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Wyświetlanie 1-15 z 65
Tytuł:
Identification of proteins associated with Mycobacterium tuberculosis virulence pathway by their polar profile
Autorzy:
Polanco, Carlos
Castañón-González, Jorge
Mancilla, Raul
Buhse, Thomas
Samaniego, José
Gimbel, Arturo
Powiązania:
https://bibliotekanauki.pl/articles/1039087.pdf
Data publikacji:
2015
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
Mycobacterium tuberculosis bacteria virulence pathway
Polarity Index Method
Opis:
With almost one third of the world population infected, tuberculosis is one of the most devastating diseases worldwide and it is a major threat to any healthcare system. With the mathematical-computational method named "Polarity Index Method", already published by this group, we identified, with high accuracy (70%), proteins related to Mycobacterium tuberculosis bacteria virulence pathway from the Tuberculist Database. The test considered the totality of proteins cataloged in the main domains: fungi, bacteria, and viruses from three databases: Antimicrobial Peptide Database (APD2), Tuberculist Database, Uniprot Database, and four antigens of Mycobacterium tuberculosis: PstS-1, 38-kDa, 19-kDa, and H37Rv ORF. The method described was calibrated with each database to achieve the same performance, showing a high percentage of coincidence in the identification of proteins associated with Mycobacterium tuberculosis bacteria virulence pathway located in the Tuberculist Database, and identifying a polar pattern regardless of the group studied. This method has already been used in the identification of diverse groups of proteins and peptides, showing that it is an effective discriminant. Its metric considers only one physico-chemical property, i.e. polarity.
Źródło:
Acta Biochimica Polonica; 2015, 62, 2; 191-196
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Characterization of a possible uptake mechanism of selective antibacterial peptides
Autorzy:
Polanco, Carlos
Samaniego, José
Castañón-González, Jorge
Buhse, Thomas
Sordo, Marili
Powiązania:
https://bibliotekanauki.pl/articles/1039457.pdf
Data publikacji:
2013
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
Polarity index method
cell penetrating peptides
selective antibacterial peptides
Opis:
Selective antibacterial peptides containing less than 30 amino acid residues, cationic, with amphipathic properties, have been the subject of several studies due to their active participation and beneficial effects in strengthening the immune system of all living organisms. This manuscript reports the results of a comparison between the group of selective antibacterial peptides and another group called "cell penetrating peptides". An important number of the selective antibacterial peptides are cell penetrating peptides, suggesting that their toxicity is related to their uptake mechanism. The verification of this observation also includes the adaptation of a method previously published, called Polarity index, which reproduces and confirms the action of this new set of peptides. The efficiency of this method was verified based on four different databases, yielding a high score. The verification was based exclusively on the peptides already reported in the databases which have been experimentally verified.
Źródło:
Acta Biochimica Polonica; 2013, 60, 4; 629-633
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Detection of selective antibacterial peptides by the Polarity Profile method
Autorzy:
Polanco, Carlos
Buhse, Thomas
Samaniego, José
Castañón-González, Jorge
Powiązania:
https://bibliotekanauki.pl/articles/1039571.pdf
Data publikacji:
2013
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
selective cationic amphipathic antibacterial peptides
Polarity Profile method
Polarity Index method
Opis:
Antimicrobial peptides occupy a prominent place in the production of pharmaceuticals, because of their effective contribution to the protection of the immune system against almost all types of pathogens. These peptides are thoroughly studied by computational methods designed to shed light on their main functions. In this paper, we propose a computational approach, named the Polarity Profile method that represents an improvement to the former Polarity Index method. The Polarity Profile method is very effective in detecting the subgroup of antibacterial peptides called selective cationic amphipathic antibacterial peptides (SCAAP) that show high toxicity towards bacterial membranes and exhibit almost zero toxicity towards mammalian cells. Our study was restricted to the peptides listed in the antimicrobial peptides database (APD2) of December 19, 2012. Performance of the Polarity Profile method is demonstrated through a comparison to the former Polarity Index method by using the same sets of peptides. The efficiency of the Polarity Profile method exceeds 85% taking into account the false positive and/or false negative peptides.
Źródło:
Acta Biochimica Polonica; 2013, 60, 2; 183-189
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
An improved effective index method for planar multimode waveguide design on an silicon-on-insulator (SOI) platform
Autorzy:
Le, T T
Powiązania:
https://bibliotekanauki.pl/articles/174442.pdf
Data publikacji:
2013
Wydawca:
Politechnika Wrocławska. Oficyna Wydawnicza Politechniki Wrocławskiej
Tematy:
multimode interference (MMI)
silicon-on-insulator (SOI)
effective index method (EIM)
Opis:
In this paper, an improved effective index method (EIM) for designing planar multimode waveguides on the silicon-on-insulator (SOI) platform is presented. The proposed method predicts the evolution of the fields more accurately than the conventional effective index method. This improved method is particularly suited to the design of multimode interference (MMI) couplers.
Źródło:
Optica Applicata; 2013, 43, 2; s. 271-277
0078-5466
1899-7015
Pojawia się w:
Optica Applicata
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Singular Vectors in Acoustic Simulation Tests of St. Paul the Apostle Church in Bochnia
Autorzy:
Kosała, K.
Powiązania:
https://bibliotekanauki.pl/articles/177255.pdf
Data publikacji:
2012
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
acoustic quality
index method
churches
singular value decomposition (SVD)
acoustics adaptation
Opis:
A new approach to acoustic quality assessment of churches during simulation tests is proposed in the article. The numerical global index, based on four partial indices: reverberation, speech intelligibility, music sound index and a proposed new one – sound strength index, assesses the acoustic parameters of the model of the tested church in a complex manner. The global single number index was obtained from 17 simulations of acoustic adaptation options of the investigated church’s interior. The equation of the approximate global index has been obtained by means of singular vectors, obtained from Singular Value Decomposition (SVD) of the Index Observation Matrix of Simulation Variants (IOMSV). The weights of four partial indices and a universal equation of the global index have been calculated using the SVD technique to solve the problem of correlated acoustical parameters. The global index may be a helpful tool during simulation tests of acoustic quality assessment of churches. The proposed final equation of the global index does not require knowledge of the SVD technique and the values of acoustic parameters preferred for churches. Therefore the methodology proposed is easily applicable.
Źródło:
Archives of Acoustics; 2012, 37, 1; 23-30
0137-5075
Pojawia się w:
Archives of Acoustics
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
A Single Number Index to Assess Selected Acoustic Parameters in Churches with Redundant Information
Autorzy:
Kosała, K.
Powiązania:
https://bibliotekanauki.pl/articles/177017.pdf
Data publikacji:
2011
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
acoustic quality
index method
sacral objects
singular value decomposition (SVD)
redundant information
Opis:
The paper presents an innovative approach for the index assessment of the acous- tic properties of churches. A new formula for an approximate single number index to assess selected acoustic parameters of church interiors, such as reverberation time (RT), speech intelligibility index (RASTI) and music clarity index (C80), is presented in the paper. The formula is created by means of the Singular Value Decomposition (SVD) method. An innovative approach for calculating the weights of partial in- dices is shown by solving the problem of redundant information, i.e., the system of overdetermined linear equations, using a computed pseudoinverse matrix. The new procedures for calculating the values of three partial indices and the single number index to assess selected acoustic parameters are presented. The proposed method was verified by measurements in several selected churches.
Źródło:
Archives of Acoustics; 2011, 36, 3; 545-560
0137-5075
Pojawia się w:
Archives of Acoustics
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Methodology of assessing the production capacity of selected shipyards
Autorzy:
Pyszko, R.
Powiązania:
https://bibliotekanauki.pl/articles/962793.pdf
Data publikacji:
2004
Wydawca:
Politechnika Gdańska. Wydział Inżynierii Mechanicznej i Okrętownictwa
Tematy:
sttructural and production process coefficients
index method
labour demand
worstand - hours (Stg)
Opis:
The paper deals with selected subjects in the European EUREKA "Baltecologicalship" 'E!2772 project. Within the project, preliminary designs offour feeder (short shipping) ships have been developed based on the market trend research, design knowledge and experimental investigations. The following tasks were to be performed for one of the ships: defi ning optimum building conditions (timescale, production technologies, ecological aspect), selecting shipyards meeting the minimum production capacity requirement. For that purpose an index method was developed (based on the design and production indices). Then an index analysis was performed of the production capacities of selected shipyards (and also different configurations of cooperation between them) and results were presented in a form of the Gantt diagrams. Final conclusions were drawn.
Źródło:
Polish Maritime Research; 2004, S 1; 24-28
1233-2585
Pojawia się w:
Polish Maritime Research
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Impact of the COVID-19 pandemic on rail freight transport in selected EU countries
Autorzy:
Barczak, Agnieszka
Powiązania:
https://bibliotekanauki.pl/articles/24202587.pdf
Data publikacji:
2022
Wydawca:
Akademia Morska w Szczecinie. Wydawnictwo AMSz
Tematy:
European Union
pandemic COVID-19
freight transport
rail transport
seasonality index method
Opis:
The COVID-19 pandemic has affected all aspects of human life. Its negative effects have also hit the transport industry, largely as a result of staff contracting the virus and the restrictions imposed on human mobility. Therefore, the purpose of this study is to establish how the situation of rail freight transport in select EU countries has evolved in the post-pandemic era. The trend of rail freight transport is presented for the years 2015–2021, and forecasts are made for the years 2020–2021 using the method of seasonality indices. The study results show that most of the investigated countries show adverse differences in the actual and forecast quantity of freight handled, an effect clearly attributable to the pandemic.
Źródło:
Zeszyty Naukowe Akademii Morskiej w Szczecinie; 2022, 72 (144); 11--16
1733-8670
2392-0378
Pojawia się w:
Zeszyty Naukowe Akademii Morskiej w Szczecinie
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
A toy model of prebiotic peptide evolution: the possible role of relative amino acid abundances
Autorzy:
Polanco, Carlos
Buhse, Thomas
Samaniego, José
Castañón González, Jorge
Powiązania:
https://bibliotekanauki.pl/articles/1039570.pdf
Data publikacji:
2013
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
polarity index method.
computer simulation
prebiotic polymerization
toy model
peptides
amino acids
Opis:
This paper presents a mathematical-computational toy model based on the assumed dynamic principles of prebiotic peptide evolution. Starting from a pool of amino acid monomers, the model describes in a generalized manner the generation of peptides and their sequential information. The model integrates the intrinsic and dynamic key elements of the initiation of biopolymerization, such as the relative amino acid abundances and polarities, as well as the oligomer reversibility, i.e. fragmentation and recombination, and peptide self-replication. Our modeling results suggest that the relative amino acid abundances, as indicated by Miller-Urey type electric discharge experiments, played a principal role in the early sequential information of peptide profiles. Moreover, the computed profiles display an astonishing similarity to peptide profiles observed in so-called biological common ancestors found in the following three microorganisms; E. coli, M. jannaschii, and S. cereviasiae. The prebiotic peptide fingerprint was obtained by the so-called polarity index method that was earlier reported as a tool for the identification of cationic amphipathic antibacterial short peptides.
Źródło:
Acta Biochimica Polonica; 2013, 60, 2; 175-182
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Possible computational filter to detect proteins associated to influenza A subtype H1N1
Autorzy:
Polanco, Carlos
Buhse, Thomas
Castañón-González, Jorge
Samaniego, José
Powiązania:
https://bibliotekanauki.pl/articles/1039197.pdf
Data publikacji:
2014
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
Polarity Index Method
influenza A virus subtype H1N1
drug design
QSAR method
Opis:
The design of drugs with bioinformatics methods to identify proteins and peptides with a specific toxic action is increasingly recurrent. Here, we identify toxic proteins towards the influenza A virus subtype H1N1 located at the UniProt database. Our quantitative structure-activity relationship (QSAR) approach is based on the analysis of the linear peptide sequence with the so-called Polarity Index Method that shows an efficiency of 90% for proteins from the Uniprot Database. This method was exhaustively verified with the APD2, CPPsite, Uniprot, and AmyPDB databases as well as with the set of antibacterial peptides studied by del Rio et al. and Oldfield et al.
Źródło:
Acta Biochimica Polonica; 2014, 61, 4; 693-698
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Calculation Models for Acoustic Analysis of St. Elizabeth of Hungary Church in Jaworzno Szczakowa
Autorzy:
Kosała, K.
Powiązania:
https://bibliotekanauki.pl/articles/177877.pdf
Data publikacji:
2016
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
acoustic quality
index method
church acoustics
Singular Value Decomposition
SVD
acoustic simulation tests
Opis:
In parallel with research conducted using conventional methods, a uniform index method for assessing the acoustic quality of Roman Catholic churches has been developed. The latest version of the index method has been created using the index observation matrix of 12 churches which have been rated by means of the single number global index. Assessments of the acoustic quality of any Roman Catholic church, using two calculation models: the Global Acoustic Properties Index (GAP) and the Global Index (GI), are shown in the article. The verification was performed on the example of one church, showing the way of calculating global indices to assess the acoustic quality of a new facility. The next stages in the development of the index method for assessing the acoustic quality of churches were taking into account the audience, using simulation tests and determining the spatial distribution of the single number GAP index in an examined church. An attempt to use the GAP and GI calculation models to assess the acoustic properties of some churches is also shown in the article.
Źródło:
Archives of Acoustics; 2016, 41, 3; 485-498
0137-5075
Pojawia się w:
Archives of Acoustics
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Electronegativity and intrinsic disorder of preeclampsia-related proteins
Autorzy:
Polanco, Carlos
Castañón-González, Jorge
Uversky, Vladimir
Buhse, Thomas
Samaniego Mendoza, José
Calva, Juan
Powiązania:
https://bibliotekanauki.pl/articles/1038693.pdf
Data publikacji:
2017
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
preeclampsia
intrinsically disordered proteins
structural proteomics
bioinformatics
antimicrobial peptides
polarity index method
lipoproteins
angiogenesis proteins
Opis:
Preeclampsia, hemorrhage, and infection are the leading causes of maternal death in underdeveloped countries. Since several proteins associated with preeclampsia are known, we conducted a computational study which evaluated the commonness and potential functionality of intrinsic disorder of these proteins and also made an attempt to characterize their origin. The origin of the preeclampsia-related proteins was assessed with a supervised technique, a Polarity Index Method (PIM), which evaluates the electronegativity of proteins based solely on their sequence. The commonness of intrinsic disorder was evaluated using several disorder predictors from the PONDR family, the charge-hydropathy plot (CH-plot) and cumulative distribution function (CDF) analyses, and using the MobiDB web-based tool, whereas potential functionality of intrinsic disorder was studied with the D2P2 resource and ANCHOR predictor of disorder-based binding sites, and the STRING tool was used to build the interactivity networks of the preeclampsia-related proteins. Peculiarities of the PIM-derived polar profile of the group of preeclampsia-related proteins were then compared with profiles of a group of lipoproteins, antimicrobial peptides, angiogenesis-related proteins, and the intrinsically disordered proteins. Our results showed a high graphical correlation between preeclampsia proteins, lipoproteins, and the angiogenesis proteins. We also showed that many preeclampsia-related proteins contain numerous functional disordered regions. Therefore, these bioinformatics results led us to assume that the preeclampsia proteins are highly associated with the lipoproteins group, and that some preeclampsia-related proteins contain significant amounts of functional disorders.
Źródło:
Acta Biochimica Polonica; 2017, 64, 1; 99-111
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
The Usefulness of the Index Method for the Analysis of the Relevance of Political Parties
Przydatność metody indeksowej dla analizy relewancji partii politycznych
Autorzy:
Michalak, Bartłomiej
Powiązania:
https://bibliotekanauki.pl/articles/2168184.pdf
Data publikacji:
2011-06-30
Wydawca:
Wydawnictwo Adam Marszałek
Tematy:
political relevance
eff ective number of parties
power indexes
indexes of government relevance
index method.
Opis:
The aim of this article is to present a critical overview of research methods (so called indexes) used for measuring different parameters of party systems. The starting point for further discussion is the semantic relevance theory developed by G. Sartori. In the next part of the article I will deal with the question whether this qualitative method can be quantified in any way. With this regard, I will analyse such indexes as: the effective number of parties index, the power indexes and the government relevance indexes. The article shows that despite many scholars’ fears, political science has a large set of tools for making precise measurements of empirical data, which may be used for comparison. A theoretical concept of relevance, together with its “qualitative” test, combined with properly selected and configured quantitative techniques, guarantee the effective measurement of relevance also at the ordinal, or even the interval level. Thus, it is legitimate to refer to this approach as an “index method.
Celem artykułu jest krytyczny przegląd popularnych technik badawczych (tzw. indeksów) wykorzystywanych do pomiaru różnych parametrów systemów partyjnych pod kątem ich użyteczności w badaniu relewancji partii politycznych. Punktem wyjścia dla dalszych rozważań jest nominalna koncepcja relewancji zaproponowana przez G. Sartoriego. W dalszej części podjęta zostanie próba odpowiedzi na pytanie czy ta jakościowa metoda może zostać w jakikolwiek sposób skwantyfikowana? W tym kontekście analizie poddane zostaną takie wskaźniki jak: indeks efektywnej liczby partii, indeksy siły i relewancji rządowej. Artykuł wykazuje, że wbrew obawom wielu badaczy, politologia dysponuje rozbudowanym zbiorem narzędzi umożliwiających dokonywanie precyzyjnych i komparatystycznie przydatnych pomiarów danych empirycznych. Teoretyczna koncepcja relewancji, wraz z jej jakościowym „testem”, w połączeniu z odpowiednio dobranymi i skonfigurowanymi technikami ilościowymi gwarantują skuteczny pomiar relewancji również na poziomie porządkowym, a nawet interwałowym. Można zatem podejście to z powodzeniem nazwać „metodą indeksowa”.
Źródło:
Athenaeum. Polskie Studia Politologiczne; 2011, 29; 143-156
1505-2192
Pojawia się w:
Athenaeum. Polskie Studia Politologiczne
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Decorrelation of indices for a single number assessment of the acoustic quality of sacral objects
Dekorelacja wskaźników w jednoliczbowej ocenie jakości akustycznej obiektów sakralnych
Autorzy:
Kosała, K.
Powiązania:
https://bibliotekanauki.pl/articles/328081.pdf
Data publikacji:
2011
Wydawca:
Polska Akademia Nauk. Polskie Towarzystwo Diagnostyki Technicznej PAN
Tematy:
rozkład SVD
dekorelacja
wskaźnikowa metoda oceny
singular value decomposition
SVD
decorrelation
index method of assessment
Opis:
A new approach for solving the problem of a single number index formula by creating the index from mutually-correlated indices by means of decorrelation of the Index Observation Matrix (IOM) was shown. The orthogonal singular vectors obtained from SVD were used in order to build a single number index. Application of the proposed formula for a local single number index of selected acoustic parameters of the interiors of six Roman Catholic churches was shown. Decorrelation of the indices for a single number assessment of the acoustic quality of sacral objects will be applied for complex global acoustic assessment of such interiors' index method, which is currently being improved.
Pokazane w artykule nowe podejście do rozwiązania problemu opracowania wskaźnika jednoliczbowego, polega na utworzeniu tego wskaźnika ze wskaźników skorelowanych ze sobą, na drodze dekorelacji wskaźnikowej macierzy obserwacji. Do konstrukcji wskaźnika jednoliczbowego wykorzystano, uzyskane z rozkładu SVD, ortogonalne wektory szczególne. Weryfikację zaproponowanego wzoru na jednoliczbowy lokalny wskaźnik wybranych parametrów akustycznych obiektów sakralnych pokazano na sześciu rzeczywistych kościołach rzymskokatolickich. Dekorelacja wskaźników w jednoliczbowej ocenie jakości akustycznej obiektów sakralnych będzie wykorzystana do kompleksowej globalnej oceny jakości akustycznej obiektów sakralnych - metody wskaźnikowej, która jest w dalszym ciągu udoskonalana.
Źródło:
Diagnostyka; 2011, 2(58); 49-52
1641-6414
2449-5220
Pojawia się w:
Diagnostyka
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Assessment of WQI for the Al-Jubalia Water Treatment Plant
Autorzy:
Naeem, Saja M.
Al Chalabi, Ahmed S.
Al-Marj, Ohood K.
Powiązania:
https://bibliotekanauki.pl/articles/2202124.pdf
Data publikacji:
2022
Wydawca:
Polskie Towarzystwo Inżynierii Ekologicznej
Tematy:
WQI
Al-Jubalia
WTP
weight arithmetic index method
relative white
WHO
Iraqi standard
drinking water
Opis:
The water quality index is an effective tool for determining water quality. All water treatment plants in the Basrah governorate source their water from the Shatt al-Arab River. A water quality index (WQI) for both raw and treated water for the Al-Jubalia water treatment plant is obtained in order to assess its acceptability as a source of residential water supply and the performance of water treatment facilities. From January to December 2019, the physicochemical parameters were observed for the calculation of WQI for the annual and four seasons: winter, spring, summer, and autumn. The pH, turbidity, electric conductivity, total alkalinity, total hardness, Ca, Mg, Cl, SO4, TDS, Na, and K are the parameters that were considered in this study. In winter, spring, and summer, the results show that raw and treated water were unsuitable for home, industrial, and irrigation needs. In autumn, only the treated water was classified as good water according to WQI categories. As a result, the quality of the Al-Jubalia WTP treated water supply is unfit for human consumption.
Źródło:
Journal of Ecological Engineering; 2022, 23, 10; 216--228
2299-8993
Pojawia się w:
Journal of Ecological Engineering
Dostawca treści:
Biblioteka Nauki
Artykuł
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