Scopus İndeksli Yayınlar Koleksiyonu / Scopus Indexed Publications Collection

Permanent URI for this collectionhttps://hdl.handle.net/11147/7148

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  • Article
    Citation - Scopus: 19
    Feature Selection Has a Large Impact on One-Class Classification Accuracy for Micrornas in Plants
    (Hindawi Publishing Corporation, 2016) Yousef, Malik; Demirci, Müşerref Duygu Saçar; Khalifa, Waleed; Allmer, Jens
    MicroRNAs (miRNAs) are short RNA sequences involved in posttranscriptional gene regulation. Their experimental analysis is complicated and, therefore, needs to be supplemented with computational miRNA detection. Currently computational miRNA detection is mainly performed using machine learning and in particular two-class classification. For machine learning, the miRNAs need to be parametrized and more than 700 features have been described. Positive training examples for machine learning are readily available, but negative data is hard to come by. Therefore, it seems prerogative to use one-class classification instead of two-class classification. Previously, we were able to almost reach two-class classification accuracy using one-class classifiers. In this work, we employ feature selection procedures in conjunction with one-class classification and show that there is up to 36% difference in accuracy among these feature selection methods. The best feature set allowed the training of a one-class classifier which achieved an average accuracy of 95.6% thereby outperforming previous two-class-based plant miRNA detection approaches by about 0.5%. We believe that this can be improved upon in the future by rigorous filtering of the positive training examples and by improving current feature clustering algorithms to better target pre-miRNA feature selection.
  • Article
    Citation - WoS: 2
    Citation - Scopus: 9
    Germination Physiology and Autecology of Centaurea Kilaea Boiss. From Turkey
    (Penerbit Universiti Kebangsaan Malaysia, 2013) Eskin, B.; Özyiğit, İbrahim İlker; Doğan, İlhan; Altay, V.; Demir, G.; Serin, M.
    In this study germination requirements, plant-soil interactions and population biology of Centaurea kilaea was studied. The plant and soil samples were collected from Sofular Village (Sile District) and shore of Çatalca District (Istanbul) in Turkey by using standard methods. Methods like Scheibler, Wetdigestion, Kjeldahl and Olsen were employed for measurement of soil texture, structure and other physical and chemical characteristics (pH, total protein and electrical conductivity) using spectrophotometer, flame photometer, calcimeter and ICP. The results showed that ranges of different elements in the soil were 0.007-0.2% for N, 0.0007-0.001% for P, 0.001-0.01% for K, 0.0001-0.0002 % for Na. N, P, K and Na values in the plants were 2.17, 0.005, 0.1 and 0.006%, respectively. The data revealed that germination success of the seeds was influenced by the environmental factors such as pH, germination season and temperature.