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Yayın Implicit theories and self-efficacy in an introductory programming course(Institute of Electrical and Electronics Engineers Inc, 2018-08) Tek, Faik Boray; Benli, Kristin Surpuhi; Deveci, EzgiContribution: This paper examined student effort and performance in an introductory programming course with respect to student-held implicit theories and self-efficacy. Background: Implicit theories and self-efficacy help in understanding academic success, which must be considered when developing effective learning strategies for programming.Research Questions: Are implicit theories of intelligence and programming, and programming-efficacy, related to each other and to student success in programming? Is it possible to predict student performance in a course using these constructs? Methodology: Two consecutive surveys ({N}=100 and {N}=81) were administered to non-CS engineering students in Işik University, Turkey. Findings: Implicit theories of programming-aptitude and programming-efficacy are interrelated and positively correlated with effort, performance, and previous failures in the course. Although it was not possible to predict student course grade the data confirms that students who believe in improvable programming aptitude have significantly higher programming efficacy, report more effort, and get higher course grades. In addition, failed students tend to associate the failure with fixed programming aptitude; repeating students favor fixed programming aptitude theory and have lower programming-efficacy, which increases the possibility of further failure.Yayın Assessment of algorithms for mitosis detection in breast cancer histopathology images(Elsevier Science BV, 2015-02) Veta, Mitko; Van Diest, Paul J.; Willems, Stefan Martin; Wang, Haibo; Madabhushi, Anant; Cruz-Roa, Angel; Gonzalez, Fabio; Larsen, Anders Boesen Lindbo; Vestergaard, Jacob Schack Chack; Dahl, Anders Bjorholm; Cireşan, Dan Claudiu; Schmidhuber, Jürgen U.; Giusti, Alessandro; Gambardella, Luca M.; Tek, Faik Boray; Walter, Thomas C.; Wang, Chingwei; Kondo, Satoshi; Matuszewski, Bogdan J.; Precioso, Frédéric; Snell, Violet; Kittler, Josef; De Campos, Teofilo E.; Khan, Adnan M.; Rajpoot, Nasir Mahmood; Arkoumani, Evdokia; Lacle, Miangela M.; Viergever, Max A.; Pluim, Josien P WThe proliferative activity of breast tumors, which is routinely estimated by counting of mitotic figures in hematoxylin and eosin stained histology sections, is considered to be one of the most important prognostic markers. However, mitosis counting is laborious, subjective and may suffer from low inter-observer agreement. With the wider acceptance of whole slide images in pathology labs, automatic image analysis has been proposed as a potential solution for these issues.In this paper, the results from the Assessment of Mitosis Detection Algorithms 2013 (AMIDA13) challenge are described. The challenge was based on a data set consisting of 12 training and 11 testing subjects, with more than one thousand annotated mitotic figures by multiple observers. Short descriptions and results from the evaluation of eleven methods are presented. The top performing method has an error rate that is comparable to the inter-observer agreement among pathologists.Yayın Adaptive convolution kernel for artificial neural networks(Academic Press Inc., 2021-02) Tek, Faik Boray; Çam, İlker; Karlı, DenizMany deep neural networks are built by using stacked convolutional layers of fixed and single size (often 3 × 3) kernels. This paper describes a method for learning the size of convolutional kernels to provide varying size kernels in a single layer. The method utilizes a differentiable, and therefore backpropagation-trainable Gaussian envelope which can grow or shrink in a base grid. Our experiments compared the proposed adaptive layers to ordinary convolution layers in a simple two-layer network, a deeper residual network, and a U-Net architecture. The results in the popular image classification datasets such as MNIST, MNIST-CLUTTERED, CIFAR-10, Fashion, and ‘‘Faces in the Wild’’ showed that the adaptive kernels can provide statistically significant improvements on ordinary convolution kernels. A segmentation experiment in the Oxford-Pets dataset demonstrated that replacing ordinary convolution layers in a U-shaped network with 7 × 7 adaptive layers can improve its learning performance and ability to generalize.Yayın Robust localization and identification of African clawed frogs in digital images(Elsevier Science BV, 2014-09) Tek, Faik Boray; Cannavo, Flavio; Nunnari, Giuseppe; Kale, İzzetWe study the automatic localization and identification of African clawed frogs (Xenopus laevis sp.) in digital images taken in a laboratory environment. We propose a novel and stable frog body localization and skin pattern window extraction algorithm. We show that it compensates scale and rotation changes very well. Moreover, it is able to localize and extract highly overlapping regions (pattern windows) even in the cases of intense affine transformations, blurring, Gaussian noise, and intensity transformations. The frog skin pattern (i.e. texture) provides a unique feature for the identification of individual frogs. We investigate the suitability of five different feature descriptors (Gabor filters, area granulometry, HoG,(1) dense SIFT,(2) and raw pixel values) to represent frog skin patterns. We compare the robustness of the features based on their identification performance using a nearest neighbor classifier. Our experiments show that among five features that we tested, the best performing feature against rotation, scale, and blurring modifications was the raw pixel feature, whereas the SIFT feature was the best performing one against affine and intensity modifications.Yayın An adaptive locally connected neuron model: Focusing neuron(Elsevier B.V., 2021-01-02) Tek, Faik BorayThis paper presents a new artificial neuron model capable of learning its receptive field in the topological domain of inputs. The experiments include tests of focusing neuron networks of one or two hidden layers on synthetic and well-known image recognition data sets. The results demonstrated that the focusing neurons can move their receptive fields towards more informative inputs. In the simple two-hidden layer networks, the focusing layers outperformed the dense layers in the classification of the 2D spatial data sets. Moreover, the focusing networks performed better than the dense networks even when 70% of the weights were pruned. The tests on convolutional networks revealed that using focusing layers instead of dense layers for the classification of convolutional features may work better in some data sets.Yayın Adaptive locally connected recurrent unit (ALCRU)(Springer Science and Business Media Deutschland GmbH, 2025-07-03) Özçelik, Şuayb Talha; Tek, Faik BorayResearch has shown that adaptive locally connected neurons outperform their fully connected (dense) counterparts, motivating this study on the development of the Adaptive Locally Connected Recurrent Unit (ALCRU). ALCRU modifies the Simple Recurrent Neuron Model (SimpleRNN) by incorporating spatial coordinate spaces for input and hidden state vectors, facilitating the learning of parametric local receptive fields. These modifications add four trainable parameters per neuron, resulting in a minor increase in computational complexity. ALCRU is implemented using standard frameworks and trained with back-propagation-based optimizers. We evaluate the performance of ALCRU using diverse benchmark datasets, including IMDb for sentiment analysis, AdditionRNN for sequence modelling, and the Weather dataset for time-series forecasting. Results show that ALCRU achieves accuracy and loss metrics comparable to GRU and LSTM while consistently outperforming SimpleRNN. In particular, experiments with longer sequence lengths on AdditionRNN and increased input dimensions on IMDb highlight ALCRU’s superior scalability and efficiency in processing complex data sequences. In terms of computational efficiency, ALCRU demonstrates a considerable speed advantage over gated models like LSTM and GRU, though it is slower than SimpleRNN. These findings suggest that adaptive local connectivity enhances both the accuracy and efficiency of recurrent neural networks, offering a promising alternative to standard architectures.Yayın Automated diagnosis of Alzheimer’s Disease using OCT and OCTA: a systematic review(Institute of Electrical and Electronics Engineers Inc., 2024-08-06) Turkan, Yasemin; Tek, Faik Boray; Arpacı, Fatih; Arslan, Ozan; Toslak, Devrim; Bulut, Mehmet; Yaman, AylinRetinal optical coherence tomography (OCT) and optical coherence tomography angiography (OCTA) have emerged as promising, non-invasive, and cost-effective modalities for the early diagnosis of Alzheimer's disease (AD). However, a comprehensive review of automated deep learning techniques for diagnosing AD or mild cognitive impairment (MCI) using OCT/OCTA data is lacking. We addressed this gap by conducting a systematic review using the Preferred Reporting Items for Systematic Review and Meta-Analysis (PRISMA) guidelines. We systematically searched databases, including Scopus, PubMed, and Web of Science, and identified 16 important studies from an initial set of 4006 references. We then analyzed these studies through a structured framework, focusing on the key aspects of deep learning workflows for AD/MCI diagnosis using OCT-OCTA. This included dataset curation, model training, and validation methodologies. Our findings indicate a shift towards employing end-to-end deep learning models to directly analyze OCT/OCTA images in diagnosing AD/MCI, moving away from traditional machine learning approaches. However, we identified inconsistencies in the data collection methods across studies, leading to varied outcomes. We emphasize the need for longitudinal studies on early AD and MCI diagnosis, along with further research on interpretability tools to enhance model accuracy and reliability for clinical translation.Yayın TURSpider: a Turkish Text-to-SQL dataset and LLM-based study(Institute of Electrical and Electronics Engineers Inc., 2024-11-25) Kanburoğlu, Ali Buğra; Tek, Faik BorayThis paper introduces TURSpider, a novel Turkish Text-to-SQL dataset developed through human translation of the widely used Spider dataset, aimed at addressing the current lack of complex, cross-domain SQL datasets for the Turkish language. TURSpider incorporates a wide range of query difficulties, including nested queries, to create a comprehensive benchmark for Turkish Text-to-SQL tasks. The dataset enables cross-language comparison and significantly enhances the training and evaluation of large language models (LLMs) in generating SQL queries from Turkish natural language inputs. We fine-tuned several Turkish-supported LLMs on TURSpider and evaluated their performance in comparison to state-of-the-art models like GPT-3.5 Turbo and GPT-4. Our results show that fine-tuned Turkish LLMs demonstrate competitive performance, with one model even surpassing GPT-based models on execution accuracy. We also apply the Chain-of-Feedback (CoF) methodology to further improve model performance, demonstrating its effectiveness across multiple LLMs. This work provides a valuable resource for Turkish NLP and addresses specific challenges in developing accurate Text-to-SQL models for low-resource languages.
