{"title":"Multilevel modeling in human microarray time course gene expression data","authors":"M. Ghaderi-Zefrehei, H. Memari, S. Kadkhodaei","doi":"10.1109/ICBME.2010.5705026","DOIUrl":"https://doi.org/10.1109/ICBME.2010.5705026","url":null,"abstract":"In this study different numbers of models were learned over a single dataset of human microarray time-course gene expression data. The idea of running this extensive broad of modeling was lack of true knowledge of variance covariance of error structure among gene expression vales due time. The results indicated that it is difficult to find the right and sufficiently accurate variance covariance among gene expression data which defines the expression values the best. Also, the results indicated that there is less small negative correlation between intercept and slop among expression values within genes. This generally indicates those genes which get started with high expression values, likely decreases their expression across times. The analysis suggested that multilevel modeling can likely pinpoint to differentially expressed genes across whole dataset. As a side it concluded that by using multilevel modeling, genes which show periodic activity across time can be winnowed down too.","PeriodicalId":377764,"journal":{"name":"2010 17th Iranian Conference of Biomedical Engineering (ICBME)","volume":"53 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"131773191","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Design and implementation of an ultra low power wireless neuro-stimulator system","authors":"M. M. Samani, A. Mahnam","doi":"10.1109/ICBME.2010.5704971","DOIUrl":"https://doi.org/10.1109/ICBME.2010.5704971","url":null,"abstract":"Long term Behavioral and neurophysiological studies of freely moving animals require a wireless portable low power neurostimulator which can provide precisely controllable input(s) to the nervous system. In this paper, we have reported design of a long range, wireless neuro-stimulat or for electrical stimulation of central nervous system, optimized to consume ultra low power and therefore suitable for long-term neurophysiological studies on freely moving animals. The system consists of two parts: (1) a programmable remote controller and, (2) a back-pack current stimulator. The controller provides a simple interface to configure the stimulus pulse and stimulation pattern parameters, and wirelessly controls the back-pack. The stimulator can deliver programmed trains of monophasic or biphasic current pulses up to ±2mA, and its total power consumption is only 5.1mW. Therefore the system is ideal for long-term neural stimulation, while it is flexible enough to be used in different applications of electrical stimulation of centeral nerve system (CNS). Keywords: Stimulator, Electrical Tele-stimulation, ultra low power, freely moving animal, central nervous system.","PeriodicalId":377764,"journal":{"name":"2010 17th Iranian Conference of Biomedical Engineering (ICBME)","volume":"89 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"124597063","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Visualization of coronary atherosclerotic plaques in patients using different imaging modalities","authors":"M. K. Moridani","doi":"10.1109/ICBME.2010.5704969","DOIUrl":"https://doi.org/10.1109/ICBME.2010.5704969","url":null,"abstract":"Different imaging modalities have been developed over the last several years in order to better characterize the atherosclerotic plaque and attempt to predict those in peril of complication.","PeriodicalId":377764,"journal":{"name":"2010 17th Iranian Conference of Biomedical Engineering (ICBME)","volume":"117 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"115004561","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Synthesis and release study of tissue plasminogen activators (tPA) loaded chitosan coated poly (lactide-co-glycolide acid) nanoparticles","authors":"M. Mahmoodi, M. E. Khosroshahi, F. Atyabi","doi":"10.1109/ICBME.2010.5705015","DOIUrl":"https://doi.org/10.1109/ICBME.2010.5705015","url":null,"abstract":"Polyelectrolyte coated nanopatrticles (NPs) interact with bioactive molecules such as, peptides, proteins or nucleic acids and have been proposed as delivery systems for these molecules. In this study, cationic NPs were prepared by coating chitosan (CS) on the surface of PLGA NPs. The tPA encapsulated PLGA and PLGA/ CS NPs were fabricated via the W/O/W double emulsion solvent evaporation surface coating method. The CS coating was confirmed by zeta potential and FTIR. The surface morphology of NPs was also studied by TEM. In vitro drug release experiments of tPA encapsulated PLGA and PLGA/CS are determined by HPLC and showed a sustained release profile for three days with little initial burst release for PLGA/CS NPs. The mean particle size and encapsulation efficiency of tPA NPs were in the range of 280-360 nm and 46.7%±1.56, 50.8%±1.09, respectively. The encapsulation efficiency and the particles size were increased as a result of coating with CS. The release kinetics was evaluated by fitting the experimental data to standard release equation (Higuchie equation). This model was used to find the best fit for NPs. These results suggest that PLGA/CS NPs could serve as an effective vehicle for local delivery of tPA.","PeriodicalId":377764,"journal":{"name":"2010 17th Iranian Conference of Biomedical Engineering (ICBME)","volume":"59 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"129880710","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Gradient vector flow snake segmentation of breast lesions in Dynamic Contrast-Enhanced MR images","authors":"L. Bahreini, E. Fatemizadeh, M. Gity","doi":"10.1109/ICBME.2010.5704954","DOIUrl":"https://doi.org/10.1109/ICBME.2010.5704954","url":null,"abstract":"The development of computer-aided diagnosis (CAD) for breast magnetic resonance (MR) images has encountered some big challenges. One of these challenges is related to breast lesion segmentation. Accurate segmentation of breast lesions has a vital role in other consequent applications such as feature extraction. Since malignant breast lesions typically appear with irregular borders and shapes in MR images whereas benign masses appear with more regular shapes, and smooth and lobulated borders, it seems that the accurate segmentation of breast lesion borders in MR images are important. To achieve this purpose, we have used the Gradient Vector Flow (GVF) snake segmentation method. This study included 52 (33 malignant and 19 benign) histopathologically proven breast lesions and the stages of the proposed method are as follows: selecting the region of interest (ROI), segmentation using GVF, evaluation of GVF snake segmentation method. The results of GVF segmentation method in this study were satisfactory referred to the radiologist's manual segmentation. The results showed the GVF snake segmentation method correctly segmented 97% of malignant lesion borders and 89.5% of benign lesion borders at the overlap threshold of 0.6. This indicates GVF snake segmentation method could provide us with a powerful method that can make an accurate segmentation in breast lesion borders.","PeriodicalId":377764,"journal":{"name":"2010 17th Iranian Conference of Biomedical Engineering (ICBME)","volume":"01 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"128293503","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
B. Sepehri, G. Rouhi, A. A. Yazdi, M. Bahari Kashani
{"title":"Effect of load direction on fracture type in tibia","authors":"B. Sepehri, G. Rouhi, A. A. Yazdi, M. Bahari Kashani","doi":"10.1109/ICBME.2010.5704991","DOIUrl":"https://doi.org/10.1109/ICBME.2010.5704991","url":null,"abstract":"The main purpose of this research was to predict the site and type of fracture in the tibial shaft under transversal and torsional impacts, using FEA","PeriodicalId":377764,"journal":{"name":"2010 17th Iranian Conference of Biomedical Engineering (ICBME)","volume":"28 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"132492461","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Dynamics of TMAFM in liquid: Application to molecular metrology and biological sciences","authors":"M. Korayem, N. Ebrahimi","doi":"10.1109/ICBME.2010.5705006","DOIUrl":"https://doi.org/10.1109/ICBME.2010.5705006","url":null,"abstract":"Application of atomic force microscopy (AFM) in liquid is necessary for imaging and manipulation of biological specimens. The atomic force microscope (AFM) has become an indispensable tool in biology because it permits the imaging and probing of nanomechanical properties of biological samples such as biopolymers and viruses under physiological (liquid environments) conditions. In this paper, we have simulated a tapping-mode AFM (TMAFM) cantilever in liquid environment near a surface. Contact forces have some differences in liquid in comparison to air or vacuum in magnitude or formulation. Hydrodynamic forces are also applied on the cantilever due to the motion in liquid. For modeling we have used a continuous beam model with its first mode and forward-time simulation method for simulation of its hybrid dynamics. The results show a good agreement with experiments. They also show that the effect of separation on free vibration amplitude is great. Its effect on resonance frequency is considerable too. The resonance frequency in liquid is so small in comparison to air due to additional mass and also additional damping created by the viscosity of the liquid around.","PeriodicalId":377764,"journal":{"name":"2010 17th Iranian Conference of Biomedical Engineering (ICBME)","volume":"28 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"131966028","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Assessment of Parkinson's disease: Classification and complexity analysis","authors":"Y. Rakhshani Fatmehsari, F. Bahrami","doi":"10.1109/ICBME.2010.5704930","DOIUrl":"https://doi.org/10.1109/ICBME.2010.5704930","url":null,"abstract":"In this paper we present a new algorithm to analyze gait patterns of subjects with Parkinson's disease (PD) under two conditions of deep brain stimulation (DBS) off and on. Our goal is to study the complexity and predictability of gait of PD subjects in comparison to the gait of normal subjects. At the same time we used the features extracted for this purpose to classify PD subjects with DBS off or on from healthy control subjects. The angular velocity signals obtained from four uni-axial gyroscopes were used for feature extraction. These four gyroscopes were attached to the right and left shanks and thighs. Approximate Entropy (ApEn), Hurst Exponent (HE) and Higuchi Fractal Dimension (HFD) are the three nonlinear features used for classification. 9 PD subjects and 10 healthy controls were participated in the experiments. The results showed that ApEn and HFD have greater values for PD subjects (with DBS off) indicating more complexity and irregularity in their walking dynamics. Also HE had smaller values for PD subjects (with DBS off) indicating less predictability in their gait time series. The k-nearest neighbor classifier with leave-one-out cross validation method were used for classification and we succeeded to discriminate PD subjects (with DBS off) from the normal ones with the high accuracy of 100%. The accuracy for discrimination of PD subjects with DBS on from the normal ones was 89.47%. Then we analyzed the signals of each single gyroscope, one by one, to find the most informative signal. We achieved the high classification accuracy of 100% (for PD subjects with DBS off) using only the signals of the right shank or the right thigh. It indicates that, among our participants, the signals obtained from the right side of the body are more informative than the left side.","PeriodicalId":377764,"journal":{"name":"2010 17th Iranian Conference of Biomedical Engineering (ICBME)","volume":"6 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"128734710","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Mathematical modeling of burst drug release from a simple monolithic dispersion","authors":"P. Nemati, M. Imani, Mohammad Khalifeh","doi":"10.1109/ICBME.2010.5705014","DOIUrl":"https://doi.org/10.1109/ICBME.2010.5705014","url":null,"abstract":"This paper deals with application of mathematical modeling in description of initial burst drug release from simple monolithic dispersion devices. Although the significance of burst release in controlled drug delivery has not been entirely ignored, no successful theories have been put forth to fully describe this phenomenon. Here, artificial neural networks is used to simulate the porous silicone-based drug delivery devices as monolithic dispersion of betamethasone in a silicone matrix using two leachable porogens to predict the optimized formulation parameters including the initial drug loading percentage (%w/w) and porogen content using drug release profiles. The network was also successfully examined in determination of the burst release profile for a given formulation parameters.","PeriodicalId":377764,"journal":{"name":"2010 17th Iranian Conference of Biomedical Engineering (ICBME)","volume":"39 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"122016896","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"3D MRI brain segmentation based on MRF and hybrid of SA and IGA","authors":"Sahar Yousefi, M. Zahedi, R. Azmi","doi":"10.1109/ICBME.2010.5704956","DOIUrl":"https://doi.org/10.1109/ICBME.2010.5704956","url":null,"abstract":"This paper proposes a novel combinational approach for statistical de-noising and segmentation of 3D magnetic resonance images (MRIs) of the brain. The proposed method is based on Markov Random Field (MRF), conjunction with simulated annealing (SA) and improved genetic algorithm (IGA). MRF methods have been widely studied for segmentation. Despite the Markovianity which depicts the local characteristic, which allows a global optimization problem to be solved locally, MRF still has a heavy computation burden, especially when it is used with stochastic relaxation schemes such as SA. Although, search procedure of SA is fairly localized and prevents from exploring the same diversity of solutions, it suffers from several limitations. In comparison, GA has a good capability of global researching but it is weak in hill climbing. Therefore, the combination of these two methods may have the advantages of both procedures while alleviating their individual shortcomings and high computation complexity. Evaluation of proposed approach shows that our algorithm outperforms the traditional MRF in both convergence speed and solution quality.","PeriodicalId":377764,"journal":{"name":"2010 17th Iranian Conference of Biomedical Engineering (ICBME)","volume":"35 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"124917249","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}