Scopus İndeksli Yayınlar Koleksiyonu
Permanent URI for this collectionhttps://hdl.handle.net/20.500.12573/395
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Article Citation - WoS: 2Citation - Scopus: 2Structural Profile Matrices for Predicting Structural Properties of Proteins(World Scientific Publ Co Pte Ltd, 2020-07-10) Azginoglu, Nuh; Aydin, Zafer; Celik, MetePredicting structural properties of proteins plays a key role in predicting the 3D structure of proteins. In this study, new structural profile matrices (SPM) are developed for protein secondary structure, solvent accessibility and torsion angle class predictions, which could be used as input to 3D prediction algorithms. The structural templates employed in computing SPMs are detected by eight alignment methods in LOMETS server, gap affine alignment method, ScanProsite, PfamScan, and HHblits. The contribution of each template is weighted by its similarity to target, which is assessed by several sequence alignment scores. For comparison, the SPMs are also computed using Homolpro, which uses BLAST for target template alignments and does not assign weights to templates. Incorporating the SPMs into DSPRED classifier, the prediction accuracy improves significantly as demonstrated by cross-validation experiments on two difficult benchmarks. The most accurate predictions are obtained using the SPMs derived by threading methods in LOMETS server. On the other hand, the computational cost of computing these SPMs was the highest.Article Citation - WoS: 6Citation - Scopus: 8Dimensionality Reduction for Protein Secondary Structure and Solvent Accesibility Prediction(World Scientific Publ Co Pte Ltd, 2018-10) Aydin, Zafer; Kaynar, Oguz; Gormez, YasinSecondary structure and solvent accessibility prediction provide valuable information for estimating the three dimensional structure of a protein. As new feature extraction methods are developed the dimensionality of the input feature space increases steadily. Reducing the number of dimensions provides several advantages such as faster model training, faster prediction and noise elimination. In this work, several dimensionality reduction techniques have been employed including various feature selection methods, autoencoders and PCA for protein secondary structure and solvent accessibility prediction. The reduced feature set is used to train a support vector machine at the second stage of a hybrid classifier. Cross-validation experiments on two difficult benchmarks demonstrate that the dimension of the input space can be reduced substantially while maintaining the prediction accuracy. This will enable the incorporation of additional informative features derived for predicting the structural properties of proteins without reducing the accuracy due to overfitting.Article Citation - WoS: 4Citation - Scopus: 4Camera-Based Wildfire Smoke Detection for Foggy Environments(SPIE - Society of Photo-Optical Instrumentation Engineers, 2022-10-27) Tas, Merve; Tas, Yusuf; Balki, Oguzhan; Aydin, Zafer; Tasdemir, Kasim; Aydln, ZaferSmoke is the first visible sign of forest fires and the most commonly used feature for early forest fire detection using data from cameras. However, one of the natural challenges is the dense fog that appears in forests, which decreases the detection accuracy or triggers false alarms. In this study, we propose a system with a deep neural network-based image preprocessing approach that significantly improves the smoke segmentation and classification performance by dehazing the camera view. Our experimental results provide that the classification models reach 99% F1 score for the correct classification of smoke when the image dehazing method is used before the training process. The smoke localization system achieves 60% average precision when the mask region-based convolutional neural network is used with the ResNet101-FPN backbone. The proposed approach can be utilized for all smoke segmentation frameworks to increase fire detection performance. (c) 2022 SPIE and IS&T