M.S. Theses: Recent submissions

  • Tem-1 β-lactamase activity in the presence of blip in cellular environments 
    Ceylan, Celal. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2010., 2010.)
    β-lactams are an important class of antibiotics used in the treatment of various infections. These antibiotics are the most widely utilized by virtue of their high efficacy, low cost and safety profile. This widespread, ...
  • Investigation of crosstalk between Wnt and Hedgehog signaling pathways 
    Eren, Aysun. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2010., 2010.)
    In the last few years, an intense interest is being shown in the evolutionarily conserved signaling pathways which have crucial roles during embryonic development. The most intriguing factor behind this interest is that ...
  • Design, construction and testing of a lab scale fuel processor prototype for dynamic performance studies 
    Başar, Melek Selcen. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2010., 2010.)
    The aim of this study is to design, construct and test a fuel processor prototype for catalyst performance studies under steady-state and dynamic operation conditions. The propane fuel processor consisted of a main oven ...
  • Investigation of PTP1B activation mechanism computational methods 
    Özkaral, Burcu. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2010., 2010.)
    Protein tyrosine phosphatase 1B (PTP1B) is a negative regulator of insulin and leptin signaling, and is a major molecular target for the treatment of type II diabetes and obesity. WPD loop is a key element in the mechanism ...
  • An experimental study on design and development of efficient catalysts for dry reforming of methane (CDRM) 
    Paksoy, Aysun İpek. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2010., 2010.)
    The overall purpose of this research study is to design and develop effective Cobased bimetallic catalyst supported on zirconia for the production of synthesis gas via CO2 reforming of methane (CDRM). In order to increase ...
  • A study on protein conformational transitions by Monte Carlo simulations 
    Aydın, Bahar. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2010., 2010.)
    Exploration of conformational transitions between two different conformational states of proteins reveals significant information about their action mechanism and function. In this thesis, the recently developed anisotropic ...
  • Tagging proteins: sumoylation mechanism by molecular modeling and molecular dynamics simulations 
    Korkmaz, Elif Nihal. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2010., 2010.)
    Sumoylation, the covalent attachment of SUMO (Small Ubiquitin Like Modifier) to target proteins is a posttranslational modification that can alter intracellular localization, interactions with other proteins or result in ...
  • Identification of key transcription factors in glucose sensing pathway in Saccharomyces Cerevisiae 
    Alazi, Ebru. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2010., 2010.)
    In this study, a genome-scale transcriptional regulatory network (TRN) in S. cerevisiae was constructed and integrated with the transcriptome data available in literature for the mutants of the glucose signaling pathway ...
  • Investigation of the relationship between sphingolipid and insulin signaling pathways 
    Karagöz, Kübra Büyükyanbolu. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2010., 2010.)
    Sphingolipids are the membrane lipids which have significant roles in signal transduction as second messengers and in regulatory pathways including cell cycle arrest, apoptosis, senescence and differentiation. Ceramide ...
  • Computational prediction of protein-protein interactions in sphingolipid signaling network 
    Güngörmez, Yasemen. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2010., 2010.)
    Proteins carry out most of the work in the cell such as immunological recognition, DNA repair and replication, enzymatic activity, cell signaling by interacting with other proteins. Therefore deciphering protein-protein ...
  • An experimental study on Pt-based bimetallic oxidative steam reforming (OSR) catalysts 
    Göçmen, Bayram Ali. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2009., 2010.)
    In the current study, Pt-Ni/Al2O3 system was optimized for catalytic hydrogen production via oxidative steam reforming of propane. Oxidative steam reforming of propane was tested over four Pt-Ni/d-Al2O3 bimetallic and one ...
  • Application of data envelopment analysis to chemical engineering 
    Ergün, Gökay Serdar. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2010., 2010.)
    Data Envelopment Analysis (DEA) is a method for measuring relative efficiencies of Decision Making Units (DMUs). DEA is used to rank the DMUs according to their relative efficiencies. For the last three decades, there have ...
  • Available energy analysis of a petroleum refinery 
    Erkan, Deniz. (Thesis (M.S.)- Bogazici University. Institute for Graduate Studies in Science and Engineering, 1984., 1984.)
    The aim of this thesis is to examine the concept of available energy (availability) as applied to a petroleum refinery. For this purpose two different parts of the refinery were investigated. The first part, namely the ...
  • Investigation of in-vivo inhibition of β-lactamase by β-lactamase inhibitor protein 
    Akkaya, Ayşe Ezgi. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2010., 2010.)
    β-lactam antibiotics, which target transpeptidase enzymes that synthesize the bacterial cell wall, are the most widely utilized antimicrobial agents. However owing to the widespread usage, bacteria acquire resistance to ...
  • Comparative analysis of teafs and NP analysis to integrate interactome and transcriptome data to reveal response to C-pulse in Saccharomyces Cerevisiae 
    Karabekmez, Muhammed Erkan. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2010., 2010.)
    Sudden glucose introduction to S. cerevisiae cells grown in carbon limited medium triggers a complex response mechanism. Time series expression data can be used to identify differentially active genes after the C-pulse. ...
  • Parametric analysis of Fischer-Tropsch synthesis in a catalytic microchannel reactor 
    Gümüşlü, Gamze. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2010., 2010.)
    Fischer-Tropsch synthesis (FTS) is the catalytic conversion of synthesis gas, which is a mixture of carbon monoxide and hydrogen, to a wide range of synthetic fuels that can replace their petroleum-driven counterparts. FTS ...
  • Construction and testing of a bench- scale reactor system for autothermal reforming of methane 
    Öztürk, İlker. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2009., 2009.)
    The major aim of this study was the construction and testing of a bench-scale reactor system suitable for studying the steam reforming (SR) and auto-thermal reforming (ATR) of methane to produce clean hydrogen with high ...
  • Effectsof rapamycin and caffeine on TOR signaling pathway in Saccharomyces cerevisiae 
    Kuzu, Güray. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2009., 2009.)
    The aim of this study is to understand the effect of caffeine and rapamycin on the growth of yeast cells and identify flux changes in the presence of these chemicals in yeast. The repression effect of different concentrations ...
  • Reconstruction of cardiomyocyte energy metabolism and investigation of the healthy and disease cases by metabolic engineering techniques 
    Filiz, Çiğdem. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2009., 2009.)
    In the present study, a reaction network of the cardiomyocyte energy metabolism is reconstructed by extensive literature survey and using the information obtained from the online databases of Kyoto Encyclopedia of Genes ...
  • Bistability analysis of an apoptosis model in the presence of nitric oxide 
    Şen, Sercan Murat. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2009., 2009.)
    Apoptosis, or programmed cell death, is a normal component of the development and healthy functioning of multicellular organisms. In apoptosis, cells die in response to a variety of stimuli in controlled and regulated ways. ...

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