estimated pulse rate values are about 2bpm. In the analysis of short...
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Selected results of temperature, specific total and dynamic entropy, velocity contour plots 5 μm above (top) and 5 μm under (bottom) glassy base of the gold nanorod platforms respectively after of the system irradiation.
Open Research DataThe following results were presented in sequence: (a) Temperature, (b) specific total and (c) dynamic entropy, (d) velocity contour plots 5 μm above (top) and 5 μm under (bottom) glassy base of the gold nanorod platforms respectively after 90 seconds of the system irradiation.
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Numerical metadata of a microchamber with bacteria
Open Research DataSelected results in the form of graphs and a diagram of the analysed system. The metadata shows in sequence: 1) Temperature distribution inside fluidic chamber (=0.8, h=100) after 190s of irradiationTemperature distribution inside fluidic chamber (=0.8, h=100) after 190s of irradiation; 2) Maximum temperature profile in the fluidic chamber during the...
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Optymalizacja długości krzywych przejściowych przy budowie i modernizacji linii kolejowych
PublicationW drogach szynowych przy obliczaniu długości krzywych przejściowych analizowane są jedynie warunki na ich długość minimalną. Odmienna sytuacja występuje przy projektowaniu dróg, gdzie rozpatrywane są też warunki na długość maksymalną. Spośród nich szczególną rangę ma warunek poprawności geometrycznej układu. W artykule zawarto jego adaptację do specyfiki trasy kolejowej. Sformułowano cel optymalizacji przy obliczaniu długości krzywej...
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A novel method of Mycobacterium tuberculosis complex strain differentiation using polymorphic GC-rich gene sequences.
PublicationTuberculosis is one of the leading infectious diseases. In this work, a new genotyping method of Mycobacterium tuberculosis (Mtb) complex strain is presented. 27 Mtb genomes were analyzed for the presence of length polymorphism within polymorphic GC-rich gene sequences. Four genes, Rv3345c, Rv3507, Rv0747 and Rv3511, showing variation in length depending on the Mtb strain were selected for designing primer sequences flanking variable...
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ALIS-FLP: amplified ligation selected fragment-length polymorphism method for microbial genotyping
PublicationA DNA fingerprinting method known as ALIS-FLP (amplified ligation selected fragment-length polymorphism) has been developed for selective and specific amplification of restriction fragments from TspRI restriction endonuclease digested genomic DNA. The method is similar to AFLP, but differs in that only one specific restriction enzyme (TspRI) is used. The cohesive ends of the DNA fragments are ligated with two types of oligonucleotide....
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Interactions of telomeric proteins with nucleic acids: sequence recognition on intact and oxidatively damaged telomeres
PublicationTelomeres are complex nucleoprotein assemblies that play a vital role in the maintenance of functional ends of linear chromosomes. Telomeric DNA, composed of tandem repeats of the 5'-TTAGGG-3' motif, solves the so-called end replication problem: as chromosomes shorten with each cell division, no information is lost, and the telomere can be re-extended. In the cell, many protein factors regulate telomere length, nuclear positioning...
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Naturally occurring mitochondrial DNA heteroplasmy in the MRL mouse
PublicationThe MRL/MpJ mouse is an inbred laboratory strain of Mus musculus, known to exhibit enhanced autoimmunity, increased wound healing, and increased regeneration properties. We report the full-length mitochondrial DNA (mtDNA) sequence of the MRL mouse (Accession # EU450583), and characterize the discovery of two naturally occurring heteroplasmic sites. The first is a T3900C substitution in the TpsiCloop of the tRNA methionine gene...
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Novel application of terminal restriction fragments length polymorphism method (t-RFLP) for identification of six clinically important Candida sp.
PublicationTerminal restriction fragments length polymorphism method (t-RFLP) is a modified classical RFLP method. The main difference is based on carrying out PCR using a fluorescently labeled primer or primers. The result of such modification is that after digestion of amplicons only terminal fragments of PCR product (containing fluorescent dye) are visualized. T-RFLP method has found application in environmental microbiology and epidemiology....
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DDLMS PCR double digestion Ligation Mediated Suppression PCR - a new technique for bacterial specific differentiation
PublicationA new diagnostic kit for K. oxytoca specific differentiation based on ddLMS PCR (ang. double digest ligation Mediated PCR) technique is shown. As a species-specific DNA fragment pehX gene, encoding the enzyme polygalactouronase, was chosen. The genome sequence of K. oxytoca is digested with two endonucleases: AclI and BclI which cut DNA before and after pehX gene. The polymorphic DNA fragments are ligated with AclI-end-specific...
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Brief Announcement: Energy Constrained Depth First Search
PublicationDepth first search is a natural algorithmic technique for constructing a closed route that visits all vertices of a graph. The length of such route equals, in an edge-weighted tree, twice the total weight of all edges of the tree and this is asymptotically optimal over all exploration strategies. This paper considers a variant of such search strategies where the length of each route is bounded by a positive integer B (e.g. due...
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Molecular Recognition in Complexes of TRF Proteins with Telomeric DNA
PublicationTelomeres are specialized nucleoprotein assemblies that protect the ends of linear chromosomes. In humans and many other species, telomeres consist of tandem TTAGGG repeats bound by a protein complex known as shelterin that remodels telomeric DNA into a protective loop structure and regulates telomere homeostasis. Shelterin recognizes telomeric repeats through its two major components known as Telomere Repeat-Binding Factors, TRF1...
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Trajectory planning for Service Ship during emergency STS transfer operation
PublicationIn this paper trajectory for approaching during emergency STS transfer operation with oil spill is considered as a sequence of navigation manoeuvres in specific navigational environment. The designed way points - ship positions and speed are determined as reference values to support navigator in decision making during steering and to mitigate the risk of collision which mostly results from exceeding the speed limit of approaching....
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Karolina Zielińska-Dąbkowska dr inż. arch.
PeopleKarolina M. Zielinska-Dabkowska, Ph.D., Eng. Arch., M. Arch., is an Assistant Professor at the Faculty of Architecture of Gdańsk University of Technology (GUT). In 2002, she completed her studies of Architecture and Urban Planning at Gdańsk University of Technology (Gdańsk Tech) and in 2004, Architectural Engineering at the University of Applied Sciences and Arts (HAWK) in Hildesheim, Germany. After graduation, she worked for several...
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Computer-Aided Design of Railroad Horizontal Arc Areas in Adapting to Satellite Measurements
PublicationThis paper presents a method of designing railway sections located in horizontal arcs. The adopted procedure is universal, i.e., it creates the possibility of varying both the type and the length of the assumed transition curves. This means that the applied analytical formulas apply to the boundary conditions of the transition curves and all of the simplifications widely existing in common algorithms have been eliminated. The presented...
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A New Double Digestion Ligation Mediated Suppression PCR Method for Simultaneous Bacteria DNA-Typing and Confirmation of Species: An Acinetobacter sp. Model
PublicationWe have designed a new ddLMS PCR (double digestion Ligation Mediated Suppression PCR) method based on restriction site polymorphism upstream from the specific target sequence for the simultaneous identification and differentiation of bacterial strains. The ddLMS PCR combines a simple PCR used for species or genus identification and the LM PCR strategy for strain differentiation. The bacterial identification is confirmed in the...
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EASY ACCESS TOOL FOR SMALL INTERFERING RNA (siRNA) DATA
PublicationFor many decades it was an accepted dogma of molecular genetics that the expression of genes is a “one-way-road” leading only in one direction from DNA to RNA to proteins. Recent discoveries in modern molecular genetics have challenged this dogma showing that specific RNA molecules play a central role in controlling the activity of genes by changing the structure of DNA sequences, targeting other RNAs for degradation or blocking...
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Principles and applications of Ligation Mediated PCR methods for DNA-based typing of microbial organisms
PublicationA significant number of DNA-based techniques has been introduced into the field of microorganisms’ characterization and taxonomy. These genomic fingerprinting methods were developed to detect DNA sequence polymorphisms by using general principles, such as restriction endonuclease analysis, molecular hybridization, and PCR amplification. In recent years, some alternative techniques based on ligation of oligonucleotide adapters before...
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DNA SEQUENCE
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The Boltzmann sequence-structure channel
PublicationWe rigorously study a channel that maps binary sequences to self-avoiding walks in the two-dimensional grid, inspired by a model of protein statistics. This channel, which we also call the Boltzmann sequence-structure channel, is characterized by a Boltzmann/Gibbs distribution with a free parameter corresponding to temperature. In our previous work, we verified experimentally that the channel capacity has a phase transition for...
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Role of bead sequence in underwater welding
PublicationThis paper presents examinations of the role of the bead sequence in underwater welding. Two specimens of wet welded layers made by covered electrodes with the use of normalized S355G10+N steel were welded by a reasonable bead sequence. For each specimen, metallographic macro- and micro-scopic tests were done. Then, Vickers HV10 hardness measurements were conducted for each pad weld in the welded layer. The results show that welding...
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Molecular identification and genotyping of Staphylococci: genus, species, strains, colnes, lineages, and interspecies exchanges
PublicationStaphylococci are increasingly recognized as etiological agents of many opportunistic human and animal infections, emphasizing the need for a rapid and accurate identification, even to a genotypical level of these bacteria. In the recent years, there has been a significant progress in typing and phylogenetic study of Staphylococcus species. Here, we describe molecular methods used in taxonomy as well as staphylococci characterization....
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Phase Transition in a Sequence-Structure Channel
PublicationWe study an interesting channel which maps binary sequences to self-avoiding walks in the two-dimensional grid, inspired by a model of protein folding from statistical physics. The channel is characterized by a Boltzmann/Gibbs distribution with a free parameter corresponding to temperature. We estimate the conditional entropy between the input sequence and the output fold, giving an upper bound which exhibits an unusual phase transition...
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Application capabilities of the maximum distributed generation estimate methodology
PublicationThe paper presents application capabilities of the maximum distributed generation estimate methodology. This subject is an example of solutions to the problem that today face the transmission system operator and distribution system operators, which is related to the high saturation with wind power generation predicted for the near future.
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GreedyMAX-type Algorithms for the Maximum Independent Set Problem
PublicationA maximum independent set problem for a simple graph G = (V,E) is to find the largest subset of pairwise nonadjacent vertices. The problem is known to be NP-hard and it is also hard to approximate. Within this article we introduce a non-negative integer valued functionp defined on the vertex set V(G) and called a potential function of agraph G, while P(G) = max{vinV(G)| p(v)} is called a potential of G. For any graph P(G) <= D(G),...
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On the regularity of the displacement sequence of an orientation preserving circle homeomorphism
PublicationWe investigate the regularity properties of the displacemnet sequence of an orientation preserving circle homeomorphism. is rational, then ηn(z) is asymptotically periodic with semi-period q. This
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Balkan Stock Exchanges – Consideration of the Length of the Estimation Window in Similar Markets
PublicationPurpose: We study if capital markets in the Balkan are closely and positively related in terms of rate of return, risk, efficiency, and maximum cumulative loss in relation to different lengths of the estimation window. Design/Methodology/Approach: The research was carried out for the period from 01/01/2017 to 31/12/2019 using portfolio analysis. It was divided into an estimation window (01/01/2019 to 31/12/2019) and another with...
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On DoA estimation for rotating arrays using stochastic maximum likelihood approach
PublicationThe flexibility needed to construct DoA estimators that can be used with rotating arrays subject to rapid variations of the signal frequency is offered by the stochastic maximum likelihood approach. Using a combination of analytic methods and Monte Carlo simulations, we show that for low and moderate source correlations the stochastic maximum likelihood estimator that assumes noncorrelated sources has accuracy comparable to the...
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The complexity of minimum-length path decompositions
PublicationWe consider a bi-criteria generalization of the pathwidth problem, where, for given integers k, l and a graph G, we ask whether there exists a path decomposition P of G such that the width of P is at most k and the number of bags in P, i.e., the length of P, is at most l. We provide a complete complexity classification of the problem in terms of k and l for general graphs. Contrary to the original pathwidth problem, which is fixed-parameter...
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The relative cup-length in local Morse cohomology
PublicationLocal Morse cohomology associates cohomology groups to isolating neighborhoods of gradient flows of Morse functions on (generally non-compact) Riemannian manifolds M. We show that local Morse cohomology is a module over the cohomology of the isolating neighborhood, which allows us to define a cup-length relative to the cohomology of the isolating neighborhood that gives a lower bound on the number of critical points of functions...
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Markowitz’s portfolio theory – optimal length of estimation window for gold and the biggests companies on the Warsaw Stock Exchange
PublicationThe following article is dedicated to the construction of an investment portfolio consisting of 3 investments from the Polish capital market found in the WIG20 index and from investment in gold. The purpose of the study was to determine the optimal length of the estimation window for building a portfolio with minimal risk and maximum efficiency. The length of the estimation window was also assessed in terms of the rate of return...
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Fungal Typin Methods
PublicationThe broad application of the molecular techniques in mycoses diagnosis is related to increase of infections caused by fungi in many countries. The oldest typing methods relaying on fenotypic observation, physiological and biochemical examination have had very limited importance from decades. Novadays, the molecular biology methods took their place. Most of the genotyping methods have been devoleped to be applied for typing of bacteria...
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Issues of Estimating the Maximum Distributed Generation at High Wind Power Participation
PublicationThis paper presents the methods of estimating the maximum power that can be connected to the power system in distributed generation sources. Wind turbine generator systems (WTGS) were selected as the subject for analysis. Nonetheless, the considerations presented in this paper are only general and also apply to other types of power sources, including the sources that are not considered part of distributed generation.
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Modeling variable curvature on the turnout diverging track length
PublicationThe paper presents three variants of variable curvature application on the entire length of the turnout diverging track. One linear and two nonlinear curvature cases: described the function of C1 and C0 class were considered. It turned out that both linear curve and the function of C1 class requires a significant (even twice) length of diverging track extending with respect to the base turnout. The curvature described by the function...
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Photovoltaic Maximum Power Point Technique based on Incremental Conductance (INCON) control algorithm
PublicationMaximum output power status can significantly improve the deployment rate of solar energy system. In order to get the maximum power output, issue of tracking maximum power point (MPP), reduced harmonics around MPP and improve efficiency of the solar power energy system, this paper presents the improved maximum power point tracking (MPPT) control...
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Estimation of the Maximum Permissible PV Power to be Connected to the MV Grid
PublicationIn recent decades, a significant increase in the share of renewable energy sources in power grids at various voltage levels has been observed. A number of articles have been published highlighting emerging problems in low-voltage grids with a large share of prosumers and in medium- and high-voltage grids to which photovoltaic (PV) plants are connected. The article analyzes the medium-voltage grid in terms of the possibility of...
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Frequent Sequence Mining in Web Log Data
PublicationThe amount of information available even on a single web server can be huge. On the other hand, the amount of visitors (users) can often reach a number of at least six digits. Users vary in gender, age and education, and in consequence their information needs are different. Moreover, they subconsciously expect to get more adequate content after visiting the first few pages. The scope of this kind of problem relates to the domain...
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Distribution of the displacement sequence of an orientation preserving circle homeomorphism
PublicationIn some applications not only the knowledge of the behaviour of trajectories of a map is important, but also their displacements. We describe in detail the distribution of elements of the displacement sequence along a trajectory of an orientation preserving circle homeomorphism ϕ with irrational rotation number ϱ(ϕ). The values of displacement are dense in a set which depends on the map γ (semi-)conjugating ϕ with the rotation...
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A method to determine the tightening sequence for standing rigging of a mast
PublicationThe article proposes an alternative method to determine the sequence of generation of pre-tension forces in standing rigging of a mast. The proposed approach has been verified on both a virtual simulation experiment and laboratory tests. In this method, the desired tension values are obtained using the influence matrix which allows to calculate the effect of tension change in an individual rope on the tension distribution in the...
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How proteins bind to DNA: target discrimination and dynamic sequence search by the telomeric protein TRF1
PublicationTarget search as performed by DNA-binding proteins is a complex process, in which multiple factors contribute to both thermodynamic discrimination of the target sequence from overwhelmingly abundant off-target sites and kinetic acceleration of dynamic sequence interrogation. TRF1, the protein that binds to telomeric tandem repeats, faces an intriguing variant of the search problem where target sites are clustered within short fragments...
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Primary role identification in e-mail networks using pattern subgraphs and sequence diagrams
PublicationSocial networks often forms very complex structures that additionally change over time. Description of actors' roles in such structures requires to take into account this dynamics reflecting behavioral characteristics of the actors. A role can be defined as a sequence of different types of activities. Various types of activities are modeled by pattern subgraphs, whereas sequences of these activities are modeled by sequence diagrams....
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Arc-length Algorithm Efficiency in the Analysis of Thermally Loaded Multilayered Shells
PublicationThis paper concerns the efficiency study of the arc-length algorithm in the geometrically non-linear analysis of thermally loaded multilayered shells. The thermal loading is considered as the one-way thermo-mechanical coupling effect. Two implementations of the arc-length method are examined: the path-following technique available in NX-Nastran and the RiksWempner-Ramm algorithm adopted in the authors’ computer code SHLTH. It is...
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A Fast Method of Separation of the Noisy Background from the Head-Cross Section in the Sequence of MRI Scans
PublicationThe paper presents a new method of removing the noisy background from the sequence of magnetic resonance imaging (MRl) scans. The sequence of scans is required in order to monitor a passage of a contrast agent through the brain tissue. The scans contain the noisy head-cross data and also the noisy background data. The latter has to be removed and excluded from a further analysis. It is achieved by applying some basic morphological...
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Butyrylcholinesterase signal sequence self-aggregates and enhances amyloid fibril formation in vitro
PublicationAlzheimer’s disease (AD) pathogenesis has been attributed to extracellular aggregates of amyloid β (Aβ) plaques and neurofibrillary tangles in the human brain. It has been reported that butyrylcholinesterase (BChE) also accumulates in the brain Aβ plaques in AD. We have previously found that the BChE substitution in 5′UTR caused an in-frame N-terminal extension of 41 amino acids of the BChE signal peptide. The resultant variant...
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A Maximum-Likelihood Approach to Force-Field Calibration
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INFLUENCE OF TACK WELDS DISTRIBUTION AND WELDING SEQUENCE ON THE ANGULAR DISTORTION OF TIG WELDED JOINT
PublicationIn this paper the influence of tack welds distribution and welding sequence on angular distortion of the Tungsten Inert Gas (TIG) welded joint was tested. Additionally, the effect of welding current on angular distortion was assessed. For research X2CrTiNb18 (AISI 441) stainless steel (2.5 mm thick) was chosen. During research specimens were prepared with different distributionsof tack...