Browsing by Author "Yilmaz, Bulent"

Now showing 1 - 20 of 61

3D Sampling of K-Space With Non-Cartesian Trajectories in MR Imaging
(Gazi Univ, Fac Engineering Architecture, 2025) Dundar, Mehmet Sait; Gumus, Kazim Z.; Yilmaz, Bulent; 01. Abdullah Gül University
This study presents an innovative approach to 3D k-space sampling in MR imaging using non-Cartesian concentric shell trajectories. The method involves 32 concentric shells of varying radii, allowing for rapid data acquisition through undersampling techniques. Simulations using IDEA software demonstrate that this approach can fill the k-space in less than one second, a significant time reduction compared to traditional FLASH sequences that can take 3-4 minutes. The concentric shell model enhances imaging efficiency by minimizing artifacts and ensuring uniform k-space filling, leading to higher resolution and faster scans. This technique shows promise for clinical applications, particularly in dynamic imaging scenarios such as acute stroke and pediatric radiology, where speed and precision are critical. As illustrated in Figure A, the concentric shell trajectories enable uniform k-space filling, significantly reducing scan times and improving image quality. These results are based on the simulations conducted with IDEA software.
Akciğer Tümörlü Hastaların PET ve BT Görüntülerinin Çakıştırılıp Birleştirilmesi
(IEEE, 2015) Ayyildiz, Oguzhan; Yilmaz, Bulent; Karacavus, Seyhan; Kayaalti, Omer; Icer, Semra; Eset, Kubra; Kaya, Eser; 01. Abdullah Gül University; 02. Mühendislik Fakültesi; 02.05. Elektrik & Elektronik Mühendisliği
Image fusion attracts attention in medical field due to complementary behavior and application such as diagnosis and treatment planning. In this study, first positron emission tomography (PET) and computed tomography (CT) images coming from 8 nonsmall cell lung cancer were registered then wavelet and principal component analysis methods were applied to fuse images. According to mutual information metric and nuclear medicine expert wavelet method gave better results when compared to PCA.
Citation - WoS: 21
Citation - Scopus: 28
Automated Quantification of Immunomagnetic Beads and Leukemia Cells from Optical Microscope Images
(Elsevier Sci Ltd, 2019) Uslu, Fatma; Icoz, Kutay; Tasdemir, Kasim; Yilmaz, Bulent; 01. Abdullah Gül University
Quantification of tumor cells is crucial for early detection and monitoring the progress of cancer. Several methods have been developed for detecting tumor cells. However, automated quantification of cells in the presence of immunomagnetic beads has not been studied. In this study, we developed computer vision based algorithms to quantify the leukemia cells captured and separated by micron size immunomagnetic beads. Color, size based object identification and machine learning based methods were implemented to quantify targets in the images recorded by a bright field microscope. Images acquired by a 40x or a 20x objective were analyzed, the immunomagnetic beads were detected with an error rate of 0.0171 and 0.0384 respectively. Our results reveal that the proposed method attains 91.6% precision for the 40x objective and 79.7% for the 20x objective. This algorithm has the potential to be the signal readout mechanism of a biochip for cell detection. (C) 2019 Elsevier Ltd. All rights reserved.
Citation - WoS: 1
Automatic Blurry Colon Image Detection Using Laplacian Operator-Based Features
(Elsevier Science Bv, 2018) Yilmaz, Bulent; Kacmaz, Rukiye Nur; Dundar, Mehmet Sait; 01. Abdullah Gül University
Citation - WoS: 16
Citation - Scopus: 18
Automatic Body Part and Pose Detection in Medical Infrared Thermal Images
(Taylor & Francis Ltd, 2022) Ozdil, Ahmet; Yilmaz, Bulent; 01. Abdullah Gül University
Automatisation and standardisation of the diagnosis process in medical infrared thermal imaging (MITI) is crucial because the number of medical experts in this area is highly limited.The current studies generally need manual intervention. One of the manual operations requires physician's determination of the body part and orientation. In this study automatic pose and body part detection on medical thermal images is investigated. The database (957 thermal images - 59 patients) was divided into four classes upper-lower body parts with back-front views. First, histogram equalization (HE) method was applied on the pixels only within the body determined using Otsu'sthresholding approach. Secondly, DarkNet-19 architecture was used for feature extraction, and principal component analysis (PCA) and t-distributed stochastic neighbour embedding (t-SNE) approaches for feature selection. Finally, the performances of various machine learning based classification methods were examined. Upper vs. lower body parts and back vs. front of upper body were classified with 100% accuracy, and back vs. front classification of lower body part success rate was 93.38%. This approach will improve the automatisation process of thermal images to group them for comparing one image with the others and to perform queries on the labeled images in a more user-friendly manner.
Citation - Scopus: 2
Beyin Bilgisayar Arayüzü Uygulamalari için Dinlenme, Harekete Niyet ve Hareket Ayırma
(Institute of Electrical and Electronics Engineers Inc., 2018) Oztürk, Nedime; Yilmaz, Bulent; 01. Abdullah Gül University
Brain-computer interface (BCI) is a system that provides a means to control prosthesis, wheelchair, or similar devices using brain waves without direct motor nervous system involvement. For this purpose, brain waves obtained from multiple electrodes placed on the scalp (EEG, Electroencephalogram) are used. Emotiv Epoc used to obtain EEG signals is a low-cost device and has real-time applications. The aim of this study is the detection of rest, imagination and real movement using EEG signals obtained by Emotiv Epoc headset. As a result, As a result, the data obtained from 39 trials from a female subject were classified resting, motion imagination and movement, according to 97.4% accuracy by using the statistical features of distortion, logarithm energy entropy, energy, Shannon entropy and kurtosis. In this study, it has been shown that this system can be remarkably successful for BCI applications. © 2019 Elsevier B.V., All rights reserved.
Citation - Scopus: 2
Beyin Dalgalari ve Baş Hareketiyle Gerçek Zamanli Robotik Araba Kontrolü
(Institute of Electrical and Electronics Engineers Inc., 2018) Oztürk, Nedime; Yilmaz, Bulent; Onver, Ahmet Yasin; 01. Abdullah Gül University
Emotiv Epoc Headset is a portable and low-cost device. In this study, Emotiv Epoc headset was used in order to obtain real-time gyro and EEG signals. The aim of this study was to control a robotic car in real-time by using head movement and opening and closing of the eyes. The maximum and minimum amplitude of the gyro signal, and the ratios of the beta waves of O1 and O2 channel to alpha waves of the same channels were used as threshold values. These threshold values were used to determine the direction of the robotic car. Because of its low-cost and easy implementation, Arduino Uno was used to manage the robotic car. This study has shown that brain waves and head movements can control a device in real time. This system has the potential to be used in neurofeedback and brain-computer interface applications. © 2019 Elsevier B.V., All rights reserved.
Citation - WoS: 16
Citation - Scopus: 17
Can Laws Be a Potential PET Image Texture Analysis Approach for Evaluation of Tumor Heterogeneity and Histopathological Characteristics in NSCLC
(Springer, 2018) Karacavus, Seyhan; Yilmaz, Bulent; Tasdemir, Arzu; Kayaalti, Omer; Kaya, Eser; Icer, Semra; Ayyildiz, Oguzhan; 01. Abdullah Gül University; 02. Mühendislik Fakültesi; 02.05. Elektrik & Elektronik Mühendisliği
We investigated the association between the textural features obtained from F-18-FDG images, metabolic parameters (SUVmax(,) SUVmean, MTV, TLG), and tumor histopathological characteristics (stage and Ki-67 proliferation index) in non-small cell lung cancer (NSCLC). The FDG-PET images of 67 patients with NSCLC were evaluated. MATLAB technical computing language was employed in the extraction of 137 features by using first order statistics (FOS), gray-level co-occurrence matrix (GLCM), gray-level run length matrix (GLRLM), and Laws' texture filters. Textural features and metabolic parameters were statistically analyzed in terms of good discrimination power between tumor stages, and selected features/parameters were used in the automatic classification by k-nearest neighbors (k-NN) and support vector machines (SVM). We showed that one textural feature (gray-level nonuniformity, GLN) obtained using GLRLM approach and nine textural features using Laws' approach were successful in discriminating all tumor stages, unlike metabolic parameters. There were significant correlations between Ki-67 index and some of the textural features computed using Laws' method (r = 0.6, p = 0.013). In terms of automatic classification of tumor stage, the accuracy was approximately 84% with k-NN classifier (k = 3) and SVM, using selected five features. Texture analysis of FDG-PET images has a potential to be an objective tool to assess tumor histopathological characteristics. The textural features obtained using Laws' approach could be useful in the discrimination of tumor stage.
Citation - WoS: 1
Comparison of Deep Learning and Conventional Machine Learning Methods for Classification of Colon Polyp Types
(Sciendo, 2021) Dogan, Refika Sultan; Yilmaz, Bulent; 01. Abdullah Gül University; 04. Yaşam ve Doğa Bilimleri Fakültesi; 04.01. Biyomühendislik
Determination of polyp types requires tissue biopsy during colonoscopy and then histopathological examination of the microscopic images which tremendously time-consuming and costly. The first aim of this study was to design a computer-aided diagnosis system to classify polyp types using colonoscopy images (optical biopsy) without the need for tissue biopsy. For this purpose, two different approaches were designed based on conventional machine learning (ML) and deep learning. Firstly, classification was performed using random forest approach by means of the features obtained from the histogram of gradients descriptor. Secondly, simple convolutional neural networks (CNN) based architecture was built to train with the colonoscopy images containing colon polyps. The performances of these approaches on two (adenoma & serrated vs. hyperplastic) or three (adenoma vs. hyperplastic vs. serrated) category classifications were investigated. Furthermore, the effect of imaging modality on the classification was also examined using white-light and narrow band imaging systems. The performance of these approaches was compared with the results obtained by 3 novice and 4 expert doctors. Two-category classification results showed that conventional ML approach achieved significantly better than the simple CNN based approach did in both narrow band and white-light imaging modalities. The accuracy reached almost 95% for white-light imaging. This performance surpassed the correct classification rate of all 7 doctors. Additionally, the second task (three-category) results indicated that the simple CNN architecture outperformed both conventional ML based approaches and the doctors. This study shows the feasibility of using conventional machine learning or deep learning based approaches in automatic classification of colon types on colonoscopy images.
Citation - Scopus: 1
Comparison of Lung Tumor Segmentation Methods on PET Images
(IEEE, 2015) Eset, Kubra; Icer, Semra; Karacavus, Seyhan; Yilmaz, Bulent; Kayaalti, Omer; Ayyildiz, Oguzhan; Kaya, Eser; 01. Abdullah Gül University; 02. Mühendislik Fakültesi; 02.05. Elektrik & Elektronik Mühendisliği
Lung cancer is the most common cause of cancer-related deaths that occur all over the world. Recently, various image processing approaches have been used on PET images in order to characterize the uniformity, density, coarseness, roughness, and regularity (i.e., texture properties) of the intratumoral F-18-fluorodeoxyglucose (FDG) uptake. The first and important step of this kind of analysis is to differentiate tumor region from other structures and background, which is called segmentation. In this study, k-means, active contour (snake), and Otsu's tresholding methods were applied on PET images obtained from 36 patients and the performances were compared by the nuclear medicine expert in our team. The results show that Otsu tresholding approach is more selective.
Citation - Scopus: 12
Design and Multichannel Electromyography System-Based Neural Network Control of a Low-Cost Myoelectric Prosthesis Hand
(Copernicus GmbH, 2021) Siddiq Ahmed, Saygin; Almusawi, Ahmed R.J.; Yilmaz, Bulent; Doǧru, Nuran; 01. Abdullah Gül University
This study introduces a new control method for electromyography (EMG) in a prosthetic hand application with a practical design of the whole system. The hand is controlled by a motor (which regulates a significant part of the hand movement) and a microcontroller board, which is responsible for receiving and analyzing signals acquired by a Myoware muscle device. The Myoware device accepts muscle signals and sends them to the controller. The controller interprets the received signals based on the designed artificial neural network. In this design, the muscle signals are read and saved in a MATLAB system file. After neural network program processing by MATLAB, they are then applied online to the prosthetic hand. The obtained signal, i.e., electromyogram, is programmed to control the motion of the prosthetic hand with similar behavior to a real human hand. The designed system is tested on seven individuals at Gaziantep University. Due to the sufficient signal of the Mayo armband compared to Myoware sensors, Mayo armband muscle is applied in the proposed system. The discussed results have been shown to be satisfactory in the final proposed system. This system was a feasible, useful, and cost-effective solution for the handless or amputated individuals. They have used the system in their day-to-day activities that allowed them to move freely, easily, and comfortably. © 2021 Elsevier B.V., All rights reserved.
Citation - Scopus: 1
Detection of Epileptic Seizures With Tangent Space Mapping Features of EEG Signals
(IEEE, 2021) Altindis, Fatih; Yilmaz, Bulent; 01. Abdullah Gül University; 02. Mühendislik Fakültesi; 02.05. Elektrik & Elektronik Mühendisliği
Detection of epileptic seizures from EEG signals is well-studied topic for the last couple of decades. Lately, automated signal processing and machine learning methods were developed to detect epileptic seizures. However, most of the methods are tailored to subjects and require fine tuning of many parameters. In this study, we proposed to use Riemannian geometry-based signal processing method that already showed superior performance on brain-computer interface problems, to extract features. We showed that tangent space mapping features of EEG signals can be used to detect seizures with high accuracy and precision.
Citation - WoS: 11
Citation - Scopus: 14
Detection of Movement Intention in EEG-Based Brain-Computer Interfaces Using Fourier-Based Synchrosqueezing Transform
(World Scientific Publ Co Pte Ltd, 2021) Karakullukcu, Nedime; Yilmaz, Bulent; AGÜ, Mühendislik Fakültesi, Elektrik - Elektronik Mühendisliği Bölümü; Karakullukcu, Nedime; Yilmaz, Bülent; 01. Abdullah Gül University
Patients with motor impairments need caregivers' help to initiate the operation of brain-computer interfaces (BCI). This study aims to identify and characterize movement intention using multichannel electroencephalography (EEG) signals as a means to initiate BCI systems without extra accessories/methodologies. We propose to discriminate the resting and motor imagery (MI) states with high accuracy using Fourier-based synchrosqueezing transform (FSST) as a feature extractor. FSST has been investigated and compared with other popular approaches in 28 healthy subjects for a total of 6657 trials. The accuracy and f-measure values were obtained as 99.8% and 0.99, respectively, when FSST was used as the feature extractor and singular value decomposition (SVD) as the feature selection method and support vector machines as the classifier. Moreover, this study investigated the use of data that contain certain amount of noise without any preprocessing in addition to the clean counterparts. Furthermore, the statistical analysis of EEG channels with the best discrimination (of resting and MI states) characteristics demonstrated that F4-Fz-C3-Cz-C4-Pz channels and several statistical features had statistical significance levels, p, less than 0.05. This study showed that the preparation of the movement can be detected in real-time employing FSST-SVD combination and several channels with minimal pre-processing effort.
Detection of Variation Instances on Colonoscopy Videos using Structural Similarity Index
(IEEE, 345 E 47TH ST, NEW YORK, NY 10017 USA, 2018) Kacmaz, Rukiye Nur; Yilmaz, Bulent; AGÜ, Mühendislik Fakültesi, Elektrik - Elektronik Mühendisliği Bölümü; 01. Abdullah Gül University
The aim of this study is to reduce the number of images extracted from the videos recorded by the specialists during the colonoscopy process for further examination, thereby enabling the specialist to deal with fewer images. Since the images obtained from the videos are very similar, the main assumption of this study is that the whole video can be represented by fewer images. The approach used in this study is the structural similarity index. Totally, images were obtained from 4 different videos coming from healthy, ulcerative colitis, Crohn's, and polyp patients. The noisy images in these videos were eliminated manually. When the structural similarity index between two consecutive clear images was less than 0.83, the second image was selected and shown to the specialist for his/her examination. By this way, the frames carrying significantly new information from the videos were defined as the variation instances. The tests on healthy or diseased colon videos showed that only 5-10% of the clear images provide significantly new information.
Citation - WoS: 1
Citation - Scopus: 1
Distinguishing Resting State From Motor Imagery Swallowing Using EEG and Deep Learning Models
(IEEE-Inst Electrical Electronics Engineers Inc, 2024) Aslan, Sevgi Gokce; Yilmaz, Bulent; 01. Abdullah Gül University
The primary aim of this study was to assess the classification performance of deep learning models in distinguishing between resting state and motor imagery swallowing, utilizing various preprocessing and data visualization techniques applied to electroencephalography (EEG) data. In this study, we performed experiments using four distinct paradigms such as natural swallowing, induced saliva swallowing, induced water swallowing, and induced tongue protrusion on 30 right-handed individuals (aged 18 to 56). We utilized a 16-channel wearable EEG headset. We thoroughly investigated the impact of different preprocessing methods (Independent Component Analysis, Empirical Mode Decomposition, bandpass filtering) and visualization techniques (spectrograms, scalograms) on the classification performance of multichannel EEG signals. Additionally, we explored the utilization and potential contributions of deep learning models, particularly Convolutional Neural Networks (CNNs), in EEG-based classification processes. The novelty of this study lies in its comprehensive examination of the potential of deep learning models, specifically in distinguishing between resting state and motor imagery swallowing processes, using a diverse combination of EEG signal preprocessing and visualization techniques. The results showed that it was possible to distinguish the resting state from the imagination of swallowing with 89.8% accuracy, especially using continuous wavelet transform (CWT) based scalograms. The findings of this study may provide significant contributions to the development of effective methods for the rehabilitation and treatment of swallowing difficulties based on motor imagery-based brain computer interfaces.
Effect of Bilinear Interpolation on the Texture Analysis of Colonoscopy Images
(IEEE345 E 47TH ST, NEW YORK, NY 10017 USA, 2017) Kacmaz, Rukiye Nur; Yilmaz, Bulent; AGÜ, Mühendislik Fakültesi, Elektrik - Elektronik Mühendisliği Bölümü; 01. Abdullah Gül University
Interpolation is a method that is used to obtain unknown intensities with the help of known intensities on an image. This method is frequently used in the literature to eliminate light reflection on colonoscopy images. Texture features are the most important characteristics used to describe the region or objects of interest in the image. They are the measures of intensity variation of a surface that determine properties such as smoothness, roughness, and regularity. The aim of this study is to find out the how bilinear interpolation applied on colonoscopy images with reflection impact texture features obtained from the same images. A research carried out to make reasonable comparison between a texture feature from an image with no reflection and the same feature obtained from the same image with synthetically added reflections with various percentages. Using the approaches like gray level co-occurence matrix (GLCM), gray level run length matrix (GLRLM), neighborhood gray tone difference matrix (NGTDM) 126 features were extracted from each 32x32 sub-images coming from 610 colonoscopy images. Several of the features extracted from sub-images with no reflection and reflection were not statistically significantly different, while majority of them were affected from the reflections.
Citation - WoS: 7
Citation - Scopus: 5
Effect of Interpolation on Specular Reflections in Texture-Based Automatic Colonic Polyp Detection
(Wiley, 2021) Kacmaz, Rukiye Nur; Yilmaz, Bulent; Aydin, Zafer; 01. Abdullah Gül University; 02. 04. Bilgisayar Mühendisliği; 02. Mühendislik Fakültesi
Reflections of LED light cause unwanted noise effects called specular reflection (SR) on colonoscopic images. The aim of this study was to seek answers to the following two questions. (a) How are the texture features used in automatic detection of polyps affected by the interpolation on specular reflections? (b) If they are affected does it really affect the classification performance? In order to answer these questions, we used 610 colonoscopy images, and divided each image into tiles whose sizes were 32-by-32 pixels. From these tiles, we selected the ones without any specular reflection. We added different shape and size specular reflections cropped from real images onto the reflection-free tiles. We then used the nearest neighbors, bilinear and bicubic interpolation techniques on the tiles on which SRs were added. On these tiles we extracted 116 texture features using 3 second-order approaches, and 4 first-order statistics. First, we used paired samplettest. Second, we performed automatic classification of polyps and background using random forest and k nearest neighbors (k-NN) approaches using the texture features for different combinations of specular reflections added on the tiles from the polyp or background. The results showed that depending on the size of specular reflection, interpolation can cause a significant difference between the texture features that were coming from reflection-free tiles and the same tiles on which interpolation was performed. In addition, we note that bicubic interpolation may be preferred to eliminate specular reflection when texture features are used for background and polyp discrimination.
Citation - Scopus: 10
An Effective Colorectal Polyp Classification for Histopathological Images Based on Supervised Contrastive Learning
(Elsevier Ltd, 2024) Yengec-Tasdemir, Sena Busra; Aydin, Zafer; Akay, Ebru; Doǧan, Serkan; Yilmaz, Bulent; 01. Abdullah Gül University; 02. 04. Bilgisayar Mühendisliği; 02. Mühendislik Fakültesi
Early detection of colon adenomatous polyps is pivotal in reducing colon cancer risk. In this context, accurately distinguishing between adenomatous polyp subtypes, especially tubular and tubulovillous, from hyperplastic variants is crucial. This study introduces a cutting-edge computer-aided diagnosis system optimized for this task. Our system employs advanced Supervised Contrastive learning to ensure precise classification of colon histopathology images. Significantly, we have integrated the Big Transfer model, which has gained prominence for its exemplary adaptability to visual tasks in medical imaging. Our novel approach discerns between in-class and out-of-class images, thereby elevating its discriminatory power for polyp subtypes. We validated our system using two datasets: a specially curated one and the publicly accessible UniToPatho dataset. The results reveal that our model markedly surpasses traditional deep convolutional neural networks, registering classification accuracies of 87.1% and 70.3% for the custom and UniToPatho datasets, respectively. Such results emphasize the transformative potential of our model in polyp classification endeavors. © 2024 Elsevier B.V., All rights reserved.
Citation - Scopus: 5
Emotion Detection Using Multivariate Synchrosqueezing Transform via 2D Circumplex Model
(Institute of Electrical and Electronics Engineers Inc., 2018) Ozel, Pinar; Akan, Aydin; Yilmaz, Bulent; Özel, Pınar; Akan, Aydin I.; Yilmaz, Bulent; AGÜ, Mühendislik Fakültesi, Elektrik - Elektronik Mühendisliği Bölümü; 01. Abdullah Gül University
Emotion detection by utilizing signal processing methods is a challenging area. An open issue in emotional modeling is to obtain an optimum feature set to use for the classification process. This study proposes an approach for emotional state classification by the investigation of EEG signals via multivariate synchrosqueezing transform (MSST). MSST is a post-processing technique to compose a localized time-frequency representation yielding multivariate syncyrosqueezing coefficients. After obtaining these coefficients from EEG signals for 18 subjects from DEAP dataset, coefficients and self-assessment-mannequins (SAM) labels of those subjects are used for emotional state classification by using support vector machines (SVM) nearest neighbor, decision tree, and ensemble methods. The accuracy rate is 70.6% for high valence high arousal (HVHA), 75.4% for low valence high arousal (LVHA), 77.8% for high valence low arousal (HVLA), and 77.2% for low valence low arousal (LVLA) cases using SVM. © 2019 Elsevier B.V., All rights reserved.
Emotion Elicitation Analysis in Multi-Channel EEG Signals Using Multivariate Empirical Mode Decomposition and Discrete Wavelet Transform
(IEEE, 2017) Ozel, Pinar; Akan, Aydin; Yilmaz, Bulent; 01. Abdullah Gül University
In recent years, wavelet-based, Fourier-based and Hilbert-based time-frequency methods attracted attention in emotion state classification studies in human machine interaction. In particular, the Hilbert-based Empirical Mode Decomposition and Wavelet-based Discrete Wavelet Transform have found applications in emotional state analysis. In this study, a model of emotional elicitation is proposed in which the classification is made by using the features of the wavelet coefficients obtained after applying the Discrete Wavelet Transform to IMFs achieved by using Multivariate Empirical Mode Decomposition. Accordingly, EEG data available in the DEAP database were classified as low / high for valence, activation, and dominance dimensions, and 4 different classifiers were used in the classification phase. The best ratios of valence, activation and dominance were obtained ideally 70.1%, 58.8%, 60.3% respectively.