Sharif Digital Repository

An integrated microsampling approach based on solid-phase microextraction (SPME) was developed to provide a complete solution to highly efficient and accurate pharmacokinetic studies. The microsampling system included SPME probes that are made of poly(ethylene glycol) (PEG) and C18-bonded silica, a fast and efficient sampling strategy with accurate kinetic calibration, and a high-throughput desorption device based on a modified 96-well plate. The sampling system greatly improved the quantitative capability of SPME in two ways. First, the use of the C18-bonded silica/PEG fibers minimized the competition effect from analogues of the target analytes in a complicated sample matrix such as blood... 

The successful design and application of the ordered weighted averaging (OWA) method as a decision-making tool depend on the efficient computation of its order weights. The most popular methods for determining the order weights are the fuzzy linguistic quantifiers approach and the minimal variability method, which give different behavior patterns for the OWA. These two methods will be first analyzed in detail by using sensitivity analysis on the outputs of the OWA with respect to the optimism degree of the decision maker, and then the two methods will be compared. The fuzzy linguistic quantifiers approach gives more information about the behavior of the OWA outputs in comparison to the... 

Background: Angiogenesis inhibition research is a cutting edge area in angiogenesis-dependent disease therapy, especially in cancer therapy. Recently, studies on anti-angiogenic peptides have provided promising results in the field of cancer treatment. Methods: A non-redundant dataset of 135 anti-angiogenic peptides (positive instances) and 135 non anti-angiogenic peptides (negative instances) was used in this study. Also, 20% of each class were selected to construct an independent test dataset (see Additional files 1, 2). We proposed an effective machine learning based R package (AntAngioCOOL) to predict anti-angiogenic peptides. We have examined more than 200 different classifiers to build... 

This study was conducted to investigate the utility and efficacy of finger photoplethysmogram pulse amplitude (PPG-AC) in comparison with the standard Doppler ultrasound in assessing an endothelial function via flow-mediated dilation (FMD). High-resolution B-mode scanning of the right brachial artery (BA) of 31 healthy subjects aged 39.7 ± 11.3 (range 22-64) years and 52 risk subjects aged 47.7 ± 10.8 (range 30-65) years were performed before and after 4 min of upper arm occlusion. Concurrent with the ultrasound measurement (where color Doppler imaging was used to enhance arterial boundary detection), PPG signals were recorded from both index fingers for cross evaluation and comparison. Our... 

The current gold standard for clinical diagnosis of melanoma is excisional biopsy and histopathologic analysis. Approximately 15–30 benign lesions are biopsied to diagnose each melanoma. In addition, biopsies are invasive and result in pain, anxiety, scarring, and disfigurement of patients, which can add additional burden to the health care system. Among several imaging techniques developed to enhance melanoma diagnosis, optical coherence tomography (OCT), with its high-resolution and intermediate penetration depth, can potentially provide required diagnostic information noninvasively. Here, we present an image analysis algorithm, "optical properties extraction (OPE)," which improves the... 

Every year many people suffer from knee injuries. Previous studies on patients with knee injuries have shown that about 40% of knee injuries are Ligament injuries, and about 50% of the ligament injuries are the Anterior Cruciate Ligament (ACL) injuries. Along with other methods, knee arthrometers are widely used to diagnose ACL injuries. In the current research, a knee arthrometer was designed and developed to provide a reliable and repeatable measurement of knee laxity under anteriorposterior applied loads. Testretest configurations to examine repeatability of the device resulted in less than 1.5-mm difference for more than 97% of tests under applied loads of up to 90 N. These tests... 

Background: Convolutional neural networks (CNN) have enabled significant progress in speech recognition, image classification, automotive software engineering, and neuroscience. This impressive progress is largely due to a combination of algorithmic breakthroughs, computation resource improvements, and access to a large amount of data. Method: In this paper, we focus on the automated detection of autism spectrum disorder (ASD) using CNN with a brain imaging dataset. We detected ASD patients using most common resting-state functional magnetic resonance imaging (fMRI) data from a multi-site dataset named the Autism Brain Imaging Exchange (ABIDE). The proposed approach was able to classify ASD... 

The electrooxidation of clozapine (CLZ) was studied on the surface of a glassy carbon electrode (GCE) modified with a thin film of multiwalled carbon nanotubes (MWCNTs)/new coccine (NC) doped polypyrrole (PPY) by using linear sweep voltammetry (LSV). The pH of the supporting electrolyte (D), drop size of the cast MWCNTs suspension (E) and accumulation time of CLZ on the surface of modified electrode (F) was considered as effective experimental factors and the oxidation peak current of CLZ was selected as the response. By using factorial-based response-surface methodology, the optimum values of factors were obtained as 5.44, 10 μL and 300 s for D, E and F respectively. Under the optimized... 

Representational similarity analysis (RSA) summarizes activity patterns for a set of experimental conditions into a matrix composed of pairwise comparisons between activity patterns. Two examples of such matrices are the condition-by-condition inner product and correlation matrix. These representational matrices reside on the manifold of positive semidefinite matrices, called the Riemannian manifold. We hypothesize that representational similarities would be more accurately quantified by considering the underlying manifold of the representational matrices. Thus, we introduce the distance on the Riemannian manifold as a metric for comparing representations. Analyzing simulated and real fMRI... 

A label-free electrochemical biosensor was developed for the rapid detection of the matrix metalloproteinase 9 (MMP-9) biomarker on the basis of antibody immobilizing on the zinc oxide (ZnO) nanoparticle and ZnO nanorod electrodes. The charge transfer resistance (Rct) of the electrodes was used as the indicator for MMP-9 concentration, which was obtained through cyclic voltammetry (CV) and electrochemical impedance spectroscopy (EIS). The ZnO nanorod-based biosensor exhibited linear behavior in the MMP-9 concentration range of 1–1000 ng/ml, which is a wider range than the available concentration ranges for most of the conventional methods. The biosensor sensitivity was 32.5 μA/(decade × cm2)... 

In this paper, a novel nonlinear joint dynamical model is presented, which is based on a set of coupled ordinary differential equations of motion and a Gaussian mixture model representation of pulsatile cardiovascular (CV) signals. In the proposed framework, the joint interdependences of CV signals are incorporated by assuming a unique angular frequency that controls the limit cycle of the heart rate. Moreover, the time consequence of CV signals is controlled by the same phase parameter that results in the space dimensionality reduction. These joint equations together with linear assignments to observation are further used in the Kalman filter structure for estimation and tracking. Moreover,... 

A fast algorithm based on the nonlinear dynamical model for the electrocardiogram (ECG) is presented for the precise extraction of the characteristic points of these signals with baseline drift. Using the adaptive bionic wavelet transform, the baseline wander is removed efficiently. In fact by the means of the bionic wavelet transform, the resolution in the time-frequency domain can be adaptively adjusted not only by the signal frequency but also by the signal instantaneous amplitude and its first-order differential, which results in a better baseline wander cancellation. At the next step the parameters of the model are chosen to have the least square error with the original ECG. Determining... 

Electrocardiogram (ECG) and magnetocardiogram (MCG) signals are among the most considerable sources of noise for other biomedical signals. In some recent works, a Bayesian filtering framework has been proposed for denoising the ECG signals. In this paper, it is shown that this framework may be effectively used for removing cardiac contaminants such as the ECG, MCG and ballistocardiographic artifacts from different biomedical recordings such as the electroencephalogram, electromyogram and also for canceling maternal cardiac signals from fetal ECG/MCG. The proposed method is evaluated on simulated and real signals. © 2008 Institute of Physics and Engineering in Medicine  

In this paper, a nonlinear Bayesian filtering framework is proposed for the filtering of single channel noisy electrocardiogram (ECG) recordings. The necessary dynamic models of the ECG are based on a modified nonlinear dynamic model, previously suggested for the generation of a highly realistic synthetic ECG. A modified version of this model is used in several Bayesian filters, including the Extended Kalman Filter, Extended Kalman Smoother, and Unscented Kalman Filter. An automatic parameter selection method is also introduced, to facilitate the adaptation of the model parameters to a vast variety of ECGs. This approach is evaluated on several normal ECGs, by artificially adding white and... 

Objectives. Stressors have a serious role in precipitating mental and somatic disorders and are an interesting subject for many clinical and community-based studies. Hence, the proper and accurate measurement of them is very important. We revised the stressful life event (SLE) questionnaire by adding weights to the events in order to measure and determine a cut point. Methods. A total of 4569 adults aged between 18 and 85 years completed the SLE questionnaire and the general health questionnaire-12 (GHQ-12). A hybrid model of genetic algorithm (GA) and artificial neural networks (ANNs) was applied to extract the relation between the stressful life events (evaluated by a 6-point Likert scale)... 

An automated technique based on purge-and-trap coupled to gas chromatography with mass spectrometric detection has been developed and optimized for the trace determination of five of the most important water odorants; 2-isopropyl-3-methoxypyrazine, 2-isobutyl-3-methoxypyrazine, 2-methylisoborneol, 2,4,6-trichloroanisole and geosmin. The extraction method was absolutely solvent-free. Analytes were purged from 20 ml of water sample containing sodium chloride at room temperature by a flow of He and trapped on a Tenax sorbent. The desorption step was performed with helium and temperature programming and desorbed analytes were directly transferred to a gas chromatograph coupled to a mass... 

Long non-coding RNAs (lncRNAs) have crucial roles in the pathogenesis of immune-related disorders. However, their role in the pathobiology of inflammatory demyelinating polyradiculoneuropathies remains unclear. In the current study, we measured peripheral expression of four lncRNAs, namely TUG1, FAS-AS1, NEAT1, and GAS5, in patients with acute/chronic inflammatory demyelinating polyradiculoneuropathies (AIDP/CIDP) compared with healthy subjects. Notably, all lncRNAs were over-expressed in patients compared with controls (P < 0.0001 for all lncRNAs). When assessing their expressions in AIDP and CIDP groups separately, TUG1 and NEAT1 were up-regulated in both patient groups compared with... 

Normal human breathing exhibits complex variability in both respiratory rhythm and volume. Analyzing such nonlinear fluctuations may provide clinically relevant information in patients with complex illnesses such as asthma. We compared the cycle-by-cycle fluctuations of inter-breath interval (IBI) and lung volume (LV) among healthy volunteers and patients with various types of asthma. Continuous respiratory datasets were collected from forty agematched men including 10 healthy volunteers, 10 patients with controlled atopic asthma, 10 patients with uncontrolled atopic asthma, and 10 patients with uncontrolled non-atopic asthma during 60 min spontaneous breathing. Complexity of breathing... 

Since that pathogenic bacteria are major threats to human health, this paper describes the fabrication of an effective and durable sensing platform based on gold nanoparticles/carbon nanoparticles/cellulose nanofibers nanocomposite (AuNPs/CNPs/CNFs) at the surface of glassy carbon electrode for sensitive and selective detection of Staphylococcus aureus (S. aureus). The AuNPs/CNPs/CNFs nanocomposite with the high surface area, excellent conductivity, and good biocompatibility was used for self-assembled of the thiolated specific S. aureus aptamer as a sensing element. The surface morphology of AuNPs/CNPs/CNFs nanocomposite was characterized with field emission scanning electron microscopy... 

Coronary artery disease (CAD) causes oscillations in peripheral arteries. Oscillations of the walls of the brachial arteries of 51 patients were recorded [together with the electrocardiogram (ECG)] by an accelerometer at different cuff pressures. By analyzing the energy of the oscillations in the 30-250 Hz band, 16 of 22 patients with CAD and 26 of 29 non-CAD subjects were classified correctly, independent of the ECG, and with no effect of heart murmurs