45 results on '"Komeili M"'
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2. Structural and hydrogen absorption/desorption properties of Zr2(Co0.5Fe0.2Ni0.2V0.1) intermetallic alloy
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Komeili, M., Arabi, H., Yusupov, R.V., Ghorbani, S.R., Vagizov, F.G., and Pourarian, F.
- Published
- 2021
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3. Modelling the dynamic response of a micro-cantilever excited at its base by an arbitrary thermal input using Laplace transformation
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Komeili, M. and Menon, C.
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- 2017
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4. A Stochastic XFEM Model to Study Delamination in PPS/Glass UD Composites: Effect of Uncertain Fracture Properties
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Motamedi, D., Milani, A. S., Komeili, M., Bureau, M. N., Thibault, F., and Trudel-Boucher, D.
- Published
- 2014
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5. Coexistence of Superconductivity and Ferromagnetic Phases in YBa2Cu3O7−δ Nanoparticles
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Arabi, H., Jamshidi, S., Komeili, M., and Amirabadizadeh, A.
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- 2013
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6. Performance of 1-D and 2-D Lattice Boltzmann (LB) in Solution of the Shock Tube Problem
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Komeili, M., Mirzaei, M., and Shabouei, M.
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Computational Engineering, Finance, and Science (cs.CE) ,FOS: Computer and information sciences ,FOS: Mathematics ,Numerical Analysis (math.NA) ,Mathematics - Numerical Analysis ,Computer Science - Computational Engineering, Finance, and Science - Abstract
In this paper we presented a lattice Boltzmann with square grid for compressible flow problems. Triple level velocity is considered for each cell. Migration step use discrete velocity but continuous parameters are utilized to calculate density, velocity, and energy. So, we called this semi-discrete method. To evaluate the performance of the method the well-known shock tube problem is solved, using 1-D and 2-D version of the lattice Boltzmann method. The results of these versions are compared with each other and with the results of the analytical solution., in International Conference on Fascinating Advancement in Mechanical Engineering (FAME2008), India, 2008
- Published
- 2016
7. Bioconversion of Cheese Whey to Methane in an Upflow Anaerobic Packed Bed Bioreactor
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Najafpour, G. D., Komeili, M., Tajallipour, M., and Asadi, M.
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Anaerobic treatment ,UAPB ,cheese whey ,methane ,COD and fixed film - Abstract
Upflow anaerobic packed bed (UAPB) reactor is an upflow fixed film packed bed bioreactor that is used for rapid biotransformation of organic matter to methane. In this study, biofilm was established on seashell, packed in an UAPB bioreactor. The start-up duration for the bioreactor was 3 to 5 days while the major problem associated with normal UASB reactors is long start-up. The reactor was operated at room temperature (25 °C) with various HRT of τ = 6, 9, 10, 13, 16, 20 and 24 h. The organic loading was gradually increased from 1.6 to 9.9 g L-1 h-1 COD. The UAPB reactor was continuously operated for 65 d. The treatment of high organic load dairy wastewater at HRT of 6 h was conducted. Maximum biogas production of 12.4 L h-1 (6.57 mol h-1) was achieved. At HRT of 16 h, a 94.5 % of COD removal was obtained. Methane yield of 0.12 g CH4 per g lactose at the highest OLR was achieved.
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- 2010
8. A preliminary investigation into the design of pressure cushions and their potential applications for forearm robotic orthoses.
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Alavi, N., Zampierin, S., Komeili, M., Cocuzza, S., Debei, S., and Menon, C.
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ROBOTS ,ORTHOPEDIC apparatus ,FINITE element method ,FORCE & energy ,POLYMERS ,DIMETHYLPOLYSILOXANES ,ROBOTIC exoskeletons ,ROBOTICS equipment ,MANOMETERS ,COMPARATIVE studies ,COMPUTER-aided design ,FOREARM ,RESEARCH methodology ,MEDICAL cooperation ,PRESSURE ,RESEARCH ,RESEARCH evaluation ,TECHNOLOGY ,TRANSDUCERS ,PILOT projects ,PRODUCT design ,EVALUATION research ,MEDICAL equipment reliability ,EQUIPMENT & supplies - Abstract
Background: Load cells are often used in rehabilitation robotics to monitor human-robot interaction. While load cells are accurate and suitable for the stationary end-point robots used in rehabilitation hospitals, their cost and inability to conform to the shape of the body hinder their application in developing affordable and wearable robotic orthoses for assisting individuals in the activities of daily living. This exploratory work investigates the possibility of using an alternative technology, namely compliant polymeric air cushions, to measure interaction forces between the user and a wearable rigid structure.Methods: A polymeric air cushion was designed, analyzed using a finite element model (FEM), and tested using a bench-top characterization system. The cushions underwent repeatability testing, and signal delay testing from a step response while increasing the length of the cushion's tubes. Subsequently, a 3D printed wrist brace prototype was integrated with six polymeric air cushions and tested in static conditions where a volunteer exerted isometric pronation/supination torque and forces in vertical and horizontal directions. The load measured by integrating data recorded by the six sensors was compared with force data measured by a high quality load cell and torque sensor.Results: The FEM and experimental data comparison was within the error bounds of the external differential pressure sensor used to monitor the pressure inside the cushion. The ratio obtained experimentally between the pressure inside the pressure cushion and the 8 N applied load deviated by only 1.28% from the FEM. A drift smaller than 1% was observed over 10 cycles. The rise times of the cushion under an 8 N step response for a 0.46, 1.03, and 2.02 m length tube was 0.45, 0.39, and 0.37 s. Tests with the wrist brace showed a moderate root mean square error (RMSE) between the force estimated by the pressure cushions and the external load cells. Specifically, the RMSE was 13 mNm, 500 mN, and 1.24 N for forearm pronation/supination torque, vertical force, and horizontal force, respectively.Conclusions: The use of compliant pressure cushions was shown to be promising for monitoring interaction forces between the forearm and a rigid brace. This work lays the foundation for the future design of an array of pressure cushions for robotic orthoses. Future research should also investigate the compatibility of these polymeric cushions for data acquisition during functional magnetic resonance imaging in shielded rooms. [ABSTRACT FROM AUTHOR]- Published
- 2017
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9. ROBUST DESIGN OF THERMALLY ACTUATED MICROCANTILEVER USING NUMERICAL SIMULATIONS.
- Author
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Komeili, M. and Menon, C.
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MICROCANTILEVERS , *EXPERIMENTAL design , *COMPUTER simulation , *ROBUST control , *THERMAL analysis , *MECHANICAL loads , *THERMOELASTICITY - Abstract
Dynamic behaviour of a micro-cantilever beam under periodic electro-thermal loading is studied in this paper. For certain applications the beam is required to vibrate at a particular frequency. Modal analysis using 3D finite element is used in order to find the geometrical parameters that makes fundamental frequency of the beam match the required frequency. Then non-linear dynamic thermoelastic analysis is conducted on the system to analyse the time-history (transient) behaviour of the beam and record its tip displacement. However, due to uncertainties and non-repeatabilities that are inherent properties of the system along with those associated with the manufacturing, final product is likely to have deviations from these estimated values (fundamental frequency and tip displacement). Thus, choosing a nominal (desired) design and studying the deviation in natural frequency and tip displacement via 2k factorial Design-of-Experiments (DOE), effect of uncertainties on the overall performance of the system is investigated. This allows finding the significance of individual parameters on the overall robustness of the design as well as potential interactions between various parameters. Finally, the expected behaviour of the micro-cantilever and its robustness to design and implementation uncertainties are elaborated and statements for robust design of this system are made. [ABSTRACT FROM AUTHOR]
- Published
- 2016
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10. On effect of shear-tension coupling in forming simulation of woven fabric reinforcements.
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Komeili, M. and Milani, A.S.
- Subjects
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FIBROUS composites , *SHEAR strength , *TENSION loads , *STIFFNESS (Engineering) , *DEFORMATIONS (Mechanics) , *FINITE element method - Abstract
Optimization of forming process of fabric reinforced composites requires a multifaceted characterization of the reinforcement material and its implementation in customized simulations. This manuscript investigates the effect of inclusion of ‘shear-tension coupling’ (interaction) in woven fabric models on the ensuing predictions of forming simulations. To this end, a constitutive model estimating the shear stiffness as a function of axial tension along warp and weft in a typical glass plain weave has been selected. The model was implemented into the Abaqus numerical package using a customized fabric element, capable of simulating the non-orthogonal behaviour of the fabric as well as its tension-shear interaction. Subsequently, the model was employed for studying forming processes with three different punch geometries including hemisphere, double-dome, and tetrahedral shapes. In each case, comparisons were made between the model with the effect of shear-tension interaction and the conventional model assuming the shear stiffness is merely a function of shear angle (i.e., with no interaction). Results revealed that although the conventional models could be acceptable in predicting the general shear deformation pattern of the fabric (in particular in the presence of sufficient blank holder forces), the forming models that included the shear-tension interaction had lower formation of local wrinkles as well as notably higher residual stresses in all simulation cases, especially in critical sharp corners of the part and the fabric free regions. [ABSTRACT FROM AUTHOR]
- Published
- 2016
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11. Toward better understanding of the effect of fiber distribution on effective elastic properties of unidirectional composite yarns.
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Shah Mohammadi, M., Komeili, M., Phillion, A.B., and Milani, A.S.
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ELASTICITY , *TEXTILE fibers , *FINITE element method , *COMPOSITE materials , *YARN - Abstract
A combined X-ray micro-computed tomography (XMT) and micro-Finite Element Analysis study is presented to quantify the effects of micro-scale random fiber distributions on the effective (homogenized) elastic properties of unidirectional (UD) yarns, as often used by designers for component-level computational modeling of composite structures. In addition, it is shown how the XMT artefacts can yield unreliable FE homogenization of the composite yarns by overestimating the stress transfer capacity between the material constituents. Finally, the micro-FEA modeling results under fiber distribution randomness are compared to the macro-level predictions such as the classical rule of mixture and Halpin–Tsai equations. [ABSTRACT FROM AUTHOR]
- Published
- 2016
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12. An analytical approach to the deflection analysis of woven preforms and composites under tensile loading using the Winkler theory of curved beams.
- Author
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Derakhshan, D., Komeili, M., and Milani, A.S.
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DEFLECTION (Mechanics) , *TENSILE strength , *CURVED beams , *BOUNDARY value problems , *POLYPROPYLENE , *SHEAR (Mechanics) - Abstract
In this article, a new analytical approach for the deflection analysis of yarns in woven materials under tensile loading is presented. A unit cell of a warp yarn surrounded by adjacent weft yarns is modeled using curved beams. Next, using the Winkler theory of curved beams, the warp yarn strain energy under tensile loading is derived; followed by the implementation of the variational method to obtain the governing equations as well as related boundary conditions. The exact displacement field solution was found and using the continuity of deflection condition at crossover points, the normal inter-yarn contact force was estimated. In the proposed analytical approach, shear forces and potential slippage of yarns at contact points are neglected. The validation of the solution was checked by comparing results of a benchmark example on steel textile preforms to two sets of finite element simulations. For further evaluation of the approach, the uniaxial extension response of a polypropylene/glass woven fabric composite with a noncircular yarn cross section is also considered under large deformation and predictions are compared to earlier data in the literature. [ABSTRACT FROM AUTHOR]
- Published
- 2015
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13. A non-parametric pixel-based background modeling for dynamic scenes.
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Armanfard, N., Komeili, M., Valizade, M., Kabir, E., and Jalili, S.
- Published
- 2009
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14. Degraded document image binarization based on combination of two complementary algorithms.
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Valizadeh, M., Komeili, M., Armanfard, N., and Kabir, E.
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- 2009
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15. Robust proposal distribution for adaptive visual tracking in a particle filtering frame work.
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Komeili, M., Armanfard, N., Valizadeh, M., and Kabir, E.
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- 2009
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16. An optimal fuzzy system for feature reliability measuring in particle filter-based object tracking.
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Komeili, M., Valizadeh, M., Armanfard, N., and Kabir, E.
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- 2009
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17. Feature integration for adaptive visual tracking in a particle filtering framework.
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Komeili, M., Armanfard, N., Valizadeh, M., and Kabir, E.
- Published
- 2009
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18. A contrast independent algorithm for adaptive binarization of degraded document images.
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Valizadeh, M., Komeili, M., Armanfard, N., and Kabir, E.
- Published
- 2009
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19. A novel hybrid algorithm for binarization of badly illuminated document images.
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Valizadeh, M., Armanfard, N., Komeili, M., and Kabir, E.
- Published
- 2009
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20. Document image binarization by using texture-edge descriptor.
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Armanfard, N., Valizadeh, M., Komeili, M., and Kabir, E.
- Published
- 2009
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21. Effective hierarchical background modeling and foreground detection in surveillance systems.
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Armanfard, N., Komeili, M., Valizadeh, M., and Kabir, E.
- Published
- 2009
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22. TED: A Texture-Edge Descriptor based on LBP for pedestrian detection.
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Armanfard, N., Komeili, M., and Kabir, E.
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- 2008
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23. A fuzzy approach for multi-feature pedestrian tracking with particle filter.
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Komeili, M., Armanfard, N., and Kabir, E.
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- 2008
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24. An elaboration on the shear characterization of dry woven fabrics using trellising tests.
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Komeili, M. and Milani, A.S.
- Abstract
Material characterization of woven fabric composites in dry form is one of the most crucial steps prior to the design and optimization of composite manufacturing processes. High stiffness of yarns under axial tension and low stiffness under in-plane shear makes the latter the dominant deformation mode during draping of woven fabrics. Bias-extension (BE) and shear frame (SF) tests are two widely used experimental setups for the characterization of woven fabrics under the shear (also called trellising) mode. This article outlines two general approaches for the characterization and normalization of data collected from the above standard tests. The first approach is based on the total energy absorbed by the fabric specimen along with the total work induced by the external force on the moving head of the tensile test machine. The second approach uses a variational formulation along with the principle of virtual work. Using both approaches, it is shown how, in the BE test, an auxiliary specimen with a different aspect ratio can be used to cope with the problem of nonuniform deformation (formation of three different shear regions) in the specimens. To illustrate the application of both methods, they are applied to predict in-plane shear stiffness of a glass/PP plain weave under SF and BE tests. It is suggested that the shear stress can be used as a normalized parameter to compare data from different trellising tests. POLYM. COMPOS., 2013. © 2013 Society of Plastics Engineers [ABSTRACT FROM AUTHOR]
- Published
- 2013
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25. The effect of meso-level uncertainties on the mechanical response of woven fabric composites under axial loading
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Komeili, M. and Milani, A.S.
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MECHANICAL behavior of materials , *FIBROUS composites , *AXIAL loads , *NUMERICAL analysis , *GLASS fibers , *FACTORIAL experiment designs - Abstract
Abstract: First, a finite element unit cell model of a glass fibre plain weave has been developed via an implicit subroutine. Because of the complex behaviour of fibrous yarns, a user-defined constitutive model needed to be defined. Material properties of yarns in the dry fabric are extracted by fitting the numerical model to experimental data under the uni-axial and bi-axial extension modes. Subsequently, two sets of geometrical and material-related meso-level uncertainty factors are studied using two-level factorial designs. Through the obtained half-normal probability plots, as well as the main and interaction factor effects, the most significant parameters are identified and discussed. [Copyright &y& Elsevier]
- Published
- 2012
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26. Dynamic response of a thick functionally graded material tube under a moving load.
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Hasheminejad, S. M. and Komeili, M
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LIVE loads ,AXIAL flow ,FOURIER transforms ,TRANSFER matrix ,MATRICES (Mathematics) ,T-matrix ,ZIRCONIUM oxide ,FUNCTIONALLY gradient materials ,FOURIER analysis - Abstract
An analysis for axisymmetric steady-state response of an arbitrarily thick, isotropic, and functionally graded circular cylindrical shell of infinite length subjected to an axially moving normal ring load is presented. The mechanical properties of the graded shell are assumed to vary smoothly and continuously with the change of volume concentrations of the constituting materials across the thickness of the shell according to a power law distribution. The problem solution is derived by using Fourier transformation with respect to a moving reference frame in conjunction with the T-matrix solution technique that involves a system global transfer matrix, formed by applying continuity of the displacement and stress components at the interfaces of neighbouring layers. The analytical results are illustrated with numerical examples in which a metal-ceramic functionally graded material (FGM) pipe, composed of aluminium and zirconia, is subjected to a normal ring load travelling along the tube at constant speed. Four types of pipes are configured, i.e. a ceramic-rich composition with the ceramic at the inner (or outer) interface, and also a metal-rich composition with the metal at the inner (or outer) interface of the pipe. The presented model is used to determine the critical velocity of the moving load as a function of shell thickness for the selected material compositional gradient profiles. The effects of load velocity and shell thickness on the basic dynamic field quantities such as the mid-plane radial displacement and hoop stress amplitude along the pipe axis are also evaluated and discussed. Moreover, the response curves for the FGM shells are compared with those of equivalent bi-laminate shells containing comparable total volume fractions of constituent materials. Limiting cases are considered and good agreements with the solutions available in the literature are obtained. [ABSTRACT FROM AUTHOR]
- Published
- 2007
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27. The effect of manufacturing parameters on the surface roughness of glass fibre reinforced polymer moulds.
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Shah Mohammadi, M., Ghani, M., Komeili, M., Crawford, B., and Milani, A.S.
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FIBER-reinforced plastics , *SURFACE roughness , *MANUFACTURING processes , *ENVIRONMENTAL degradation , *SURFACE preparation - Abstract
The use of Glass Fibre Reinforced Polymer (GFRP) composite moulds has gained considerable attention in composites manufacturing, especially in open-mould processes; owing to several benefits including ease of processing, maintenance as well as low capital cost of tooling. Nevertheless, the surface of GFRP moulds is susceptible to degradation during the composite manufacturing processes which, if not properly maintained, can significantly increase the cost of repairs; and in severe cases, disposal of the mould may be required. In addition, poor surface quality of a mould can directly result in reduced surface finish of the manufactured part. This study, using a systemic design of experiments approach, investigates the effect of select manufacturing process parameters (de-moulding temperature, amount of release agent and environmental storage condition) on the ensuing surface roughness of typical GFRP moulds as used by industry. For this purpose, an open-mould process was simulated whereby a mould/part assembly consisting of top and bottom chopped fiber laminates with gel coat layers, and the release agent between them, was fabricated and subsequently the cured mould/part assembly was de-moulded under both tensile and shear modes. Specimens were tested at different factor combinations and the statistically significant parameters were identified, via analyzing the force values as well as surface roughness measurements on the moulds using White Light Interferometry. Finally, some practical guidelines were sought on the basis of observed individual and interactive effects of parameters. [ABSTRACT FROM AUTHOR]
- Published
- 2017
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28. Pseudo-class part prototype networks for interpretable breast cancer classification.
- Author
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Choukali MA, Amirani MC, Valizadeh M, Abbasi A, and Komeili M
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- Female, Humans, Cluster Analysis, Data Curation, Datasets as Topic, Sensitivity and Specificity, Reproducibility of Results, Breast Neoplasms classification, Breast Neoplasms diagnosis, Breast Neoplasms pathology, Deep Learning standards, Neural Networks, Computer, Pathology, Clinical methods, Pathology, Clinical standards
- Abstract
Interpretability in machine learning has become increasingly important as machine learning is being used in more and more applications, including those with high-stakes consequences such as healthcare where Interpretability has been regarded as a key to the successful adoption of machine learning models. However, using confounding/irrelevant information in making predictions by deep learning models, even the interpretable ones, poses critical challenges to their clinical acceptance. That has recently drawn researchers' attention to issues beyond the mere interpretation of deep learning models. In this paper, we first investigate application of an inherently interpretable prototype-based architecture, known as ProtoPNet, for breast cancer classification in digital pathology and highlight its shortcomings in this application. Then, we propose a new method that uses more medically relevant information and makes more accurate and interpretable predictions. Our method leverages the clustering concept and implicitly increases the number of classes in the training dataset. The proposed method learns more relevant prototypes without any pixel-level annotated data. To have a more holistic assessment, in addition to classification accuracy, we define a new metric for assessing the degree of interpretability based on the comments of a group of skilled pathologists. Experimental results on the BreakHis dataset show that the proposed method effectively improves the classification accuracy and interpretability by respectively 8 % and 18 % . Therefore, the proposed method can be seen as a step toward implementing interpretable deep learning models for the detection of breast cancer using histopathology images., (© 2024. The Author(s).)
- Published
- 2024
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29. On the interpretability of part-prototype based classifiers: a human centric analysis.
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Davoodi O, Mohammadizadehsamakosh S, and Komeili M
- Subjects
- Humans, Reproducibility of Results, Research Design
- Abstract
Part-prototype networks have recently become methods of interest as an interpretable alternative to many of the current black-box image classifiers. However, the interpretability of these methods from the perspective of human users has not been sufficiently explored. In addition, previous works have had major issues with following proper experiment design and task representation that limit their reliability and validity. In this work, we have devised a framework for evaluating the interpretability of part-prototype-based models from a human perspective that solves these issues. The proposed framework consists of three actionable metrics and experiments. The results of these experiments will reveal important and reliable interpretability related properties of such models. To demonstrate the usefulness of our framework, we performed an extensive set of experiments using Amazon Mechanical Turk. They not only show the capability of our framework in assessing the interpretability of various part-prototype-based models, but they also are, to the best of our knowledge, the most comprehensive work on evaluating such methods in a unified framework., (© 2023. The Author(s).)
- Published
- 2023
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30. Predictive modelling of Parkinson's disease progression based on RNA-Sequence with densely connected deep recurrent neural networks.
- Author
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Ahmed S, Komeili M, and Park J
- Subjects
- Humans, Child, Preschool, Disease Progression, Neural Networks, Computer, RNA, Parkinson Disease genetics
- Abstract
The advent of recent high throughput sequencing technologies resulted in unexplored big data of genomics and transcriptomics that might help to answer various research questions in Parkinson's disease (PD) progression. While the literature has revealed various predictive models that use longitudinal clinical data for disease progression, there is no predictive model based on RNA-Sequence data of PD patients. This study investigates how to predict the PD Progression for a patient's next medical visit by capturing longitudinal temporal patterns in the RNA-Seq data. Data provided by Parkinson Progression Marker Initiative (PPMI) includes 423 PD patients without revealing any race, sex, or age information with a variable number of visits and 34,682 predictor variables for 4 years. We propose a predictive model based on deep Recurrent Neural Network (RNN) with the addition of dense connections and batch normalization into RNN layers. The results show that the proposed architecture can predict PD progression from high dimensional RNA-seq data with a Root Mean Square Error (RMSE) of 6.0 and a rank-order correlation of (r = 0.83, p < 0.0001) between the predicted and actual disease status of PD., (© 2022. The Author(s).)
- Published
- 2022
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31. Human-level play in the game of Diplomacy by combining language models with strategic reasoning.
- Author
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Bakhtin A, Brown N, Dinan E, Farina G, Flaherty C, Fried D, Goff A, Gray J, Hu H, Jacob AP, Komeili M, Konath K, Kwon M, Lerer A, Lewis M, Miller AH, Mitts S, Renduchintala A, Roller S, Rowe D, Shi W, Spisak J, Wei A, Wu D, Zhang H, and Zijlstra M
- Subjects
- Humans, Diplomacy, Software, Video Games, Artificial Intelligence, Language
- Abstract
Despite much progress in training artificial intelligence (AI) systems to imitate human language, building agents that use language to communicate intentionally with humans in interactive environments remains a major challenge. We introduce Cicero, the first AI agent to achieve human-level performance in Diplomacy , a strategy game involving both cooperation and competition that emphasizes natural language negotiation and tactical coordination between seven players. Cicero integrates a language model with planning and reinforcement learning algorithms by inferring players' beliefs and intentions from its conversations and generating dialogue in pursuit of its plans. Across 40 games of an anonymous online Diplomacy league, Cicero achieved more than double the average score of the human players and ranked in the top 10% of participants who played more than one game.
- Published
- 2022
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32. Multiview Feature Selection for Single-View Classification.
- Author
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Komeili M, Armanfard N, and Hatzinakos D
- Abstract
In many real-world scenarios, data from multiple modalities (sources) are collected during a development phase. Such data are referred to as multiview data. While additional information from multiple views often improves the performance, collecting data from such additional views during the testing phase may not be desired due to the high costs associated with measuring such views or, unavailability of such additional views. Therefore, in many applications, despite having a multiview training data set, it is desired to do performance testing using data from only one view. In this paper, we present a multiview feature selection method that leverages the knowledge of all views and use it to guide the feature selection process in an individual view. We realize this via a multiview feature weighting scheme such that the local margins of samples in each view are maximized and similarities of samples to some reference points in different views are preserved. Also, the proposed formulation can be used for cross-view matching when the view-specific feature weights are pre-computed on an auxiliary data set. Promising results have been achieved on nine real-world data sets as well as three biometric recognition applications. On average, the proposed feature selection method has improved the classification error rate by 31 percent of the error rate of the state-of-the-art.
- Published
- 2021
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33. Effect of Lenalidomide on Pentylenetetrazole-Induced Clonic Seizure Threshold in Mice: A Role for N-Methyl-D-Aspartic Acid Receptor/Nitric Oxide Pathway.
- Author
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Dafe EA, Rahimi N, Javadian N, Dejban P, Komeili M, Modabberi S, Ghasemi M, and Dehpour AR
- Abstract
Background and Purpose: Accumulating evidence suggest that lenalidomide, a structural analog of thalidomide, has neuro-modulatory and neuroprotective properties. In the present study, we investigated effects of acute administration of lenalidomide on clonic seizure threshold in mice induced by pentylenetetrazole (PTZ) and possible role of N-methyl-D-aspartic acid receptor (NMDAR) and nitric oxide (NO) pathway., Methods: We have utilized a clonic model of seizure in NMRI mice induced by PTZ to evaluate the potential effect of lenalidomide on seizure threshold. Different doses of lenalidomide (5, 10, 20, and 50 mg/kg, intraperitoneal [i.p.]) were administered 1 hour before PTZ. To evaluate probable role of NMDAR/NO signaling, the non-selective NO synthase inhibitor L- N
G -nitroarginine methyl ester (L-NAME; 10 mg/kg, i.p.), neuronal NOS (nNOS) inhibitor 7-nitroindazole (7-NI; 30 mg/kg, i.p.), selective inducible NOS inhibitor aminoguanidine (AG; 100 mg/kg, i.p.), selective NMDAR antagonist MK-801 (0.01 mg/kg, i.p.), and selective NMDAR agonist D-serine (30 mg/kg, i.p.) were injected 15 minutes before lenalidomide., Results: Lenalidomide at 10 and 20 mg/kg significantly elevated the PTZ-induced seizure thresholds. Interestingly, L-NAME (10 mg/kg, i.p), 7-NI (30 mg/kg, i.p), and AG (100 mg/kg, i.p) reversed the anticonvulsive effect of lenalidomide (10 mg/kg). Moreover, treatment with the NMDAR agonist D-serine (30 mg/kg, i.p.) did not alter the anticonvulsive properties of lenalidomide (10 mg/kg, i.p). However, the NMDAR antagonist MK-801 (0.01 mg/kg, i.p) significantly reversed the anticonvulsive effects of lenalidomide (10 mg/kg)., Conclusions: Our study demonstrated a role for the NMDAR/NO pathway in the anticonvulsive effects of lenalidomide on the PTZ-induced clonic seizures in mice., Competing Interests: Conflict of Interest The authors declare that they have no conflicts of interest., (Copyright © 2021 Korean Epilepsy Society.)- Published
- 2021
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34. A spatial vascular transcriptomic, proteomic, and phosphoproteomic atlas unveils an angiocrine Tie-Wnt signaling axis in the liver.
- Author
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Inverso D, Shi J, Lee KH, Jakab M, Ben-Moshe S, Kulkarni SR, Schneider M, Wang G, Komeili M, Vélez PA, Riedel M, Spegg C, Ruppert T, Schaeffer-Reiss C, Helm D, Singh I, Boutros M, Chintharlapalli S, Heikenwalder M, Itzkovitz S, and Augustin HG
- Subjects
- Endothelial Cells metabolism, Endothelium growth & development, Flow Cytometry, Gene Expression Regulation, Developmental genetics, Hepatocytes metabolism, Humans, Liver metabolism, Liver pathology, Phosphorylation genetics, Proteomics methods, RNA-Seq, Regeneration genetics, Single-Cell Analysis, Wnt Signaling Pathway genetics, Liver growth & development, Liver Regeneration genetics, Phosphoproteins genetics, Transcriptome genetics
- Abstract
Single-cell transcriptomics (scRNA-seq) has revolutionized the understanding of the spatial architecture of tissue structure and function. Advancing the "transcript-centric" view of scRNA-seq analyses is presently restricted by the limited resolution of proteomics and genome-wide techniques to analyze post-translational modifications. Here, by combining spatial cell sorting with transcriptomics and quantitative proteomics/phosphoproteomics, we established the spatially resolved proteome landscape of the liver endothelium, yielding deep mechanistic insight into zonated vascular signaling mechanisms. Phosphorylation of receptor tyrosine kinases was detected preferentially in the central vein area, resulting in an atypical enrichment of tyrosine phosphorylation. Prototypic biological validation identified Tie receptor signaling as a selective and specific regulator of vascular Wnt activity orchestrating angiocrine signaling, thereby controlling hepatocyte function during liver regeneration. Taken together, the study has yielded fundamental insight into the spatial organization of liver endothelial cell signaling. Spatial sorting may be employed as a universally adaptable strategy for multiomic analyses of scRNA-seq-defined cellular (sub)-populations., Competing Interests: Declaration of interests The authors declare no competing interests., (Copyright © 2021 The Authors. Published by Elsevier Inc. All rights reserved.)
- Published
- 2021
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35. Combination therapy of phosphatidylserine liposome with cyclosporine A improves nephrotoxicity and attenuates delayed-type hypersensitivity response.
- Author
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Komeili M, Noorbakhsh F, Esmaili J, Muhammadnejad A, Hassanzadeh G, Dehpour AR, Goudarzi R, and Partoazar A
- Subjects
- Acute Kidney Injury pathology, Acute Kidney Injury prevention & control, Administration, Oral, Animals, Antioxidants, Cyclosporine administration & dosage, Cyclosporine therapeutic use, Cytokines metabolism, Drug Therapy, Combination, Kidney drug effects, Kidney pathology, Liposomes, Male, Oxidative Stress drug effects, Phosphatidylserines administration & dosage, Rats, Rats, Wistar, Spleen drug effects, Spleen metabolism, Acute Kidney Injury chemically induced, Cyclosporine toxicity, Hypersensitivity, Delayed drug therapy, Phosphatidylserines therapeutic use
- Abstract
This study aimed to evaluate the antioxidant capacity of phosphatidylserine liposome (PS) against oxidative stress due to cyclosporine A (CsA) and concurrent administration of PS and CsA on the attenuation of immune response. The effect of oral PS was evaluated on biochemical and oxidative renal markers and histopathology of nephrotic rats receiving CsA. The effect of co-administration of PS with CsA was also assessed on DTH (delayed-type hypersensitivity) reaction of immunized rats. The cytokines production level of IL-2 (Interleukin-2) and IFN-γ (Interferon gamma) was measured in immunized rat's splenocytes. PS treatment significantly (P < 0.05) reduced Cr and BUN of serum and MDA (malondialdehyde) in kidney tissue, and increased SOD (superoxide dismutase) and CAT (Catalase) of kidney tissue in CsA-nephrotic rats. Histopathology data indicated significantly (P < 0.05) nephrotoxicity improvement after 25-day treatment with PS. Furthermore, CsA plus PS administration significantly reduced DTH response and cytokines production of IL-2 and IFN-γ in immunized rats. In conclusion, coadministration of CsA plus PS may overcome oxidative stress and improve the performance of organ transplantation or autoimmune therapy., (Copyright © 2020 Elsevier Inc. All rights reserved.)
- Published
- 2021
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36. Multistep analysis reveals the relationship between blood indices at the time of ovum pick-up and in vitro embryo production in heifers.
- Author
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Kowsar R, Komeili M, Sadeghi N, and Sadeghi K
- Subjects
- Animals, Blastocyst, Blood Cell Count veterinary, Cattle, Female, Hematocrit veterinary, Fertilization in Vitro veterinary, Oocytes
- Abstract
The inflammatory factors of complete blood count (CBC) are associated with a decrease in the in vitro embryo production (IVP) outcome in women. The relation between the blood indices and in vitro fertilization (IVF) outcomes in bovines remains to be elucidated. Using ovum pick-up (OPU), oocytes were retrieved from heifers (n = 60) and inseminated separately with sperm. The blastocyst formation was recorded on day 7 after insemination for each animal and the blood indices were evaluated at the time of OPU. Then, heifers were classified on the basis of (1) blastocyst formation, cleaved vs. failed, or (2) inflammation, low-grade inflammation (lymphocyte counts > 5.6 × 10
9 /L) vs. no inflammation (lymphocyte counts < 5.6 × 109 /L). Oocytes derived from heifers with higher lymphocytes, red blood cells (RBC), platelets, hematocrit, red cell distribution width (RDW-SD) and plateletcrit values and lower monocytes, eosinophils, mean corpuscular hemoglobin (MCH) and MCH concentration (MCHC) successfully developed to the blastocyst stage. Heifers with low-grade inflammation numerically had a higher percentage of blastocyst formation than normal heifers. The principle component analysis (PCA) showed that blastocyst formation had the strongest positive association with RDW-cv and RDW-SD, while having a strong negative association with mean corpuscular volume (MCV), hemoglobin, MCHC and MCH. The PCA determined that the number of grade A COCs and the percentage of COCs reached the cleavage stage had a negative association with white blood cells (WBC), lymphocytes, basophils and monocytes, and a positive correlation with platelet to lymphocyte ratio, platelet distribution width (PDW) and plateletcrit. Network mapping detected close similarities between BFR and RDW-SD, MPV, and lymphocytes. The area under the receiver operating characteristic curve (AUC) identified that, eosinophils (AUC 0.80), RDW-SD (AUC 0.76), monocytes (AUC 0.76) and lymphocytes (AUC 0.76) had a good predictive ability to detect heifers with high OPU-IVP outcome (≥60%). In conclusion, these findings suggest that CBC indices at the time of OPU were associated with the IVF outcome and may be incorporated into protocols for the identification of heifers with high potential for blastocyst formation., Competing Interests: Declaration of competing interest The authors report no conflicts of interest., (Copyright © 2020 Elsevier Inc. All rights reserved.)- Published
- 2021
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37. A Machine Learning Framework for Automatic and Continuous MMN Detection With Preliminary Results for Coma Outcome Prediction.
- Author
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Armanfard N, Komeili M, Reilly JP, and Connolly JF
- Subjects
- Adult, Humans, Male, Prognosis, Young Adult, Coma diagnosis, Coma physiopathology, Electroencephalography methods, Evoked Potentials, Auditory physiology, Machine Learning, Signal Processing, Computer-Assisted
- Abstract
Mismatch negativity (MMN) is a component of the event-related potential (ERP) that is elicited through an odd-ball paradigm. The existence of the MMN in a coma patient has a good correlation with coma emergence; however, this component can be difficult to detect. Previously, MMN detection was based on visual inspection of the averaged ERPs by a skilled clinician, a process that is expensive and not always feasible in practice. In this paper, we propose a practical machine learning (ML) based approach for detection of MMN component, thus, improving the accuracy of prediction of emergence from coma. Furthermore, the method can operate on an automatic and continuous basis thus alleviating the need for clinician involvement. The proposed method is capable of the MMN detection over intervals as short as two minutes. This finer time resolution enables identification of waxing and waning cycles of a conscious state. An auditory odd-ball paradigm was applied to 22 healthy subjects and 2 coma patients. A coma patient is tested by measuring the similarity of the patient's ERP responses with the aggregate healthy responses. Because the training process for measuring similarity requires only healthy subjects, the complexity and practicality of training procedure of the proposed method are greatly improved relative to training on coma patients directly. Since there are only two coma patients involved with this study, the results are reported on a very preliminary basis. Preliminary results indicate we can detect the MMN component with an accuracy of 92.7% on healthy subjects. The method successfully predicted emergence in both coma patients when conventional methods failed. The proposed method for collecting training data using exclusively healthy subjects is a novel approach that may prove useful in future, unrelated studies where ML methods are used.
- Published
- 2019
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38. Talk2Me: Automated linguistic data collection for personal assessment.
- Author
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Komeili M, Pou-Prom C, Liaqat D, Fraser KC, Yancheva M, and Rudzicz F
- Subjects
- Adult, Aged, Aged, 80 and over, Female, Humans, Language, Linguistics instrumentation, Male, Middle Aged, Patient Portals, Semantics, Software, Young Adult, Data Collection methods, Linguistics methods
- Abstract
Language is one the earliest capacities affected by cognitive change. To monitor that change longitudinally, we have developed a web portal for remote linguistic data acquisition, called Talk2Me, consisting of a variety of tasks. In order to facilitate research in different aspects of language, we provide baselines including the relations between different scoring functions within and across tasks. These data can be used to augment studies that require a normative model; for example, we provide baseline classification results in identifying dementia. These data are released publicly along with a comprehensive open-source package for extracting approximately two thousand lexico-syntactic, acoustic, and semantic features. This package can be applied arbitrarily to studies that include linguistic data. To our knowledge, this is the most comprehensive publicly available software for extracting linguistic features. The software includes scoring functions for different tasks., Competing Interests: The authors of this manuscript have read the journal’s policy and have the following competing interests: KCF, MY, and FR are co-founders of a company, WinterLight Labs Incorporated, that commercializes the automated analysis of spontaneous speech and other language tasks. WinterLight Labs provided no influence or financial support, nor has WinterLight Labs received any benefit from this work beyond what is being made public. MY, who was a student at the inception of the study at the University of Toronto, was an employee of WinterLight Labs during the final editing of the document. There are no patents, products in development or marketed products associated with this research to declare. This does not alter our adherence to PLOS ONE policies on sharing data and materials.
- Published
- 2019
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39. 40-Hz ASSR for Measuring Depth of Anaesthesia During Induction Phase.
- Author
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Haghighi SJ, Komeili M, Hatzinakos D, and Beheiry HE
- Subjects
- Algorithms, Anesthetics administration & dosage, Anesthetics pharmacology, Blood Pressure drug effects, Blood Pressure physiology, Cluster Analysis, Heart Rate drug effects, Heart Rate physiology, Humans, Propofol administration & dosage, Propofol pharmacology, Anesthesia, General methods, Consciousness drug effects, Consciousness physiology, Electroencephalography methods, Evoked Potentials, Auditory drug effects, Evoked Potentials, Auditory physiology, Monitoring, Intraoperative methods, Signal Processing, Computer-Assisted
- Abstract
This paper proposes an anaesthesia monitoring system that accurately measures the depth of anaesthesia through 40-Hz auditory steady-state response. With accurate and fast depth of anaesthesia measuring, the monitor can reduce the incidence of awareness during surgical operation. The proposed denoising method for extracting 40-Hz auditory steady-state cycles, adaptive multilevel wavelet denoising, enabled the system to extract auditory steady-state response cycles from fewer epochs and over short periods of time which is of crucial importance in monitoring anaesthesia. The noise estimation scheme, adaptive threshold levels, rearranging, and multilevel denoising of frames increase the accuracy and signal to noise ratio of the extracted cycles. The modified fuzzy c-means clustering scheme, proposed to improve clustering performance in noisy data bases where no prior information about the level of noise and signal energy is available, is used for clustering the auditory steady-state cycles. Weighting the features with a novel algorithm and based on their differentiating role in clustering, the modified fuzzy c-means improves fuzziness in cluster partitions and the geometrical structure of the data. An index called depth of anaesthesia index is defined and determined at each cycle based on the clustering information of the cycle and the previous ones. The algorithm is applied to auditory steady-state response signals recorded from 20 human subjects during surgical operations with Propofol-induced general anaesthesia. The accuracy of the depth of anaesthesia index is validated through the subjects' medical markers, clinical parameters, and the recorded bispectral index during the induction phase. Depth of anaesthesia index is verified to be accurate and able to detect fast transitions between different levels of anaesthesia. The computed depth of anaesthesia indices detected the induction of anaesthesia on average 55 s faster than bispectral index and 17 s earlier than loss of eyelash reflex.
- Published
- 2018
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40. Development of a Smart Home-Based Package for Unobtrusive Physiological Monitoring.
- Author
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Armanfard N, Komeili M, and Mihailidis A
- Subjects
- Ballistocardiography, Electrocardiography, Heart Rate, Humans, Quality of Life, Monitoring, Physiologic
- Abstract
Home-based programs have been shown to be effective in improving health conditions, patient self-management, quality of life, and health outcomes. However, there is mixedevidence on the effectiveness of these programs due to limitations in the intervention tools that are used, primarily the burden that is placed on the user, especially among seniors. In this paper we developed a novel home-based package that measures critically important physiological information such that neither active compliance or interaction from the user is required. To this end, we embedded passive sensors (including load cells, electrodes, pulse sensor and color sensors) into common household items such as tiling, furniture and wall. The smart package measures subject's electrocardiogram (ECG), photoplethysmogram (PPG), ballistocardiogram (BCG), electromyogram (EMG) and imaging photoplethysmogram (IPPG). In contrast to the previous studies, the proposed package measures all the physiological information unobtrusively, simultaneously and in a synchronized manner such that all the data samples corresponding to different intervals of a specific cardiovascular cycle can be identified. Such information can be analyzed by a clinician or be used for a higher level information extraction such as beat-to-beat blood pressure estimation. In addition, the proposed package is the first and only homebased technology that can simultaneously and unobtrusively capture both mechanical and electrical characteristics of user's heart activities. This results in a more accurate home-based vital parameters monitoring.
- Published
- 2018
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- View/download PDF
41. Feature Selection for Nonstationary Data: Application to Human Recognition Using Medical Biometrics.
- Author
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Komeili M, Louis W, Armanfard N, and Hatzinakos D
- Subjects
- Algorithms, Databases, Factual, Humans, Biometric Identification methods, Electrocardiography methods, Signal Processing, Computer-Assisted
- Abstract
Electrocardiogram (ECG) and transient evoked otoacoustic emission (TEOAE) are among the physiological signals that have attracted significant interest in biometric community due to their inherent robustness to replay and falsification attacks. However, they are time-dependent signals and this makes them hard to deal with in across-session human recognition scenario where only one session is available for enrollment. This paper presents a novel feature selection method to address this issue. It is based on an auxiliary dataset with multiple sessions where it selects a subset of features that are more persistent across different sessions. It uses local information in terms of sample margins while enforcing an across-session measure. This makes it a perfect fit for aforementioned biometric recognition problem. Comprehensive experiments on ECG and TEOAE variability due to time lapse and body posture are done. Performance of the proposed method is compared against seven state-of-the-art feature selection algorithms as well as another six approaches in the area of ECG and TEOAE biometric recognition. Experimental results demonstrate that the proposed method performs noticeably better than other algorithms.
- Published
- 2018
- Full Text
- View/download PDF
42. Logistic Localized Modeling of the Sample Space for Feature Selection and Classification.
- Author
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Armanfard N, Reilly JP, and Komeili M
- Abstract
Conventional feature selection algorithms assign a single common feature set to all regions of the sample space. In contrast, this paper proposes a novel algorithm for localized feature selection for which each region of the sample space is characterized by its individual distinct feature subset that may vary in size and membership. This approach can therefore select an optimal feature subset that adapts to local variations of the sample space, and hence offer the potential for improved performance. Feature subsets are computed by choosing an optimal coordinate space so that, within a localized region, within-class distances and between-class distances are, respectively, minimized and maximized. Distances are measured using a logistic function metric within the corresponding region. This enables the optimization process to focus on a localized region within the sample space. A local classification approach is utilized for measuring the similarity of a new input data point to each class. The proposed logistic localized feature selection (lLFS) algorithm is invariant to the underlying probability distribution of the data; hence, it is appropriate when the data are distributed on a nonlinear or disjoint manifold. lLFS is efficiently formulated as a joint convex/increasing quasi-convex optimization problem with a unique global optimum point. The method is most applicable when the number of available training samples is small. The performance of the proposed localized method is successfully demonstrated on a large variety of data sets. We demonstrate that the number of features selected by the lLFS method saturates at the number of available discriminative features. In addition, we have shown that the Vapnik-Chervonenkis dimension of the localized classifier is finite. Both these factors suggest that the lLFS method is insensitive to the overfitting issue, relative to other methods.
- Published
- 2018
- Full Text
- View/download PDF
43. Automatic and continuous assessment of ERPs for mismatch negativity detection.
- Author
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Armanfard N, Komeili M, Reilly JP, Mah R, and Connolly JF
- Subjects
- Acoustic Stimulation, Electroencephalography, Evoked Potentials, Auditory, Healthy Volunteers, Humans, Machine Learning, Evoked Potentials physiology
- Abstract
Accurate and fast detection of event related potential (ERP) components is an unresolved issue in neuroscience and critical health care. Mismatch negativity (MMN) is a component of the ERP to an odd stimulus in a sequence of identical stimuli which has good correlation with coma awakening. All of the previous studies for MMN detection are based on visual inspection of the averaged ERPs (over a long recording time) by a skilled neurophysiologist. However, in practical situations, such an expert may not be available or familiar with all aspects of evoked potential methods. Further, we may miss important clinically essential events due to the implicit averaging process used to acquire the ERPs. In this paper we propose a practical machine learning approach for automatic and continuous assessment of the ERPs for detecting the presence of the MMN component. The proposed method is realized in a classification framework. Performance of the proposed method is demonstrated on 22 healthy subjects through a leave-one subject-out strategy where the MMN components are identified with about 93% accuracy.
- Published
- 2016
- Full Text
- View/download PDF
44. Local Feature Selection for Data Classification.
- Author
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Armanfard N, Reilly JP, and Komeili M
- Abstract
Typical feature selection methods choose an optimal global feature subset that is applied over all regions of the sample space. In contrast, in this paper we propose a novel localized feature selection (LFS) approach whereby each region of the sample space is associated with its own distinct optimized feature set, which may vary both in membership and size across the sample space. This allows the feature set to optimally adapt to local variations in the sample space. An associated method for measuring the similarities of a query datum to each of the respective classes is also proposed. The proposed method makes no assumptions about the underlying structure of the samples; hence the method is insensitive to the distribution of the data over the sample space. The method is efficiently formulated as a linear programming optimization problem. Furthermore, we demonstrate the method is robust against the over-fitting problem. Experimental results on eleven synthetic and real-world data sets demonstrate the viability of the formulation and the effectiveness of the proposed algorithm. In addition we show several examples where localized feature selection produces better results than a global feature selection method.
- Published
- 2016
- Full Text
- View/download PDF
45. Sentence repetition as a measure of morphosyntax in monolingual and bilingual children.
- Author
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Komeili M and Marshall CR
- Subjects
- Child, Child, Preschool, Female, Humans, Language Tests standards, Linguistics, Male, Predictive Value of Tests, Reference Values, Reproducibility of Results, Child Language, Language Development, Language Development Disorders diagnosis, Multilingualism, Verbal Behavior
- Abstract
Bilingual children are frequently misdiagnosed as having Specific Language Impairment (SLI). Misdiagnosis may be minimized by tests with high degrees of sensitivity and specificity. The current study used a new test, the School-Age Sentence Imitation Test-English 32 (SASIT-E32), to investigate sentence repetition in monolingual and bilingual children, and specifically to compare overall repetition accuracy and error patterns in the two groups. Eighteen English-speaking monolingual children (mean age= 8;8) and 18 Farsi-English bilingual children (8;2) participated. Monolingual children repeated sentences more accurately than bilingual children, but, once receptive vocabulary scores were taken into account, this group difference disappeared. However, the groups demonstrated a different pattern of errors, with the bilingual group producing a higher proportion of substitution and addition errors on function words compared to content words. The main error expected from children with SLI according to the existing literature, i.e. the omission of function words, did not characterize the bilingual children's performance. We therefore propose that the SASIT-E32 might prove to be a valuable tool in identifying SLI in bilingual children.
- Published
- 2013
- Full Text
- View/download PDF
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