Scopus İndeksli Yayınlar Koleksiyonu / Scopus Indexed Publications Collection
Permanent URI for this collectionhttps://hdl.handle.net/11147/7148
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Article Citation - WoS: 3Citation - Scopus: 4Application of the Law of Minimum and Dissimilarity Analysis To Regression Test Case Prioritization(IEEE, 2023) Ufuktepe, Ekincan; Tuğlular, TuğkanRegression testing is one of the most expensive processes in testing. Prioritizing test cases in regression testing is critical for the goal of detecting the faults sooner within a large set of test cases. We propose a test case prioritization (TCP) technique for regression testing called LoM-Score inspired by the Law of Minimum (LoM) from biology. This technique calculates the impact probabilities of methods calculated by change impact analysis with forward slicing and orders test cases according to LoM. However, this ordering doesn't consider the possibility that consecutive test cases may be covering the same methods repeatedly. Thereby, such ordering can delay the time of revealing faults that exist in other methods. To solve this problem, we enhance the LoM-Score TCP technique with an adaptive approach, namely with a dissimilarity-based coordinate analysis approach. The dissimilarity-based coordinate analysis uses Jaccard Similarity for calculating the similarity coefficients between test cases in terms of covered methods and the enhanced technique called Dissimilarity-LoM-Score (Dis-LoM-Score) applies a penalty with respective on the ordered test cases. We performed our case study on 10 open-source Java projects from Defects4J, which is a dataset of real bugs and an infrastructure for controlled experiments provided for software engineering researchers. Then, we hand-seeded multiple mutants generated by Major, which is a mutation testing tool. Then we compared our TCP techniques LoM-Score and Dis-LoM-Score with the four traditional TCP techniques based on their Average Percentage of Faults Detected (APFD) results.Article Alteration of Protein Localization and Intracellular Calcium Content Due To Connexin26 D50a and A88v Mutations(Türk Biyokimya Derneği, 2017) Aypek, Hande; Meşe, GülistanIntroduction: Connexins (Cx) play essential roles in cellular homeostasis by forming gap junctions and non-junctional hemichannels. In vitro characterization of Cx26 mutations causing keratitis-ichthyosis-deafness (KID) syndrome, were shown to form leaky hemichannels. The molecular/ cellular mechanisms affected by aberrant hemichannels have recently been elucidated. Here, we further wanted to characterize Cx26 KID syndrome mutations, D50A and A88V, which were shown to form aberrant hemichannels and remained unaddressed in the literature. Methods: Neurobiotin uptake assay in HeLa and N2A cells transfected with Cx26-WT, D50A or A88V verified the presence of aberrant hemichannels and immunofluorescent staining with fluorescent microscopy determined cellular localization of Cx26. Finally, intracellular calcium content was examined by using calcium indicator, Fluo-3AM, and flow cytometer. Results: Cx26-D50A and A88V mutations prevented the formation of gap junction plaques at cell-cell appositions and mutant proteins were observed to localize to the Golgi apparatus. Further, comparison of intracellular calcium content showed an increase in calcium amount in cells containing Cx26-D50A and A88V relative to Cx26-WT. Conclusion: Retention of Cx26 in the Golgi apparatus and alteration in the intracellular calcium content due to KID syndrome mutations may influence various cellular processes that might contribute to development of epidermal phenotypes.Article Citation - WoS: 23Citation - Scopus: 24Pathological Hemichannels Associated With Human Cx26 Mutations Causing Keratitis-Ichthyosis Syndrome(Elsevier Ltd., 2012) Levit, Noah A.; Meşe Özçivici, Gülistan; Meşe, Gülistan; Meşe Özçivici, Gülistan; Basaly, Mena George R.; White, Thomas W.Abstract Connexin (Cx) proteins form intercellular gap junction channels by first assembling into single membrane hemichannels that then dock to connect the cytoplasm of two adjacent cells. Gap junctions are highly specialized structures that allow the direct passage of small molecules between cells to maintain tissue homeostasis. Functional activity of nonjunctional hemichannels has now been shown in several experimental systems. Hemichannels may constitute an important diffusional exchange pathway with the extracellular space, but the extent of their normal physiological role is currently unknown. Aberrant hemichannel activity has been linked to mutations of connexin proteins involved in genetic diseases. Here, we review a proposed role for hemichannels in the pathogenesis of Keratitis-Ichthyosis-Deafness (KID) syndrome associated with connexin26 (Cx26) mutations. Continued functional evaluation of mutated hemichannels linked to human hereditary disorders may provide additional insights into the mechanisms governing their regulation in normal physiology and dysregulation in disease. This article is part of a Special Issue entitled: The Communicating junctions, composition, structure and characteristics. © 2011 Elsevier B.V.Article Citation - WoS: 24Citation - Scopus: 24GA-optimized model predicts dispersion coefficient in natural channels(IWA Publishing, 2009) Tayfur, GökmenModels whose parameters were optimized by genetic algorithm (GA) were developed to predict the longitudinal dispersion coefficient in natural channels. Following the existing equations in the literature, ten different linear and nonlinear models were first constructed. The models relate the dispersion coefficient to flow and channel characteristics. The GA model was then employed to find the optimal values of the constructed model parameters by minimizing the mean absolute error function (objective function). The GA model utilized an 80% cross-over rate and 4% mutation rate. It started each computation with a population of 100 chromosomes in the gene pool. For each model, while minimizing the objective function, the values of the model parameters were constrained between [-10, +10] at each iteration. The optimal values of the model parameters were obtained using a calibration set of 54 out of 80 sets of measured data. The minimum error was obtained for the case where the model was a linear equation relating dispersion coefficient to flow discharge. The model performance was then satisfactorily tested against the remaining 26 measured validation datasets. It performed better than the existing equations. it yielded minimum errors of MAE = 21.4m2/s (mean absolute error) and RMSE = 28.5m2/s (root mean-squares error) and a maximum accuracy rate of 81%. © IWA Publishing 2009.