Browsing by Author "Karaca, E."

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    Architecture of a grid-enabled Web search engine
    (Elsevier Ltd, 2007) Cambazoglu, B. B.; Karaca, E.; Kucukyilmaz T.; Turk, A.; Aykanat, Cevdet
    Search Engine for South-East Europe (SE4SEE) is a socio-cultural search engine running on the grid infrastructure. It offers a personalized, on-demand, country-specific, category-based Web search facility. The main goal of SE4SEE is to attack the page freshness problem by performing the search on the original pages residing on the Web, rather than on the previously fetched copies as done in the traditional search engines. SE4SEE also aims to obtain high download rates in Web crawling by making use of the geographically distributed nature of the grid. In this work, we present the architectural design issues and implementation details of this search engine. We conduct various experiments to illustrate performance results obtained on a grid infrastructure and justify the use of the search strategy employed in SE4SEE. © 2006 Elsevier Ltd. All rights reserved.
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    Cryogenic X-ray crystallographic studies of biomacromolecules at Turkish light source "Turkish DeLight"
    (TÜBİTAK, 2023-01-01) Atalay, N.; Akcan, E. K.; Gül, M.; Ayan, E.; Destan, E.; Ertem, F. B.; Tokay, N.; Çakılkaya, B.; Nergiz, Z.; Karakadıoğlu, G.; Kepçeoğlu, A.; Yapıcı, İ.; Tosun, B.; Baldır, N.; Yıldırım, G.; Johnson, J. A.; Güven, Ö.; Shafiei, A.; Arslan, N. E.; Yılmaz, M.; Kulakman, C.; Paydos, S. S.; Çinal, Zeynep Sena; Şabanoğlu, K.; Pazarçeviren, A.; Yılmaz, A.; Canbay, B.; Aşcı, B.; Kartal, E.; Tavlı, S.; Çalıseki, M.; Göç, G.; Mermer, A.; Yeşilay, G.; Altuntaş, S.; Tateishi, H.; Otsuka, M.; Fujita, M.; Tekin, Ş.; Çiftçi, H.; Durdağı, S.; Dinler Doğanay, G.; Karaca, E.; Kaplan Türköz, B.; Kabasakal, B. V.; Katı, A.; Demirci, H.
    X-ray crystallography is a robust and powerful structural biology technique that provides high-resolution atomic structures of biomacromolecules. Scientists use this technique to unravel mechanistic and structural details of biological macromolecules (e.g., proteins, nucleic acids, protein complexes, protein-nucleic acid complexes, or large biological compartments). Since its inception, single-crystal cryocrystallography has never been performed in Türkiye due to the lack of a single-crystal X-ray diffractometer. The X-ray diffraction facility recently established at the University of Health Sciences, İstanbul, Türkiye will enable Turkish and international researchers to easily perform high-resolution structural analysis of biomacromolecules from single crystals. Here, we describe the technical and practical outlook of a state-of-the-art home-source X-ray, using lysozyme as a model protein. The methods and practice described in this article can be applied to any biological sample for structural studies. Therefore, this article will be a valuable practical guide from sample preparation to data analysis.