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Fulltext Numerical study of entropy generation due to coupled laminar and turbulent mixed convection and thermal radiation in an enclosure filled with a semitransparent medium

Goodarzi M, Safaei MR, Oztop HF, Karimipour A, Sadeghinezhad E, Dahari M, et al.

ScientificWorldJournal, 2014;2014:761745.
PMID: 24778601 DOI: 10.1155/2014/761745

The effect of radiation on laminar and turbulent mixed convection heat transfer of a semitransparent medium in a square enclosure was studied numerically using the Finite Volume Method. A structured mesh and the SIMPLE algorithm were utilized to model the governing equations. Turbulence and radiation were modeled with the RNG k-ε model and Discrete Ordinates (DO) model, respectively. For Richardson numbers ranging from 0.1 to 10, simulations were performed for Rayleigh numbers in laminar flow (10⁴) and turbulent flow (10⁸). The model predictions were validated against previous numerical studies and good agreement was observed. The simulated results indicate that for laminar and turbulent motion states, computing the radiation heat transfer significantly enhanced the Nusselt number (Nu) as well as the heat transfer coefficient. Higher Richardson numbers did not noticeably affect the average Nusselt number and corresponding heat transfer rate. Besides, as expected, the heat transfer rate for the turbulent flow regime surpassed that in the laminar regime. The simulations additionally demonstrated that for a constant Richardson number, computing the radiation heat transfer majorly affected the heat transfer structure in the enclosure; however, its impact on the fluid flow structure was negligible.

Matched MeSH terms: Entropy*
Modelling gully-erosion susceptibility in a semi-arid region, Iran: Investigation of applicability of certainty factor and maximum entropy models

Azareh A, Rahmati O, Rafiei-Sardooi E, Sankey JB, Lee S, Shahabi H, et al.

Sci Total Environ, 2019 Mar 10;655:684-696.
PMID: 30476849 DOI: 10.1016/j.scitotenv.2018.11.235

Gully erosion susceptibility mapping is a fundamental tool for land-use planning aimed at mitigating land degradation. However, the capabilities of some state-of-the-art data-mining models for developing accurate maps of gully erosion susceptibility have not yet been fully investigated. This study assessed and compared the performance of two different types of data-mining models for accurately mapping gully erosion susceptibility at a regional scale in Chavar, Ilam, Iran. The two methods evaluated were: Certainty Factor (CF), a bivariate statistical model; and Maximum Entropy (ME), an advanced machine learning model. Several geographic and environmental factors that can contribute to gully erosion were considered as predictor variables of gully erosion susceptibility. Based on an existing differential GPS survey inventory of gully erosion, a total of 63 eroded gullies were spatially randomly split in a 70:30 ratio for use in model calibration and validation, respectively. Accuracy assessments completed with the receiver operating characteristic curve method showed that the ME-based regional gully susceptibility map has an area under the curve (AUC) value of 88.6% whereas the CF-based map has an AUC of 81.8%. According to jackknife tests that were used to investigate the relative importance of predictor variables, aspect, distance to river, lithology and land use are the most influential factors for the spatial distribution of gully erosion susceptibility in this region of Iran. The gully erosion susceptibility maps produced in this study could be useful tools for land managers and engineers tasked with road development, urbanization and other future development.

Matched MeSH terms: Entropy
Investment risk and natural resource potential in "Belt & Road Initiative" countries: A multi-criteria decision-making approach

Hussain J, Zhou K, Guo S, Khan A

Sci Total Environ, 2020 Mar 16;723:137981.
PMID: 32208210 DOI: 10.1016/j.scitotenv.2020.137981

Chinese enterprises that conduct overseas investment projects encounter diverse challenges that emerge from political, economic, social, and environmental risks in the host countries. To better assess the overseas investment risks faced by Chinese enterprises, this study introduced and assessed novel aspects and an indicator system. Moreover, the "Technique for Order Preference by Similarity to Ideal Solution" (TOPSIS) method based on entropy weight was performed to generate a comprehensive assessment of China's foreign investment risk and natural resource potential in 63 "Belt & Road Initiative" (BRI) countries. This study aims to encourage Chinese enterprises to devise suitable overseas investment decision-making strategies concerning natural resource potential in host countries. A Geographic Information System (GIS) map was also created to assess the potential risks and opportunities for Chinese enterprises when making investment decisions in host countries. The findings indicate that the majority of countries in Central and Eastern Europe and other BRI countries such as Singapore, Malaysia, Nepal, Bhutan, Russia, Armenia, and the United Arab Emirates were the most suitable choices for Chinese enterprises engaging in overseas investment. Based on these results, Chinese enterprises could manage and execute BRI projects more effectively to minimise potential risks and maximise their investment benefits.

Matched MeSH terms: Entropy
Information-based analysis of the relationship between brain and facial muscle activities in response to static visual stimuli

Soundirarajan M, Pakniyat N, Sim S, Nathan V, Namazi H

Technol Health Care, 2021;29(1):99-109.
PMID: 32568131 DOI: 10.3233/THC-192085

BACKGROUND: Human facial muscles react differently to different visual stimuli. It is known that the human brain controls and regulates the activity of the muscles.
OBJECTIVE: In this research, for the first time, we investigate how facial muscle reaction is related to the reaction of the human brain.
METHODS: Since both electromyography (EMG) and electroencephalography (EEG) signals, as the features of muscle and brain activities, contain information, we benefited from the information theory and computed the Shannon entropy of EMG and EEG signals when subjects were exposed to different static visual stimuli with different Shannon entropies (information content).
RESULTS: Based on the obtained results, the variations of the information content of the EMG signal are related to the variations of the information content of the EEG signal and the visual stimuli. Statistical analysis also supported the results indicating that the visual stimuli with greater information content have a greater effect on the variation of the information content of both EEG and EMG signals.
CONCLUSION: This investigation can be further continued to analyze the relationship between facial muscle and brain reactions in case of other types of stimuli.

Matched MeSH terms: Entropy
Information-based decoding of the coupling among human brain activity and movement paths

Kamal SM, Dawi NM, Namazi H

Technol Health Care, 2021;29(6):1109-1118.
PMID: 33749623 DOI: 10.3233/THC-202744

BACKGROUND: Walking like many other actions of a human is controlled by the brain through the nervous system. In fact, if a problem occurs in our brain, we cannot walk correctly. Therefore, the analysis of the coupling of brain activity and walking is very important especially in rehabilitation science. The complexity of movement paths is one of the factors that affect human walking. For instance, if we walk on a path that is more complex, our brain activity increases to adjust our movements.
OBJECTIVE: This study for the first time analyzed the coupling of walking paths and brain reaction from the information point of view.
METHODS: We analyzed the Shannon entropy for electroencephalography (EEG) signals versus the walking paths in order to relate their information contents.
RESULTS: According to the results, walking on a path that contains more information causes more information in EEG signals. A strong correlation (p= 0.9999) was observed between the information contents of EEG signals and walking paths. Our method of analysis can also be used to investigate the relation among other physiological signals of a human and walking paths, which has great benefits in rehabilitation science.

Matched MeSH terms: Entropy
Fulltext An Improved Method of Parameter Identification and Damage Detection in Beam Structures under Flexural Vibration Using Wavelet Multi-Resolution Analysis

Ravanfar SA, Razak HA, Ismail Z, Monajemi H

Sensors (Basel), 2015;15(9):22750-75.
PMID: 26371005 DOI: 10.3390/s150922750

This paper reports on a two-step approach for optimally determining the location and severity of damage in beam structures under flexural vibration. The first step focuses on damage location detection. This is done by defining the damage index called relative wavelet packet entropy (RWPE). The damage severities of the model in terms of loss of stiffness are assessed in the second step using the inverse solution of equations of motion of a structural system in the wavelet domain. For this purpose, the connection coefficient of the scaling function to convert the equations of motion in the time domain into the wavelet domain is applied. Subsequently, the dominant components based on the relative energies of the wavelet packet transform (WPT) components of the acceleration responses are defined. To obtain the best estimation of the stiffness parameters of the model, the least squares error minimization is used iteratively over the dominant components. Then, the severity of the damage is evaluated by comparing the stiffness parameters of the identified model before and after the occurrence of damage. The numerical and experimental results demonstrate that the proposed method is robust and effective for the determination of damage location and accurate estimation of the loss in stiffness due to damage.

Matched MeSH terms: Entropy
Fulltext An Innovative Multi-Model Neural Network Approach for Feature Selection in Emotion Recognition Using Deep Feature Clustering

Asghar MA, Khan MJ, Rizwan M, Mehmood RM, Kim SH

Sensors (Basel), 2020 Jul 05;20(13).
PMID: 32635609 DOI: 10.3390/s20133765

Emotional awareness perception is a largely growing field that allows for more natural interactions between people and machines. Electroencephalography (EEG) has emerged as a convenient way to measure and track a user's emotional state. The non-linear characteristic of the EEG signal produces a high-dimensional feature vector resulting in high computational cost. In this paper, characteristics of multiple neural networks are combined using Deep Feature Clustering (DFC) to select high-quality attributes as opposed to traditional feature selection methods. The DFC method shortens the training time on the network by omitting unusable attributes. First, Empirical Mode Decomposition (EMD) is applied as a series of frequencies to decompose the raw EEG signal. The spatiotemporal component of the decomposed EEG signal is expressed as a two-dimensional spectrogram before the feature extraction process using Analytic Wavelet Transform (AWT). Four pre-trained Deep Neural Networks (DNN) are used to extract deep features. Dimensional reduction and feature selection are achieved utilising the differential entropy-based EEG channel selection and the DFC technique, which calculates a range of vocabularies using k-means clustering. The histogram characteristic is then determined from a series of visual vocabulary items. The classification performance of the SEED, DEAP and MAHNOB datasets combined with the capabilities of DFC show that the proposed method improves the performance of emotion recognition in short processing time and is more competitive than the latest emotion recognition methods.

Matched MeSH terms: Entropy
Identification of Distributed Denial of Services Anomalies by Using Combination of Entropy and Sequential Probabilities Ratio Test Methods

Ali BH, Sulaiman N, Al-Haddad SAR, Atan R, Hassan SLM, Alghrairi M

Sensors (Basel), 2021 Sep 27;21(19).
PMID: 34640773 DOI: 10.3390/s21196453

One of the most dangerous kinds of attacks affecting computers is a distributed denial of services (DDoS) attack. The main goal of this attack is to bring the targeted machine down and make their services unavailable to legal users. This can be accomplished mainly by directing many machines to send a very large number of packets toward the specified machine to consume its resources and stop it from working. We implemented a method using Java based on entropy and sequential probabilities ratio test (ESPRT) methods to identify malicious flows and their switch interfaces that aid them in passing through. Entropy (E) is the first technique, and the sequential probabilities ratio test (SPRT) is the second technique. The entropy method alone compares its results with a certain threshold in order to make a decision. The accuracy and F-scores for entropy results thus changed when the threshold values changed. Using both entropy and SPRT removed the uncertainty associated with the entropy threshold. The false positive rate was also reduced when combining both techniques. Entropy-based detection methods divide incoming traffic into groups of traffic that have the same size. The size of these groups is determined by a parameter called window size. The Defense Advanced Research Projects Agency (DARPA) 1998, DARPA2000, and Canadian Institute for Cybersecurity (CIC-DDoS2019) databases were used to evaluate the implementation of this method. The metric of a confusion matrix was used to compare the ESPRT results with the results of other methods. The accuracy and f-scores for the DARPA 1998 dataset were 0.995 and 0.997, respectively, for the ESPRT method when the window size was set at 50 and 75 packets. The detection rate of ESPRT for the same dataset was 0.995 when the window size was set to 10 packets. The average accuracy for the DARPA 2000 dataset for ESPRT was 0.905, and the detection rate was 0.929. Finally, ESPRT was scalable to a multiple domain topology application.

Matched MeSH terms: Entropy
Fulltext A scaling law for distinct electrocaloric cooling performance in low-dimensional organic, relaxor and anti-ferroelectrics

Shi Y, Huang L, Soh AK, Weng GJ, Liu S, Redfern SAT

Sci Rep, 2017 09 11;7(1):11111.
PMID: 28894256 DOI: 10.1038/s41598-017-11633-y

Electrocaloric (EC) materials show promise in eco-friendly solid-state refrigeration and integrable on-chip thermal management. While direct measurement of EC thin-films still remains challenging, a generic theoretical framework for quantifying the cooling properties of rich EC materials including normal-, relaxor-, organic- and anti-ferroelectrics is imperative for exploiting new flexible and room-temperature cooling alternatives. Here, we present a versatile theory that combines Master equation with Maxwell relations and analytically relates the macroscopic cooling responses in EC materials with the intrinsic diffuseness of phase transitions and correlation characteristics. Under increased electric fields, both EC entropy and adiabatic temperature changes increase quadratically initially, followed by further linear growth and eventual gradual saturation. The upper bound of entropy change (∆Smax) is limited by distinct correlation volumes (V cr ) and transition diffuseness. The linearity between V cr and the transition diffuseness is emphasized, while ∆Smax = 300 kJ/(K.m3) is obtained for Pb0.8Ba0.2ZrO3. The ∆Smax in antiferroelectric Pb0.95Zr0.05TiO3, Pb0.8Ba0.2ZrO3 and polymeric ferroelectrics scales proportionally with V cr-2.2, owing to the one-dimensional structural constraint on lattice-scale depolarization dynamics; whereas ∆Smax in relaxor and normal ferroelectrics scales as ∆Smax ~ V cr-0.37, which tallies with a dipolar interaction exponent of 2/3 in EC materials and the well-proven fractional dimensionality of 2.5 for ferroelectric domain walls.

Matched MeSH terms: Entropy
Indeks Kemajuan antara Daerah di Semenanjung Malaysia (Development Index among Districts in Peninsular Malaysia)

Abdul Aziz Jemain

Sains Malaysiana, 2005;34.

This paper offers a technique to create a development index among districts. To determine the weight for each criterion in the index entropy theory was used. Two approaches for criteria normalization were also suggested. The data obtained from 1991 census conducted in Peninsular Malaysia were utilized as illustration.
Kertas ini mencadangkan teknik pembinaan indeks kemajuan daerah. Teori entropy digunakan untuk menentukan pemberat bagi kriteria yang digunakan dalam pembinaan indeks. Dua pendekatan menormalkan data turut dicadangkan. Contoh pembinaan indeks dikemukakan berdasarkan kemudahan asas yang terdapat di daerah-daerah di Semenanjung Malaysia seperti yang diperoleh berdasarkan banci tahun 1991.

Matched MeSH terms: Entropy
Construction of a composite hospital admission index using the aggregated weights of criteria

Nor Hasliza Mat Desa, Maznah Mat Kasim, Abdul Aziz Jemain

Sains Malaysiana, 2015;44:239-247.

The issue of age difference in hospital admission should be given special attention since it affects the structure of hospital care and treatments. Patients of different age groups should be given different priority in service provision. Due to crucial time and limited resources, healthcare managers need to make wise decisions in identifying priorities in age of admission. This paper aimed to propose a construction of a daily composite hospital admission index (CHAI) as an indicator that captures relevant information about the overall performance of hospital admission over time. It involves five different age groups of total patients admitted to seven major public hospitals in the Klang Valley, Malaysia for respiratory and cardiovascular diseases for a period of three years, 2008 - 2010. The criteria weights were predetermined by aggregating the subjective weight based on rank ordered centroid (ROC) method and objective weight based on entropy - kernel method. The highest and lowest scores of CHAI were marked, while the groups of patients were prioritized according to the criteria weight ranking orders.

Matched MeSH terms: Entropy
Fulltext Determination of Temperature-Dependent Coefficients of Viscosity and Surface Tension of Tamarind Seeds (Tamarindus indica L.) Polymer

Malviya R, Jha S, Fuloria NK, Subramaniyan V, Chakravarthi S, Sathasivam K, et al.

Polymers (Basel), 2021 Feb 18;13(4).
PMID: 33670569 DOI: 10.3390/polym13040610

The rheological properties of tamarind seed polymer are characterized for its possible commercialization in the food and pharmaceutical industry. Seed polymer was extracted using water as a solvent and ethyl alcohol as a precipitating agent. The temperature's effect on the rheological behavior of the polymeric solution was studied. In addition to this, the temperature coefficient, viscosity, surface tension, activation energy, Gibbs free energy, Reynolds number, and entropy of fusion were calculated by using the Arrhenius, Gibbs-Helmholtz, Frenkel-Eyring, and Eotvos equations, respectively. The activation energy of the gum was found to be 20.46 ± 1.06 kJ/mol. Changes in entropy and enthalpy were found to be 23.66 ± 0.97 and -0.10 ± 0.01 kJ/mol, respectively. The calculated amount of entropy of fusion was found to be 0.88 kJ/mol. A considerable decrease in apparent viscosity and surface tension was produced when the temperature was raised. The present study concludes that the tamarind seed polymer solution is less sensitive to temperature change in comparison to Albzia lebbac gum, Ficus glumosa gum and A. marcocarpa gum. This study also concludes that the attainment of the transition state of viscous flow for tamarind seed gum is accompanied by bond breaking. The excellent physicochemical properties of tamarind seed polymers make them promising excipients for future drug formulation and make their application in the food and cosmetics industry possible.

Matched MeSH terms: Entropy
Fulltext Quantifying 'causality' in complex systems: understanding transfer entropy

Abdul Razak F, Jensen HJ

PLoS One, 2014;9(6):e99462.
PMID: 24955766 DOI: 10.1371/journal.pone.0099462

'Causal' direction is of great importance when dealing with complex systems. Often big volumes of data in the form of time series are available and it is important to develop methods that can inform about possible causal connections between the different observables. Here we investigate the ability of the Transfer Entropy measure to identify causal relations embedded in emergent coherent correlations. We do this by firstly applying Transfer Entropy to an amended Ising model. In addition we use a simple Random Transition model to test the reliability of Transfer Entropy as a measure of 'causal' direction in the presence of stochastic fluctuations. In particular we systematically study the effect of the finite size of data sets.

Matched MeSH terms: Entropy*
Fulltext Predictive modeling and mapping of Malayan Sun Bear (Helarctos malayanus) distribution using maximum entropy

Nazeri M, Jusoff K, Madani N, Mahmud AR, Bahman AR, Kumar L

PLoS One, 2012;7(10):e48104.
PMID: 23110182 DOI: 10.1371/journal.pone.0048104

One of the available tools for mapping the geographical distribution and potential suitable habitats is species distribution models. These techniques are very helpful for finding poorly known distributions of species in poorly sampled areas, such as the tropics. Maximum Entropy (MaxEnt) is a recently developed modeling method that can be successfully calibrated using a relatively small number of records. In this research, the MaxEnt model was applied to describe the distribution and identify the key factors shaping the potential distribution of the vulnerable Malayan Sun Bear (Helarctos malayanus) in one of the main remaining habitats in Peninsular Malaysia. MaxEnt results showed that even though Malaysian sun bear habitat is tied with tropical evergreen forests, it lives in a marginal threshold of bio-climatic variables. On the other hand, current protected area networks within Peninsular Malaysia do not cover most of the sun bears potential suitable habitats. Assuming that the predicted suitability map covers sun bears actual distribution, future climate change, forest degradation and illegal hunting could potentially severely affect the sun bear's population.

Matched MeSH terms: Entropy
Fulltext An Empirical Analysis of Rough Set Categorical Clustering Techniques

Uddin J, Ghazali R, Deris MM

PLoS One, 2017;12(1):e0164803.
PMID: 28068344 DOI: 10.1371/journal.pone.0164803

Clustering a set of objects into homogeneous groups is a fundamental operation in data mining. Recently, many attentions have been put on categorical data clustering, where data objects are made up of non-numerical attributes. For categorical data clustering the rough set based approaches such as Maximum Dependency Attribute (MDA) and Maximum Significance Attribute (MSA) has outperformed their predecessor approaches like Bi-Clustering (BC), Total Roughness (TR) and Min-Min Roughness(MMR). This paper presents the limitations and issues of MDA and MSA techniques on special type of data sets where both techniques fails to select or faces difficulty in selecting their best clustering attribute. Therefore, this analysis motivates the need to come up with better and more generalize rough set theory approach that can cope the issues with MDA and MSA. Hence, an alternative technique named Maximum Indiscernible Attribute (MIA) for clustering categorical data using rough set indiscernible relations is proposed. The novelty of the proposed approach is that, unlike other rough set theory techniques, it uses the domain knowledge of the data set. It is based on the concept of indiscernibility relation combined with a number of clusters. To show the significance of proposed approach, the effect of number of clusters on rough accuracy, purity and entropy are described in the form of propositions. Moreover, ten different data sets from previously utilized research cases and UCI repository are used for experiments. The results produced in tabular and graphical forms shows that the proposed MIA technique provides better performance in selecting the clustering attribute in terms of purity, entropy, iterations, time, accuracy and rough accuracy.

Matched MeSH terms: Entropy
Fulltext A hybrid approach using entropy and TOPSIS to select key drivers for a successful and sustainable lean construction implementation

Dehdasht G, Ferwati MS, Zin RM, Abidin NZ

PLoS One, 2020;15(2):e0228746.
PMID: 32023306 DOI: 10.1371/journal.pone.0228746

Successful implementation of the lean concept as a sustainable approach in the construction industry requires the identification of critical drivers in lean construction. Despite this significance, the number of in-depth studies toward understanding the considerable drivers of lean construction implementation is quite limited. There is also a shortage of methodologies for identifying key drivers. To address these challenges, this paper presents a list of all essential drivers within three aspects of sustainability (social, economic, and environmental) and proposes a novel methodology to rank the drivers and identify the key drivers for successful and sustainable lean construction implementation. In this regard, the entropy weighted Technique for Order of Preference by Similarity to Ideal Solution (TOPSIS) was employed in this research. Subsequently, an empirical study was conducted within the Malaysian construction industry to demonstrate the proposed method. Moreover, sensitivity analysis and comparison with the existing method were engaged to validate the stability and accuracy of the achieved results. The significant results obtained in this study are as follows: presenting, verifying and ranking of 63 important drivers; identifying 22 key drivers; proposing an MCDM model of key drivers. The outcomes show that the proposed method in this study is an effective and accurate tool that could help managers make better decisions.

Matched MeSH terms: Entropy*
Fulltext Entropy-based financial asset pricing: Evidence from Pakistan

Wang S, Khan SA, Munir M, Alhajj R, Khan YA

PLoS One, 2022;17(12):e0278236.
PMID: 36548250 DOI: 10.1371/journal.pone.0278236

Entropy is an alternative measure to calculate the risk, simplify the portfolios and equity risk premium. It has higher explanatory power than capital asset price model (CAPM) beta. The comparison of Entropy and CAPM beta provide in depth analysis about the explanatory power of the model that in turn help investor to make right investment decisions that minimizes risk. In this context, this study aims to compare Shannon and Rennyi Entropies with the CAPM beta for measuring the risk. Ordinary Least square approach has been utilized using a dataset of 67 enterprises registered in Pakistan Stock exchange. The comparative analysis of CAPM beta and entropy has been carried out with the R2 parameters. The result indicates that entropy has more explanatory power as compare to CAPM beta's explanatory power, and this turns out to be the best option to evaluate the risk performances. The result implies that an investor should make the best investment decision by choosing an enterprise that provide with good returns at minimum risk based on entropy technique.

Matched MeSH terms: Entropy
Fulltext Seagrass habitat suitability model for Redang Marine Park using multibeam echosounder data: Testing different spatial resolutions and analysis window sizes

Muhamad MAH, Che Hasan R, Md Said N, Ooi JL

PLoS One, 2021;16(9):e0257761.
PMID: 34555110 DOI: 10.1371/journal.pone.0257761

Integrating Multibeam Echosounder (MBES) data (bathymetry and backscatter) and underwater video technology allows scientists to study marine habitats. However, use of such data in modeling suitable seagrass habitats in Malaysian coastal waters is still limited. This study tested multiple spatial resolutions (1 and 50 m) and analysis window sizes (3 × 3, 9 × 9, and 21 × 21 cells) probably suitable for seagrass-habitat relationships in Redang Marine Park, Terengganu, Malaysia. A maximum entropy algorithm was applied, using 12 bathymetric and backscatter predictors to develop a total of 6 seagrass habitat suitability models. The results indicated that both fine and coarse spatial resolution datasets could produce models with high accuracy (>90%). However, the models derived from the coarser resolution dataset displayed inconsistent habitat suitability maps for different analysis window sizes. In contrast, habitat models derived from the fine resolution dataset exhibited similar habitat distribution patterns for three different analysis window sizes. Bathymetry was found to be the most influential predictor in all the models. The backscatter predictors, such as angular range analysis inversion parameters (characterization and grain size), gray-level co-occurrence texture predictors, and backscatter intensity levels, were more important for coarse resolution models. Areas of highest habitat suitability for seagrass were predicted to be in shallower (<20 m) waters and scattered between fringing reefs (east to south). Some fragmented, highly suitable habitats were also identified in the shallower (<20 m) areas in the northwest of the prediction models and scattered between fringing reefs. This study highlighted the importance of investigating the suitable spatial resolution and analysis window size of predictors from MBES for modeling suitable seagrass habitats. The findings provide important insight on the use of remote acoustic sonar data to study and map seagrass distribution in Malaysia coastal water.

Matched MeSH terms: Entropy
Fulltext Dual-tree complex wavelet packet transform for voice pathology analysis

Farah Nazlia Che Kassim, Muthusamy, Hariharan, Vijean, Vikneswaran, Zulkapli Abdullah, Rokiah Abdullah

Pertanika Journal of Science & Technology, 2020;28(3):839-858.
MyJurnal

Voice pathology analysis has been one of the useful tools in the diagnosis of the pathological voice, as the method is non-invasive, inexpensive, and can reduce the time required for the analysis. This paper investigates feature extraction based on the Dual-Tree Complex Wavelet Packet Transform (DT-CWPT) using energy and entropy measures tested with two classifiers, k-Nearest Neighbors (k-NN) and Support Vector Machine (SVM). Massachusetts Eye and Ear Infirmary (MEEI) voice disorders database and Saarbruecken Voice Database (SVD) were used. Five datasets of voice samples were used from these databases, including normal and abnormal samples, Cysts, Vocal Nodules, Polyp, and Paralysis vocal fold. To the best of the authors’ knowledge, very few studies were done on multiclass classifications using specific pathology database. File-based and frame-based investigation for two-class and multiclass were considered. In the two-class analysis using the DT-CWPT with entropies, the classification accuracy of 100% and 99.94% was achieved for MEEI and SVD database respectively. Meanwhile, the classification accuracy for multiclass analysis comprised of 99.48% for the MEEI database and 99.65% for SVD database. The experimental results using the proposed features provided promising accuracy to detect the presence of diseases in vocal fold.

Matched MeSH terms: Entropy
Fulltext Dynamics of Influenza A (H5N1) virus protein sequence diversity

Abd Raman HS, Tan S, August JT, Khan AM

PeerJ, 2020;7:e7954.
PMID: 32518710 DOI: 10.7717/peerj.7954

Background: Influenza A (H5N1) virus is a global concern with potential as a pandemic threat. High sequence variability of influenza A viruses is a major challenge for effective vaccine design. A continuing goal towards this is a greater understanding of influenza A (H5N1) proteome sequence diversity in the context of the immune system (antigenic diversity), the dynamics of mutation, and effective strategies to overcome the diversity for vaccine design.
Methods: Herein, we report a comprehensive study of the dynamics of H5N1 mutations by analysis of the aligned overlapping nonamer positions (1-9, 2-10, etc.) of more than 13,000 protein sequences of avian and human influenza A (H5N1) viruses, reported over at least 50 years. Entropy calculations were performed on 9,408 overlapping nonamer position of the proteome to study the diversity in the context of immune system. The nonamers represent the predominant length of the binding cores for peptides recognized by the cellular immune system. To further dissect the sequence diversity, each overlapping nonamer position was quantitatively analyzed for four patterns of sequence diversity motifs: index, major, minor and unique.
Results: Almost all of the aligned overlapping nonamer positions of each viral proteome exhibited variants (major, minor, and unique) to the predominant index sequence. Each variant motif displayed a characteristic pattern of incidence change in relation to increased total variants. The major variant exhibited a restrictive pyramidal incidence pattern, with peak incidence at 50% total variants. Post this peak incidence, the minor variants became the predominant motif for majority of the positions. Unique variants, each sequence observed only once, were present at nearly all of the nonamer positions. The diversity motifs (index and variants) demonstrated complex inter-relationships, with motif switching being a common phenomenon. Additionally, 25 highly conserved sequences were identified to be shared across viruses of both hosts, with half conserved to several other influenza A subtypes.
Discussion: The presence of distinct sequences (nonatypes) at nearly all nonamer positions represents a large repertoire of reported viral variants in the proteome, which influence the variability dynamics of the viral population. This work elucidated and provided important insights on the components that make up the viral diversity, delineating inherent patterns in the organization of sequence changes that function in the viral fitness-selection. Additionally, it provides a catalogue of all the mutational changes involved in the dynamics of H5N1 viral diversity for both avian and human host populations. This work provides data relevant for the design of prophylactics and therapeutics that overcome the diversity of the virus, and can aid in the surveillance of existing and future strains of influenza viruses.

Matched MeSH terms: Entropy

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