Now showing items 1-5 of 5

    • Data and model driven hybrid approach to activity scoring of cyclic pathways 

      Işık, Z.; Atalay V.; Aykanat, Cevdet; Çetin-Atalay, Rengül (Springer, Dordrecht, 2010)
      Analysis of large scale -omics data based on a single tool remains inefficient to reveal molecular basis of cellular events. Therefore, data integration from multiple heterogeneous sources is highly desirable and required. ...
    • Examining the annealing schedules for RNA design algorithm 

      Erhan, H. E.; Sav, Sinem; Kalashnikov, S.; Tsang, H. H. (IEEE, 2016-07)
      RNA structures are important for many biological processes in the cell. One important function of RNA are as catalytic elements. Ribozymes are RNA sequences that fold to form active structures that catalyze important ...
    • Modular logic gates: cascading independent logic gates via metal ion signals 

      Ecik, E. T.; Atilgan, A.; Guliyev, R.; Uyar, T. B.; Gumus, A.; Akkaya, E. U. (Royal Society of Chemistry, 2014)
      Systematic cascading of molecular logic gates is an important issue to be addressed for advancing research in this field. We have demonstrated that photochemically triggered metal ion signals can be utilized towards that ...
    • SIMARD: a simulated annealing based RNA design algorithm with quality pre-selection strategies 

      Sav, Sinem; Hampson, D. J. D.; Tsang, H. H. (IEEE, 2017-12)
      Most of the biological processes including expression levels of genes and translation of DNA to produce proteins within cells depend on RNA sequences, and the structure of the RNA plays vital role for its function. RNA ...
    • Stability analysis of a dynamical model representing gene regulatory networks 

      Ahsen, M. E.; Özbay, Hitay; Niculescu, S. I. (2012)
      In this paper we perform stability analysis of a class of cyclic biological processes involving time delayed feedback. More precisely, we analyze the genetic regulatory network having nonlinearities with negative Schwarzian ...