Sharif Digital Repository

Axon is an important part of the neuronal cells and axonal microtubules are bundles in axons. In axons, microtubules are coated with microtubule-associated protein tau, a natively unfolded filamentous protein in the central nervous system. These proteins are responsible for cross-linking axonal microtubule bundles. Through complimentary dimerization with other tau proteins, bridges are formed between nearby microtubules creating bundles. Formation of bundles of microtubules causes their transverse reinforcement and has been shown to enhance their ability to bear compressive loads. Though microtubules are conventionally regarded as bearing compressive loads, in certain circumstances during... 

Coiled carbon nanotubes (CCNTs) have increasingly become a vital factor in the new generation of nanodevices and energy-absorbing materials due to their outstanding properties. Here, the multiobjective optimization of CCNTs is applied to assess their mechanical properties. The best trade-off between conflicting mechanical properties (e.g., yield stress and yield strain) is demonstrated and the optimization of the geometry enables us to find the astonishing CCNTs with a stretchability of 400%. These structures have been recognized for the first time in the field. We derived several highly accurate analytical equations for the yield stress and yield strain by the implementation of... 

Solar energy is turning to one of the important types of clean energies, due to its availability, and its potential for wide range of applications. In this work, a new passive solar desalination system is introduced, which benefits from excellences of twin-glass evacuated tube collectors. For the first time, the evacuated tube collector is not only used as the solar thermal collector, but also as a basin to heat the water. Hence, the thermal resistance between the collector and basin is virtually eliminated. Results show a considerable increase in the rate of desalinated water production and the maximum production reaches up to 0.83 kg/(m2·h). It was observed that the maximum rate of the... 

In this paper an analytical approach to study the effect of the substrate physical properties on the kinetics of adhesion and motility behavior of cells is presented. Cell adhesion is mediated by the binding of cell wall receptors and substrate's complementary ligands, and tight adhesion is accomplished by the recruitment of the cell wall binders to the adhesion zone. The binders' movement is modeled as their axisymmetric diffusion in the fluid-like cell membrane. In order to preserve the thermodynamic consistency, the energy balance for the cell-substrate interaction is imposed on the diffusion equation. Solving the axisymmetric diffusion-energy balance coupled equations, it turns out that... 

Recent experiments have shown the applicability of single-layer graphene sheets (SLGSs) as electromechanical resonators. Existing theoretical models, based on linear continuum or atomistic methods, are limited to the study of linear vibrations of SLGSs. Here we introduce a hybrid atomistic-structural element which is capable of modelling nonlinear behaviour of graphene sheets. This hybrid element is based on an empirical inter-atomic potential function and can model the nonlinear dynamic response of SLGSs. Using this element, nonlinear vibrational analysis of SLGSs is performed. It is shown that the nonlinear vibrational analysis of SLGSs predicts significantly higher fundamental... 

Based on the determination of protons fluence at the phantom's surface, a 3D dose distribution is calculated inside a water phantom using a fast method. The dose contribution of secondary particles, originating from inelastic nuclear interactions, is also taken into account. This is achieved by assuming that 60% of the energy transferred to secondary particles is locally absorbed. Secondary radiation delivers approximately 16.8% of the total dose in the plateau region of the Bragg curve for monoenergetic protons of energy 190 MeV. The physical dose beyond the Bragg peak is obtained for a proton beam of 190 MeV using a Geant4 simulation. It is found that the dose beyond the Bragg peak is <... 

In this paper, a new technique based on nonlinear resonance of microbubbles is investigated in order to estimate the amplitude of an ultrasound wave pressure field. First, the existing theoretical model is reviewed. Then, an experimental setup consisting of a bubble generator and transmitting/receiving ultrasound transducers operating in the 1 MHz frequency range is described. The effect of background noise is also taken into account. Results show that the second harmonic oscillations are detectable, paving the way to develop a quantitative method for in vivo calibration of ultrasound waves  

Here, asymmetric phase-covariant quantum cloning machines are defined and trade-off between qualities of their outputs and its impact on entanglement properties of the outputs are studies. In addition, optimal families among these cloners are introduced and also their entanglement properties are investigated. An explicit proof of optimality is presented for the case of qubits, which is based on the no-signaling condition. Our optimality proof can also be used to derive an upper bound on trade-off relations for a more general class of optimal cloners which clone states on a specific orbit of the Bloch sphere. It is shown that the optimal cloners of the equatorial states, as in the case of... 

The remediation of nonaqueous phase liquids (NAPLs) enhanced by surfactant and nanoparticles (NP) has been investigated in numerous studies. However, the role of NP-assisted surfactants in the dissolution process is still not well discussed. Besides, there is a lack of empirical dissolution models considering the effects of initial residual saturation Strap, NAPL distribution, and surfactant concentration in NAPL-aqueous phase systems. In this work, micromodel experiments are conducted to quantify mass transfer coefficients for different injected aqueous phases including deionized water, SDS surfactant solutions, and NP-assisted solutions with different levels of concentrations and flow... 

In this paper, the dissolution and mobilization of non-aqueous phase liquid (NAPL) blobs in the Surfactant-Enhanced Aquifer Remediation (SEAR) process were upscaled using dynamic pore network modeling (PNM) of three-dimensional and unstructured networks. We considered corner flow and micro-flow mechanisms including snap-off and piston-like movement for two-phase flow. Moreover, NAPL entrapment and remobilization were evaluated using force analysis to develop the capillary desaturation curve (CDC) and predict the onset of remobilization. The corner diffusion mechanism was also applied in the modeling of interphase mass transfer to represent NAPL dissolution as the dominant mass transfer... 

A model for prediction the stress-strain behavior of particulate composite over wide ranges of filler concentration and composite deformation has been developed through combination of Anderson's and Yilmizer's model. The constitutive equations are extracted from first law of thermodynamic and nonlinear dilatational effects which are produced by filler-matrix debonding process. In addition to nonlinear behavior that has been resulted by filler-matrix debonding and was presented by Yilmizer, the formation and growing of void or cavitations has been also introduced in this model, whereas Anderson's model, most important reason for deviation of linear behavior is filler-matrix debonding and has... 

Tunability of fiber Bragg grating (FBG) in transition region is used to implement wavelength-selective optical intensity modulator, which superimposes a secondary low-speed data on the transit high-speed payload optical signal. Theoretical model of the device is developed and verified by measurements in the linear and nonlinear slopes of the FBG. Experiments with strong and relatively weak gratings confirm the wavelength-selectivity and stability of modulation. The fiber-based modulator is employed for optically tagging or labeling individual wavelength channels using baseband and amplitude-shift keying (ASK) modulated signals. The wavelength-selective channel labeling scheme is useful for... 

This paper introduces a wavelet packet algorithm based on a new wavelet like filter created by a neural mass model in place of wavelet. The hypothesis is that the performance of an ERP based BCI system can be improved by choosing an optimal wavelet derived from underlying mechanism of ERPs. The wavelet packet transform has been chosen for its generalization in comparison to wavelet. We compared the performance of proposed algorithm with existing standard wavelets as Db4, Bior4.4 and Coif3 in wavelet packet platform. The results showed a lowest cross validation error for the new filter in classification of two different kinds of ERP datasets via a SVM classifier. © 2007 IEEE  

In dual-beam optical tweezers, the accuracy of position and force measurements is often compromised by crosstalk between the two detected signals, this crosstalk leading to systematic and significant errors on the measured forces and distances. This is true both for dual-beam optical traps where the splitting of the two traps is done by polarization optics and for dual optical traps constructed by other methods, e.g., holographic tweezers. If the two traps are orthogonally polarized, most often crosstalk is minimized by inserting polarization optics in front of the detector; however, this method is not perfect because of the de-polarization of the trapping beam introduced by the required... 

Tumor microenvironment (TME) is a multi-scale biological environment that can control tumor dynamics with many biomechanical and biochemical factors. Investigating the physiology of TME with a heterogeneous structure and abnormal functions not only can achieve a deeper understanding of tumor behavior but also can help develop more efficient anti-cancer strategies. In this work, we develop a hybrid multi-scale mathematical model of TME to simulate the progression of a three-dimensional tumor and elucidate its response to different chemotherapy approaches. The chemotherapy approaches include multiple low dose (MLD) of anti-cancer drug, maximum tolerated dose (MTD) of anti-cancer drug,... 

Lander-Waterman's coverage bound establishes the total number of reads required to cover the whole genome of size G bases. In fact, their bound is a direct consequence of the well-known solution to the coupon collector's problem which proves that for such genome, the total number of bases to be sequenced should be O(G ln G). Although the result leads to a tight bound, it is based on a tacit assumption that the set of reads are first collected through a sequencing process and then are processed through a computation process, i.e., there are two different machines: one for sequencing and one for processing. In this paper, we present a significant improvement compared to Lander-Waterman's... 

A multi-item multiperiod inventory control model is developed for known-deterministic variable demands under limited available budget. Assuming the order quantity is more than the shortage quantity in each period, the shortage in combination of backorder and lost sale is considered. The orders are placed in batch sizes and the decision variables are assumed integer. Moreover, all unit discounts for a number of products and incremental quantity discount for some other items are considered. While the objectives are to minimize both the total inventory cost and the required storage space, the model is formulated into a fuzzy multicriteria decision making (FMCDM) framework and is shown to be a... 

Real networks exhibit nontrivial topological features, such as heavy-tailed degree distribution, high clusteringsmall-worldness. Researchers have developed several generative models for synthesizing artificial networks that are structurally similar to real networks. An important research problem is to identify the generative model that best fits to a target network. In this paper, we investigate this problem and our goal is to select the model that is able to generate graphs similar to a given network instance. By the means of generating synthetic networks with seven outstanding generative models, we have utilized machine learning methods to develop a decision tree for model selection. Our... 

Control problem in a biological system is the problem of finding an interventional policy for changing the state of the biological system from an undesirable state, e.g. disease, into a desirable healthy state. Boolean networks are utilized as a mathematical model for gene regulatory networks. This paper provides an algorithm to solve the control problem in Boolean networks. The proposed algorithm is implemented and applied on two biological systems: T-cell receptor network and Drosophila melanogaster network. Results show that the proposed algorithm works faster in solving the control problem over these networks, while having similar accuracy, in comparison to previous exact methods. Source... 

Trajectory and penetration of elliptical liquid jets emerged into a low-speed crossflow of air are studied. The jets are introduced to the crossflow at different momentum ratios ranging from 1 to 300. The images are analyzed to obtain the trajectories of the outer boundary of the jets for two different aspect ratios. An empirical correlation is proposed for the present injector geometries and for the range of momentum ratio, Weber, and Reynolds numbers used in this study. Finally, a theoretical model for the trajectory of the liquid column for an initially elliptical liquid emerging into a crossflow is presented, and the associated drag coefficients are obtained for a precise trajectory...