Browsing by Author "Suhre, A."
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Item Open Access Bandwidth selection for kernel density estimation using fourier domain constraints(Institution of Engineering and Technology, 2016) Suhre, A.; Arıkan, Orhan; Çetin, A. EnisKernel density estimation (KDE) is widely-used for non-parametric estimation of an underlying density from data. The performance of KDE is mainly dependent on the bandwidth parameter of the kernel. This study presents an alternative method of estimating the bandwidth by incorporating sparsity priors in the Fourier transform domain. By using cross-validation (CV) together with an l1 constraint, the proposed method significantly reduces the under-smoothing effect of traditional CV methods. A solution for all free parameters in the minimisation is proposed, such that the algorithm does not need any additional parameter tuning. Simulation results indicate that the new approach is able to outperform classical and more recent approaches over a set of distributions of interest.Item Open Access Image classification of human carcinoma cells using complex wavelet-based covariance descriptors(Public Library of Science, 2013-01-16) Keskin, F.; Suhre, A.; Kose, K.; Ersahin, T.; Çetin, A. Enis; Cetin Atalay, R.Cancer cell lines are widely used for research purposes in laboratories all over the world. Computer-assisted classification of cancer cells can alleviate the burden of manual labeling and help cancer research. In this paper, we present a novel computerized method for cancer cell line image classification. The aim is to automatically classify 14 different classes of cell lines including 7 classes of breast and 7 classes of liver cancer cells. Microscopic images containing irregular carcinoma cell patterns are represented by subwindows which correspond to foreground pixels. For each subwindow, a covariance descriptor utilizing the dual-tree complex wavelet transform (DT-CWT) coefficients and several morphological attributes are computed. Directionally selective DT-CWT feature parameters are preferred primarily because of their ability to characterize edges at multiple orientations which is the characteristic feature of carcinoma cell line images. A Support Vector Machine (SVM) classifier with radial basis function (RBF) kernel is employed for final classification. Over a dataset of 840 images, we achieve an accuracy above 98%, which outperforms the classical covariance-based methods. The proposed system can be used as a reliable decision maker for laboratory studies. Our tool provides an automated, time-and cost-efficient analysis of cancer cell morphology to classify different cancer cell lines using image-processing techniques, which can be used as an alternative to the costly short tandem repeat (STR) analysis. The data set used in this manuscript is available as supplementary material through http://signal.ee.bilkent.edu.tr/cancerCellLineClassificationSampleImages.html.Item Open Access Multi-scale directional-filtering-based method for follicular lymphoma grading(Springer U K, 2014-08-07) Bozkurt, A.; Suhre, A.; Çetin, A. EnisFollicular lymphoma (FL) is a group of malignancies of lymphocyte origin that arise from lymph nodes, spleen, and bone marrow in the lymphatic system. It is the second most common non-Hodgkins lymphoma. Characteristic of FL is the presence of follicle center B cells consisting of centrocytes and centroblasts. Typically, FL images are graded by an expert manually counting the centroblasts in an image. This is time consuming. In this paper, we present a novel multi-scale directional filtering scheme and utilize it to classify FL images into different grades. Instead of counting the centroblasts individually, we classify the texture formed by centroblasts. We apply our multi-scale directional filtering scheme in two scales and along eight orientations, and use the mean and the standard deviation of each filter output as feature parameters. For classification, we use support vector machines with the radial basis function kernel. We map the features into two dimensions using linear discriminant analysis prior to classification. Experimental results are presented.Item Open Access A multiplication-free framework for signal processing and applications in biomedical image analysis(IEEE, 2013) Suhre, A.; Keskin F.; Ersahin, T.; Cetin-Atalay, R.; Ansari, R.; Cetin, A.E.A new framework for signal processing is introduced based on a novel vector product definition that permits a multiplier-free implementation. First a new product of two real numbers is defined as the sum of their absolute values, with the sign determined by product of the hard-limited numbers. This new product of real numbers is used to define a similar product of vectors in RN. The new vector product of two identical vectors reduces to a scaled version of the l1 norm of the vector. The main advantage of this framework is that it yields multiplication-free computationally efficient algorithms for performing some important tasks in signal processing. An application to the problem of cancer cell line image classification is presented that uses the notion of a co-difference matrix that is analogous to a covariance matrix except that the vector products are based on our new proposed framework. Results show the effectiveness of this approach when the proposed co-difference matrix is compared with a covariance matrix. © 2013 IEEE.