Browsing M.S. Theses by Title

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  • Identification of allosteric AKT inhibitors by computational methods 
    Gürsoy Yılmaz, Oya. (Thesis (M.S.) - Bogazici University. Institute for Graduate Studies in Science and Engineering, 2013., 2013.)
    AKT kinases are known to be major contributors to the development of many human cancers according to preclinical data and studies of tumor specimens. Design and development of small molecule inhibitors targeting AKT and ...
  • Identification of drug targets towards prostate canser 
    Esvap, Elif. (Thesis (M.S.) - Bogazici University. Institute for Graduate Studies in Science and Engineering, 2018., 2018.)
    Prostate cancer (Pca) is one of the leading cause of cancer deaths and second common cancer type in men. Identifying novel diagnostics and drug targets specific for Pca is critical since early detection and treatment are ...
  • 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 ...
  • Identification of native conformations of proteins using a low resolution model 
    Özkan, Ş. Banu. (Thesis (M.S.) - Bogazici University. Institute for Graduate Studies in Sciences and Engineering, 1997., 1997.)
    Exhaustive enumeration is performed by using a low resolution model. The secondary structure elements of the proteins are kept as rigid blocks. Large ensembles of decoy structures are generated by rotating the virtual ...
  • Identification of perturbation-responsive key transcription factors in transcriptional regulatory networks 
    Kınıkoğlu, Fatma Beste. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2006., 2006.)
    In eukaryotic cells, most genes are found to be regulated by various temporary andpermanent transcription factors whose activity levels change as response to perturbations.Discovering the underlying mechanism of complex ...
  • Identification of PTP1B dynamics using frequency response analysis 
    Eren, Dilek. (Thesis (M.S.) - Bogazici University. Institute for Graduate Studies in Science and Engineering, 2012., 2012.)
    Protein tyrosine phosphatase 1B (PTP1B) plays a key role as negative regulator of insulin and leptin signaling. In human PTP1B, a significant conformation change is seen in the WPD loop from open (inactive) to closed ...
  • Identification of the relations between synthesis conditions and compressive strength in geopolymer systems via statistical learning methods 
    Köse, Kadriye Deniz. (Thesis (M.S.) - Bogazici University. Institute for Graduate Studies in Science and Engineering, 2019., 2019.)
    Geopolymers are inorganic amorphous materials, which can be used in construction industry, and their production is characterized by low CO2 emission. Compressive strength (CS) is a durability measure, which, in the case ...
  • Identification of TPX inhibitors against pathogen-host interactions 
    Deniz, Utku. (Thesis (M.S.) - Bogazici University. Institute for Graduate Studies in Science and Engineering, 2014., 2014.)
    Antibiotic resistance is a major health issue as due to the emergence of multidrug resistant bacteria. Thus, there is an increasing need for the identification of new drug targets and discovery of novel scaffolds in the ...
  • In silico analysis of neutral sphingomyelinase 2 
    Yağcı, Zarife Begüm. (Thesis (M.S.) - Bogazici University. Institute for Graduate Studies in Science and Engineering, 2018., 2018.)
    Neutral sphingomyelinase 2 (nSMase2) is an important sphingolipid metabolism enzyme that generates ceramide through the hydrolysis of sphingomyelin (SM) present in the plasma membrane. It has been suggested as a therapeutic ...
  • In silico determination of protein complexes in yeast 
    Karabıyık, Hilal Candan. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2008., 2008.)
    In this thesis, the protein complexes in an interaction network of 20,487 interactions between 4,944 proteins were determined by the integration of different biological datasets. We recruit different data sources that ...
  • Integrated analysis of drug resistance in Saccharomyces Cerevisiae identification of key transcription factors involved in drug resistance 
    Öç, Şebnem. (Thesis (M.S.) - Bogazici University. Institute for Graduate Studies in Science and Engineering, 2011., 2011.)
    In this study, the transcriptome data from the three homozygous deletion mutants, Δqdr3/Δqdr3, Δpdr3/ Δpdr3, and Δho/Δho, of Saccharomyces cerevisiae grown in glucose or ammonium limited continuous cultures were investigated ...
  • Integrated neurovascular coupling (NVC) model: an fNIRS study on migraine 
    Taşdöğen, Selin. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2007., 2007.)
    Functional imaging techniques play a major role in monitoring the changes in brain hemodynamics. Migraine is one of the weirdest illnesses that have ever been described. It does not leave any symptom in patients like the ...
  • Integration of interactome and transcriptome data to reveal glucose repression pathway in Saccharomyces Cerevisiae 
    Hasdemir, Dicle. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2008., 2008.)
    Due to glucose’s role as a primary signaling molecule, a change in glucose level immediately stimulates certain elements of the glucose sensing and signaling pathway. This stimulation of the pathway activates the associated ...
  • Intensified dimethyl ether production from synthesis gas with CO2 
    Öztürk, Nusret Furkan. (Thesis (M.S.) - Bogazici University. Institute for Graduate Studies in Science and Engineering, 2019., 2019.)
    Catalytic conversion of syngas to dimethyl ether (DME) is modeled in a mi crochannel reactor comprised of horizontal groups of rectangular shaped cooling and catalyst washcoated reaction channels involving counter–current ...
  • Interaction between CO and PtSn alloy: a theoretical study on understanding selective CO oxidation 
    Duru, Birim. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2008., 2008.)
    The adsorption properties of CO on PtSn(110) surface were investigated via quantum mechanical calculations. The adsorption energies and the geometries of CO molecule for all possible adsorption sites were calculated. The ...
  • Investigation of bacterial infection strategies through bacteria-human protein-protein interactions by bioinformatics approaches 
    Gürses, Büşra. (Thesis (M.S.) - Bogazici University. Institute for Graduate Studies in Science and Engineering, 2014., 2014.)
    Infectious diseases, which have been a serious threat for human life in ancient times, is still leading the causes of death and disability worldwide. Pathogens (viruses, bacteria, protozoa, fungi, etc.) express a wide range ...
  • Investigation of beta-lactamase ligand binding in vivo and in silico 
    Kanlıkılıçer, Pınar. (Thesis (M.S.)-Bogazici University. Institute for Graduate Studies in Science and Engineering, 2009., 2009.)
    β-lactam antibiotics are the most commonly used antibiotics due to their high effectiveness, low cost, ease of delivery and minimal side effects. Bacteria have acquired resistance to these antibiotics. One of the mechanisms ...
  • Investigation of cell cycle network of yeast using lab-on-a-chip platform 
    Odabaşı, İrem Ezgi. (Thesis (M.S.) - Bogazici University. Institute for Graduate Studies in Science and Engineering, 2017., 2017.)
    Genome instability has long been implicated as a salient causal factor in aging and age related diseases such as cancer and neurodegeneration. However, the molecular mechanisms associated with genome instability remain ...
  • Investigation of CO hydrogenation catalysts for direct synthesis of dimethyl ether 
    Ekmen, Çiğdem. (Thesis (M.S.) - Bogazici University. Institute for Graduate Studies in Science and Engineering, 2014., 2014.)
    The aim of this work was to prepare and test bi-functional direct DME synthesis catalysts, including commercial ones, involving methanol synthesis and methanol dehydration functions. Catalyst beds were prepared by physical ...
  • Investigation of CO hydrogenation catalysts for producing oxygenated hydrocarbons 
    Kabakçı, Didem Büşra. (Thesis (M.S.) - Bogazici University. Institute for Graduate Studies in Science and Engineering, 2014., 2014.)
    The objective of this study was to test the performance of promoted rhodium catalysts supported on silica for oxygenated hydrocarbon (particularly ethanol) production by CO hydrogenation. Two different catalysts were ...

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